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List of Publications by JCM Members (since 1993)

Last update: Oct. 25, 2024

 

 

2024

Hashimoto, A., Shibata, S., Hirooka, Y., and Ohkuma, M. 2024. Phylogenetic and morphological re-evaluation of Camptophora. Antonie van Leeuwenhoek. 117: 109. PMID: 39083124.

Namwong, S., Kato, S., Iino, T., Itoh, T., Ohkuma, M., Kanchanasin, P., Phongsopitanun. W., and Tanasupawat, S. 2024. Draft genome sequence of an ubiquinone-10 roducing Methylobacterium durans LRY1-08 isolated from lichen in Thailand. Data in Brief. 54: 110485. DOI: 10.1016/j.dib.2024.110485.

Sakamoto, M., Hisatomi, A., and Ohkuma, M. 2024. Isolation and characterization of a novel Waltera species and reclassification of Brotolimicola acetigignens Hitch et al. 2022 as Waltera acetigignens comb. nov. Int. J. Syst. Evol. Microbiol. 74: 006381. PMID: 38722771.

Kaneko, M., Omori, T., Igai, K., Mabuchi, T., Sakai-Tazawa, M., Nishihara, A., Kihara, K., Yoshimura, T., Ohkuma, M., and Hongoh, Y. 2024. Facultative endosymbiosis between cellulolytic protists and methanogenic archaea in the gut of the Formosan termite Coptotermes formosanus. ISME Communications. 4: 1. PMID: 39081362.

Kobayashi, H., Tanizawa, Y., Sakamoto, M., Ohkuma, M., and Tohno, M. 2024. Lacrimispora brassicae sp. nov. isolated from fermented cabbage, and proposal of Clostridium indicum Gundawar et al. 2019 and Clostridium methoxybenzovorans Mechichi et al. 1999 as heterotypic synonyms of Lacrimispora amygdalina (Parshina et al. 2003) Haas and Blanchard 2020 and Lacrimispora indolis (McClung and McCoy 1957) Haas and Blanchard 2020, respectively. Int. J. Syst. Evol. Microbiol. 74: 006456. PMID: 39016536.

Kato., S., Tahara, Y. O., Nishimura, Y., Uematsu, K., Arai, T., Nakane, D., Ihara, A., Nishizaka, T., Iwasaki, W., Itoh, T., Miyata, M., and Ohkuma, M. 2024. Cell surface architecture of the cultivated DPANN archaeon Nanobdella aerobiophila. J. Bacteriol. 206: e0035123. PMID: 38289045.

 

 

2023

Mori, H., Kato, T., Ozawa, H., Sakamoto, M., Murakami, T., Taylor, T. D., Toyoda, A., Ohkuma, M., Kurokawa, K., and Ohno, H. 2023. Assessment of metagenomic workflows using a newly constructed human gut microbiome mock community. DNA Res. 30: dsad010. PMID: 37253538.

Tanno, H., Chatel, J.-M., Martin, R., Mariat, D., Sakamoto, M., Yamazaki, M., Salminen, S., Gueimonde, M., and Endo, A. 2023. New gene markers for classification and quantification of Faecalibacterium spp. in the human gut. FEMS. Microbiol. Ecol. 99: fiad035. PMID: 36990641.

Nakano, S., Furutani, H., Kato, S., Kouduka, M., Yamazaki, T., and Suzuki, Y. 2023. Bullet-shaped magnetosomes and metagenomic-based magnetosome gene profiles in a deep-sea hydrothermal vent chimney. Front. Microbiol. 14: 1174899. PMID: 37440886.

Iino, T., Oshima, K., Hattori, M., Ohkuma, M., and Amachi, S. 2023. Iron corrosion concomitant with nitrate reduction by Iodidimonas nitroreducens sp. nov. isolated from iodide-rich brine associated with natural gas. Front. Microbiol. 14: 1232866. PMID: 37808292.

Hisatomi, A., Ohkuma, M., and Sakamoto, M. 2023. Sellimonas catena sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 73: 005853. PMID: 37185104.

Tazawa, J., Kobayashi, H., Tanizawa, Y., Uchino, A., Tanaka, F., Urashima, Y., Miura, S., Sakamoto, M., Ohkuma, M., and Tohno, M. 2023. Clostridium folliculivorans sp. nov., isolated from soil samples of an organic paddy in Japan. Int. J. Syst. Evol. Microbiol. 73: 005876. PMID: 37103467.

Sakamoto, M., Sakurai, N., Tanno, H., Iino, T., Ohkuma, M., and Endo, A. 2023. Faecalibacterium hominis Liu et al. 2023 is a later heterotypic synonym of Faecalibacterium duncaniae Sakamoto et al. 2022. Int. J. Syst. Evol. Microbiol. 73: 005995. PMID: 37566461.

Hisatomi, A., Kastawa, N. E., Song, I., Ohkuma, M., Fukiya, S., and Sakamoto, M. 2023. Claveliimonas bilis gen. nov., sp. nov., deoxycholic acid-producing bacteria isolated from human faeces, and reclassification of Sellimonas monacensis Zenner et al. 2021 as Claveliimonas monacensis comb. nov. Int. J. Syst. Evol. Microbiol. 73: 006030. PMID: 37737068.

Takahashi, K., Kuwahara, H., Horikawa, Y., Izawa, K., Kato, D., Inagaki, T., Yuki, M., Ohkuma, M., and Hongoh, Y. 2023. Emergence of putative energy parasites within Clostridia revealed by genome analysis of a novel endosymbiotic clade. ISME J. 17: 1895-1906. PMID: 37653056.

Hamana, K., Hayashi, H., Furuchi, T., Uemura, T., Niitsu, M., Sakamoto, M., Itoh, T., and Ohkuma. M. 2023. Cellular polyamine analyses in the emended bacterial phylum Proteobacteria (the classes Acidithiobacillia, Alphaproteobacteria, Betaproteobacteria, Gammaproteobacteria, Hydrogenophilalia, and Zetaproteobacteria) and the newly validated bacterial phyla Epsilonbacteraeota, Myxococcota, and Bdellovibrionota -Polyamine catalogues of bacterial and archaeal extremophiles- (XIII). J. Jpn. Soc. Extremophiles 21: 33-56.

Noda, S., Kitade, O., Jasso-Selles, D. E., Taerum, S. J., Takayanagi, M., Radek, R., Lo, N., Ohkuma, M., and Gile, G.-H. 2023. Molecular phylogeny of Spirotrichonymphea (Parabasalia) with emphasis on Spironympha, Spirotrichonympha, and three new genera Pseudospironympha, Nanospironympha, and Brugerollina. J. Eukaryot. Microbiol. 70: e12967. PMID: 36760170.

Tokuda, M., Yuki, M., Ohkuma, M., Kimbara, K., Suzuki, H., and Shintani, M. 2023. Transconjugant range of PromA plasmids in microbial communities is predicted by sequence similarity with the bacterial host chromosome. Microb. Genom. 9: mgen001043. PMID: 37341708

Kuncharoen. N., Yuki, M., Kudo, T., Okuma, M., Booncharoen, A., Mhuantong, W., and Tanasupawat, S. 2023. Corrigendum to “Comparative genomics and proposal of Streptomyces radicis sp. nov., an endophytic actinomycete from roots of plants in Thailand” [Microbiol. Res. 254 (2022) 126889]. Microbiol. Res. 272: 127394. PMID: 37120394.

Hisatomi, A., Tourlousse, D. M., Hamajima, M., Ohkuma, M., Sekiguchi, Y., and Sakamoto, M. 2023. Complete genome sequences of Ruminococcus torques strains JCM 36208 and JCM 36209, isolated from the feces of a healthy Japanese male. Microbiol. Resour. Announc. 12: e0063223. PMID: 37800929

Kato, S., Itoh, T., Wu, L., Ma, J. and Ohkuma, M. 2023. Complete genome sequence of Vulcanisaeta souniana strain IC-059, a hyperthermophilic archaeon isolated from hot spring water in Japan. Microbiol. Resour. Announc. 12: e0108022. PMID: 36598242

Aoki, K., Yamamoto, K., Ohkuma, M., Sugita, T., Tanaka, N., and Takashima, M. 2023. Hyphal Growth in Trichosporon asahii is accelerated by the addition of magnesium. Microbiol. Spectr. 11: e04242-22. PMID: 37102973.

Kawasaki, S., Ozawa, K., Mori, T., Yamamoto, A., Ito, M., Ohkuma, M., Sakamoto, M., and Matsutani, M. 2023. Symbiosis of carpenter bees with uncharacterized lactic acid bacteria showing NAD auxotrophy. Microbiol. Spectr. 22: 00782-23. PMID: 37347191.

Masaki, T., Hashimoto, A., Degawa, Y., Ohkuma, M., and Okada, G. 2023. Harmoniella junipericola (Strobiloscyphaceae, Pezizales), a new hyphomycete inhabiting on leaf litter of Juniperus chinensis in Japan, its molecular phylogenetic classification, and brief notes on other Harmoniella species. Mycological Progress. 22: 36. DOI: 10.1007/s11557-023-01884-7.

Hashimoto, A., Shibata, S., and Ohkuma, M. 2023. Phylogenetic and morphological re‑evaluation of Antherospora on Barnardia japonica collected in Japan. Mycological Progress. 22: 87. DOI: 10.1007/s11557-023-01935z.

Anda, M., Yamanouchi, S., Cosentino, S., Sakamoto, M., Ohkuma, M., Takashima, M., Toyoda, A., and Iwasaki, W. 2023. Bacteria can maintain rRNA operons solely on plasmids for hundreds of millions of years. Nat. Commun. 14: 7232. PMID: 37963895.

Klykleung, N., Matsuo, H., Iwatsuki, M., Takahashi, Y., Ōmura, S., Yuki, M., Kudo, T., Ohkuma, M., Luechapudiporn, R., Tanasupawat, S., and Nakashima, T. 2023. Genomic analysis and physicochemical screening of ikarugamycin, fumaquinone, and a new compound, pudicin from Streptomyces sp. 3MP-14. ScienceAsia 49: 661-669. DOI: 10.2306/scienceasia1513-1874.2023.067.

Kato, S., Itoh, T., and Ohkuma, M. 2023. Nanobdella, In: Whitman, W., (ed), Bergey’s Manual of Systematics of Archaea and Bacteria, John Wiley & Sons, Hoboken. DOI: 10.1002/9781118960608.gbm01370.pub2.

Kato, S., Itoh, T., and Ohkuma, M. 2023. Nanobdellaceae, In: Whitman, W., (ed), Bergey’s Manual of Systematics of Archaea and Bacteria, John Wiley & Sons, Hoboken. DOI: 10.1002/9781118960608.fbm00272.pub2.

Kato, S., Itoh, T., and Ohkuma, M. 2023. Nanobdellales, In: Whitman, W., (ed), Bergey’s Manual of Systematics of Archaea and Bacteria, John Wiley & Sons, Hoboken. DOI: 10.1002/9781118960608.obm00129.pub2.

Kato, S., Itoh, T., and Ohkuma, M. 2023. Nanobdellia, In: Whitman, W., (ed), Bergey’s Manual of Systematics of Archaea and Bacteria, John Wiley & Sons, Hoboken. DOI: 10.1002/9781118960608.cbm00093.

Kato, S., Itoh, T., and Ohkuma, M. 2023. Nanobdellota phyl. nov. , In: Whitman, W., (ed), Bergey’s Manual of Systematics of Archaea and Bacteria, John Wiley & Sons, Hoboken. DOI: 10.1002/9781118960608.pbm00056.

 

 

2022

Kanno, N., Kato, S., Itoh, T., Ohkuma, M., and Shigeto, S. 2022. Resonance Raman analysis of intracellular vitamin B12 analogs in methanogenic archaea. Analytical Science Advances. 3: 165-173. DOI: 10.1002/ansa.202100042.

Sakamoto, M., Ikeyama, N., Iino, T., and Ohkuma, M. 2022. Growth of succinate consumer Dialister hominis is supported by Bacteroides thetaiotaomicron. Anaerobe. 77: 102642. PMID: 36113733.

Muramatsu, S., Hirose, S., Iino, T., Ohkuma, M., Hanada, S., and Haruta, S. 2022. Neotabrizicola shimadaegen. nov., sp. nov., an aerobic anoxygenic phototrophic bacterium harbouring photosynthetic genes in the family Rhodobacteraceae, isolated from a terrestrial hot spring. Antonie van Leeuwenhoek. 115: 731-740. PMID: 35380297.

Yamada, M., Endoh, R., Masumoto, H., Yoshihashi, Y., Ohkuma, M., and Degawa, Y. 2022. Taxonomic study of polymorphic basidiomycetous fungi Sirobasidium and Sirotrema: Sirobasidium apiculatum sp. nov., Phaeotremella translucens comb. nov. and rediscovery of Sirobasidium japonicum in Japan. Antonie Van Leeuwenhoek. 115: 1421-1436. PMID: 36327002.

Hayakawa, M., Tokuda, M., Kaneko, K., Nakamichi, K., Yamamoto, Y., Kamijo, T., Umeki, H., Chiba, R., Yamada, R., Mori, M., Yanagiya, K., Moriuchi, R., Yuki, M., Dohra, H., Futamata, H., Ohkuma, M., Kimbara, K., and Shintani, M. 2022. Hitherto-unnoticed self-transmissible plasmids widely distributed among different environments in Japan. Appl. Environ. Microbiol. 88: e0111422. PMID: 36069618.

Kato, S., Masuda, S., Shibata, A., Shirasu, K., and Ohkuma, M. 2022. Insights into ecological roles of uncultivated bacteria in Katase hot spring sediment from long-read metagenomics. Front. Microbiol. 13: 1045931. PMID: 36406403.

Shinkai, T., Ikeyama, N., Kumagai, M., Ohmori, H., Sakamoto, M., Ohkuma, M., and Mitsumori, M. 2022. Prevotella lacticifex sp. nov., isolated from the rumen of cows. Int. J. Syst. Evol. Microbiol. 72: 005278. PMID: 35254232.

Kato, S., Itoh, T., Iino, T., and Ohkuma, M. 2022. Sideroxyarcus emersonii gen. nov. sp. nov., a neutrophilic, microaerobic iron- and thiosulfate-oxidizing bacterium isolated from iron-rich wetland sediment. Int. J. Syst. Evol. Microbiol. 72: 005347. PMID: 35476601.

Sakamoto, M., Sakurai, N., Tanno, H., Iino, T., Ohkuma, M., and Endo, A. 2022. Genome-based, phenotypic and chemotaxonomic classification of Faecalibacterium strains: proposal of three novel species Faecalibacterium duncaniae sp. nov., Faecalibacterium hattorii sp. nov. and Faecalibacterium gallinarum sp. nov. Int. J. Syst. Evol. Microbiol. 72: 005379. PMID: 35416766.

Kato, S., Ogasawara, A., Itoh, T., Sakai, H., Shimizu, M., Yuki, M., Kaneko, M., Takashina, T., and Ohkuma, M. 2022. Nanobdella aerobiophila gen. nov., sp. nov., a thermoacidophilic, obligate ectosymbiotic archaeon, and proposal of Nanobdellaceae fam. nov., Nanobdellales ord. nov. and Nanobdellia class. nov. Int. J. Syst. Evol. Microbiol. 72: 005489. PMID: 35993221.

Tohno, M., Tanizawa, Y., Sawada, H., Sakamoto, M., Ohkuma, M., and Kobayashi, H. 2022. A novel species of lactic acid bacteria, Ligilactobacillus pabuli sp. nov., isolated from alfalfa silage. Int. J. Syst. Evol. Microbiol. 72: 005587. PMID: 36269574.

Siqueira, J. F., Jr., Sakamoto, M., and Rosado, A. S. 2022. Microbial community profiling using terminal restriction fragment length polymorphism (T-RFLP) and denaturing gradient gel electrophoresis (DGGE). Methods Mol. Biol. 2588: 91-104. PMID: 36418684.

Hamana, K., Hayashi, H., Furuchi, T., Niitsu, M., Sakamoto, M., Itoh, T., and Ohkuma, M. 2022. Additional cellular polyamine data in the twenty bacterial phyla, Acidobacteria, Armatimonadetes, Atribacterota, Balneolaeota, Chlorobi, Chloroflexi, Chrysiogenetes, Deferribacteres, Elusimicrobia, Fusobacteria, Gemmatimonadetes, Ignavibacteriae, Kiritimatiellaeota, Lentisphaerae, Nitrospirae, Planctomycetes, Rhodothermaeota, Spirochaetes, Synergistetes, and Verrucomicrobia. Microb. Resour. Syst. 38: 17-30.

Kuncharoen, N., Yuki, M., Kudo, T., Okuma, M., Booncharoen, A., Mhuantong, W., and Tanasupawat, S. 2022. Comparative genomics and proposal of Streptomyces radices sp. nov., an endophytic actinomycete from roots of plants in Thailand. Microbiol. Res. 254: 126889. PMID: 34689101.

Kinjo, Y., Bourguignon, T., Hongoh, Y., Lo, N., Tokuda, G., and Ohkuma, M. 2022. Coevolution of metabolic pathways in blattodea and their Blattabacterium endosymbionts, and comparisons with other insect-bacteria symbioses. Microbiol. Spectr. 10: 02779-22. PMID: 36094208.

Igai, K., Kitade, O., Fu, J., Omata, K., Yonezawa, T., Ohkuma, M., and Hongoh, Y. 2022. Fine-scale genetic diversity and putative ecotypes of oxymonad protists coinhabiting the hindgut of Reticulitermes speratus. Mol. Ecol. 31: 1317-1331. PMID: 34865251.

Delgado, G., Miller, A. N., Hashimoto, A., Iida, T., Ohkuma, M., and Okada, G. 2022. A phylogenetic assessment of Endocalyx (cainiaceae, xylariales) with E. grossus comb. et stat. nov. Mycol. Prog. DOI: 10.1007/s11557-021-01759-9.

Sakai, H., Nur, N., Kato, S., Yuki, M., Shimizu, M., Itoh, T., Ohkuma, M., Suwanto, A., and Kurosawa, N. 2022. Insight into the symbiotic lifestyle of DPANN archaea revealed by cultivation and genome analyses. Proc. Natl. Acad. Sci. USA 119: e2115449119. PMID: 35022241.

Aoki, H., Yuki, M., Shimizu, M., Hongoh, Y., Ohkuma, M., and Yamagata, Y. 2022. Agarose gel microcapsules enable easy-to-prepare, picolitre-scale, single-cell genomics, yielding high-coverage genome sequences. Sci. Rep. 12: 17014-17026. PMID: 36257967.

Namwonga, S., Pandeya, S., Yuki, M., Kudo, T., Ohkuma, M., and Tanasupawatc, S. 2022. Characterization, genome annotation, and antibacterial properties of Actinopolyspora saharensis BKK2. ScienceAsia 48: 635-341. DOI: 10.2306/scienceasia1513-1874.2022.087.

Kanno, N., Kato, S., Ohkuma, M., Matsui, M., Iwasaki, W., and Shigeto, S. 2022. Nondestructive microbial discrimination using single-cell Raman spectra and random forest machine learning algorithm. STAR. Protoc. 3: 101812. PMID: 36386892.

 

 

2021

Iino, T., Oshima, K., Hattori, M., Ohkuma, M., and Amachi, S. 2021. Iodidimonas gelatinilytica sp. nov., aerobic iodide-oxidizing bacteria isolated from brine water and surface seawater. Antonie van Leeuwenhoek. 114: 625–631. PMID: 33761033.

Muramatsu, F., Tonomura, M., Yamada, M., Kasahara, Y., Yamamura, S., Iino, T., and Amachi, S. 2021. Possible involvement of a tetrathionate reductase homolog in dissimilatory arsenate reduction by Anaeromyxobacter sp. strain PSR-1. Appl. Environ. Microbiol. 86: e00829-20. PMID: 32978134.

Kanchanasin, P., Yuki, M., Kudo, T., Ohkuma, M., Phongsopitanun, W., and Tanasupawat, S. 2021. Nocardia terrae sp. nov., an actinomycete isolated from soil in Thailand. Arch. Microbiol. 203: 1071-1077. PMID: 33146799.

Ochi, K., Tokuda, M., Yanagiya, K., Suzuki-Minakuchi, C., Nojiri, H., Yuki, M., Ohkuma, M., Kimbara, K., and Shintani, M. 2021. Oxygen concentration affects frequency and range of transconjugants for the incompatibility (Inc) P-1 and P-7 plasmids pBP136 and pCAR1. Biosci. Biotechnol. Biochem. 85: 1005-1015. PMID: 33580688.

Maejima, Y., Iino, T., Moriuchi, R., Kushimoto, K., Muraguchi, Y., Fukuda, K., Nojiri, H., Ohkuma, M., Dohra, H., Kimbara K., and Shintani, M. 2021. Fluviispira sanaruensis sp., nov., isolated from a brackish lake in hamamatsu, Japan. Curr. Microbiol. 78: 3268–3276. PMID: 34086078.

Wasiatus, S., Hashimoto, A., Okada, G., and Ohkuma, M. 2021. Notes on some interesting sporocarp-inhabiting fungi isolated from Xylarialean fungi in Japan. Diversity. DOI: 10.3390/d13110574.

Tanno, H., Fujii, T., Hirano, K., Maeno, S., Tonozuka, T., Sakamoto, M., Ohkuma, M., Tochio, T., and Endo, A. 2021. Characterization of fructooligosaccharide metabolism and fructooligosaccharide-degrading enzymes in human commensal butyrate producers. Gut Microbes. 13: e1869503. PMID: 33439065.

Kato, S., Ohnishi, M., Nagamori, M., Yuki, M., Takashina, T., Ohkuma, M., and Itoh, T. 2021. Conexivisphaera calida gen. nov., sp. nov., a thermophilic sulfur- and iron-reducing archaeon, and proposal of Conexivisphaeraceae fam. nov., Conexivisphaerales ord. nov., and Conexivisphaeria class. nov. in the phylum Thaumarchaeota. Int. J. Syst. Evol. Microbiol. 71: 004595. PMID: 33295866.

Suzuki-Hashido, N., Tsuchida, S., Hayakawa, T., Sakamoto, M., Azumano, A., Seino, S., Matsuda, I., Ohkuma, M., and Ushida, K. 2021. Lactobacillus nasalidis sp. nov., isolated from the forestomach of a captive proboscis monkey (Nasalis larvatus) Int. J. Syst. Evol. Microbiol. 71: 004787. PMID: 33906706.

Tohno, M., Tanizawa, Y., Kojima, Y., Sakamoto, M., Ohkuma, M., and Kobayashi, H. 2021. Lactobacillus cortices sp. nov., isolated from hardwood bark. Int. J. Syst. Evol. Microbiol. 71: 004882. PMID: 34264810.

Saeng-in, P., Kanchanasin, P., Yuki, M., Kudo, T., Ohkuma, M., Phongsopitanun, W., and Tanasupawat, S. 2021. Actinoplanes lichenicola sp. nov. and Actinoplanes ovalisporus sp. nov., isolated from lichen in Thailand. Int. J. Syst. Evol. Microbiol. 71: 004921. PMID: 34319866.

Kobayashi, H., Tanizawa, Y., Sakamoto, M., Ohkuma, M., and Tohno, M. 2021. Taxonomic status of the species Clostridium methoxybenzovorans Mechichi et al. 1999. Int. J. Syst. Evol. Microbiol. 71: 004951. PMID: 34379581.

Chen, Y., Nishihara, A., Iino, T., Ohkuma, M., and Haruta, S. 2021. Caldicellulosiruptor diazotrophicus sp. nov., a thermophilic, nitrogen-fixing fermentative bacterium isolated from a terrestrial hot spring in Japan. Int. J. Syst. Evol. Microbiol. 71: 005014. PMID: 34542397.

Kobayashi, H., Tanizawa, Y., Yagura, M., Sakamoto, M., Ohkuma, M., and Tohno, M. 2021. Clostridium zeae sp. nov., isolated from corn silage. Int. J. Syst. Evol. Microbiol. 71: 005088. PMID: 34748474.

Sakamoto, M., Ikeyama, N., Yuki, M., Murakami, T., Mori, H., Iino, T., and Ohkuma, M. 2021. Adlercreutzia hattorii sp. nov., an equol non-producing bacterium isolated from human faeces. Int. J. Syst. Evol. Microbiol. 71: 005121. PMID: 34870581.

Kanchanasin, P., Phongsopitanun, W., Yuki, M., Kudo, T., Ohkuma, M., Nakashima, T., and Tanasupawat, S. 2021. Actinomadura violacea sp. nov., a madurastatin A1-producing strain isolated from lichen in Thailand. Int. J. Syst.Evol. Microbiol. 71: 005126. PMID: 34870574.

Tohno, M., Tanizawa, Y., Kojima, Y., Sakamoto, M., Ohkuma, M., and Kobayashi, H. 2021. Lentilactobacillus fungorum sp. nov., isolated from spent mushroom substrates. Int. J. Syst. Evol. Microbiol. 71: 005184. PMID: 34913426.

Kanno, N., Kato, S., Ohkuma, M., Matsui, M., Iwasaki, W., and Shigeto, S. 2021. Machine learning-assisted single-cell Raman fingerprinting for in situ and nondestructive classification of prokaryotes. iScience. 24: 102975.　PMID: 34485857.

Songsumanus, A., Tanasupawat, S., Songsumanus, A., Kuncharoen, N., Kudo, T., Yuki, M., Ohkuma, M., and Igarashi, Y. 2021. Actinomadura decatromicini sp. nov., isolated from mountain soil in Thailand. J. Antibiot. 74: 51-28. PMID: 32724099.

Sakamoto, M., Ikeyama, N., Toyoda, A., Murakami, T., Mori, H., Morohoshi, S., Kunihiro, T., Iino, T., and Ohkuma, M. 2021. Coprobacter secundus subsp. similis subsp. nov. and Solibaculum mannosilyticum gen. nov., sp. nov., isolated from human feces. Microbiol. Immunol. 65: 245-256. PMID: 33913539.

Ogata, Y., Sakamoto, M., Ohkuma, M., Hattori, M., and Suda, W. 2021. Complete genome sequence of Longicatena caecimuris strain 3BBH23, isolated from healthy japanese feces. Microbiol. Resour. Announc. 10: e00282-21. PMID: 34016676.

Omokawa, H., Kurosawa, N., Kato, S., Itoh, T., Ohkuma, M. and Sakai, H. 2021. Complete genome sequence of a novel Sulfolobales archaeon strain, HS-7, isolated from the unzen hot spring in Japan. Microbiol. Resour. Announc. 10: e00582-21. PMID: 34553995.

Ogata, Y., Sakamoto, M., Kumar, N., Ohkuma, M., Hattori, M., and Suda, W. 2021. Complete genome sequence of Megamonas funiformis strain 1CBH44, isolated from human feces. Microbiol. Resour. Announc. 10: e00785-21. PMID: 34854722.

Ogata, Y., Sakamoto, M., Ohkuma, M., Hattori, M., and Suda, W. 2021. Complete genome sequence of Alistipes indistinctus strain 2BBH45, isolated from the feces of a healthy japanese male. Microbiol. Resour. Announc. 10: e01284-20. PMID: 33446594.

Tourlousse, D. M., Narita, K., Miura, T., Sakamoto, M., Ohashi, A., Shiina, K., Matsuda, M., Miura, D., Shimamura, M., Ohyama, Y., Yamazoe, A., Uchino, Y., Kameyama, K., Arioka, S., Kataoka, J., Hisada, T., Fujii, K., Takahashi, S., Kuroiwa, M., Rokushima, M., Nishiyama, M., Tanaka, Y., Fuchikami, T., Aoki, H., Kira, S., Koyanagi, R., Naito, T., Nishiwaki, M., Kumagai, H., Konda, M., Kasahara, K., Ohkuma, M., Kawasaki, H., Sekiguchi, Y., and Terauchi, J. 2021. Validation and standardization of DNA extraction and library construction methods for metagenomics-based human fecal microbiome measurements. Microbiome. 9: 95. PMID: 33910647.

Endoh, R., Horiyama, M., and Ohkuma, M. 2021. D-Fructose assimilation and fermentation by yeasts belonging to saccharomycetes: rediscovery of universal phenotypes and elucidation of fructophilic behaviors in Ambrosiozyma platypodis and Cyberlindnera americana. Microorganisms. 9: 758. PMID: 33916327.

Ikeyama, N., Sakamoto, M., Ohkuma, M., Hiramoto, S., Wang, J., Tone, S., and Shiiba, K. 2021. Fecal microbiota perspective for evaluation of prebiotic potential of bamboo hemicellulose hydrolysate in mice: A preliminary study. Microorganisms. 9: 888. PMID: 33919296.

Iino, T., Shono, N., Ito, K., Nakamura, R., Sueoka, K., Harayama, S., and Ohkuma, M. 2021. Nitrite as a causal factor for nitrate‐dependent anaerobic corrosion of metallic iron induced by Prolixibacter strains. Microbiologyopen. 10: e1225. PMID: 34459557.

Kato, S. and Ohkuma, M. 2021. A single bacterium capable of oxidation and reduction of iron at circumneutral pH. Microbiol. Spectr. 9: 00161-21.　PMID: 34431720.

Shi, W., Sun, Q., Fan, G., Sugawara, H., Ohkuma, M., Itoh, T., Zhou, Y., Cai, M., Kim, S.-G., Lee, J.-S., Sedlacek, I., Arahal, D. R., Lucena, T., Kawasaki, H., Evtushenko, L., Weir, B. S., Alexander, S., Dénes, D., Tanasupawat, S., Eurwilaichitr, L., Ingsriswang, S., Gomez-Gil, B., Hazbón, M. H., Riojas, M. A., Suwannachart, C., Yao, S., Vandamme, P., Peng, F., Chen, Z., Liu, D., Sun, X., Zhang, X., Zhou, Y., Meng, Z., Wu, L., and Ma, J. 2021. gcType: a high-quality type strain genome database for microbial phylogenetic and functional research. Nucleic. Acids. Res. 49: D694-D705. PMID: 33119759.

Gile, G, H., Taerum, S, J., Jasso-Selles, D, E., Sillam-Dussès, D., Ohkuma, M., Kitade, O., and Noda, S. Molecular phylogenetic position of Microjoenia (Parabasalia: Spirotrichonymphea) from Reticulitermes and Hodotermopsis termite hosts. 2021. Protist. 172: 125836. DOI: 10.1016/j.protis.2021.125836.

 

 

 

2020

Takaki, K., Tahara, YO,. Nakamichi, N., Hasegawa, Y., Shintani, M., Ohkuma, M., Miyata, M., Futamata, H., and Tashiro, Y. 2020. Multilamellar and multivesicular outer membrane vesicles produced by a Buttiauxella agrestis tolB mutant. Appl. Environ. Microbiol. 86: :e01131-20. PMID: 32801184.

Klykleung, N., Yuki, M., Kudo, T., Ohkuma, M., Phongsopitanun, W., Pittayakhajonwut, P., and Tanasupawat, S. 2020. Nonomuraea phyllanthi sp. nov., an endophytic actinomycete isolated from the leaf of Phyllanthus amarus. Arch. Microbiol. 202: 55-61. PMID: 31463600.

Bourguignon, T., Kinjo, Y., Villa-Martín, P,. Coleman, N. V., Tang, Q., Arab, D. A., Wang, Z., Tokuda, G., Hongoh, Y., Ohkuma, M., Ho, S. Y. W., Pigolotti, S., and Lo, N. 2020. Increased mutation rate is linked to genome reduction in prokaryotes. Curr. Biol. 30: 3848-3855. PMID: 32763167.

Maejima, Y., Iino, T., Muraguchi, Y., Fukuda, K., Ohkuma, M., Suzuki, T., Moriuchi, R., Dohra, H., Kimbara, K., and Shintani, M. 2020. Chryseotalea sanaruensis gen. nov., sp., nov., a member of the family Cytophagaceae, isolated from a brackish lake in Hamamatsu Japan. Curr. Microbiol. 77: 306-312. PMID: 31792570.

Namwong, S., Yuki, M., Kudo, T., Ohkuma, M., and Itoh, T. 2020. Genome sequencing identified a novel lasso peptide. Eurasia. J. Biosci. 14: 7933-7941.

Sato, T., Takada, D., Itoh, T., Ohkuma, M., and Atomi, H. 2020. Integration of large heterologous DNA fragments into the genome of Thermococcus kodakarensis. Extremophiles 24: 339-353. PMID: 32112303.

Nishimura, Y., Kume, K., Sonehara, K., Tanifuji, G., Shiratori, T., Ishida, K., Hashimoto, T., Inagaki, Y., and Ohkuma, M. 2020. Mitochondrial genomes of Hemiarma marina and Leucocryptos marina revised the evolution of cytochrome c maturation in cryptista. Front. Ecol. Evol. 8: 140. DOI: 10.3389/fevo.2020.00140.

Kanchanasin, P., Yuki, M., Kudo, T., Ohkuma, M., Kuncharoen, N., Phongsopitanun, W., and Tanasupawat, S. 2020. Streptomyces bauhiniae sp. nov., isolated from tree bark of Bauhinia variegata Linn. in Thailand. Int. J. Syst. Evol. Microbiol. 70: 228-233. PMID: 31592758.

Sakamoto, M., Ikeyama, N., Ogata, Y., Suda, W., Iino, T., Hattori, M., and Ohkuma, M. 2020. Alistipes communis sp. nov., Alistipes dispar sp. nov. and Alistipes onderdonkii subsp. vulgaris subsp. nov., isolated from human faeces, and creation of Alistipes onderdonkii subsp. onderdonkii subsp. nov. Int. J. Syst. Evol. Microbiol. 70: 473-480. PMID: 31633480.

Sakamoto, M., Ikeyama, N., Toyoda, A., Murakami, T., Mori, H., Iino, T., and Ohkuma, M. 2020. Dialister hominis sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 70: 589-595. PMID: 31661048.

Klykleung, N., Yuki, M., Kudo, T., Ohkuma, M., Phongsopitanun, W., Pittayakhajonwut, P., and Tanasupawat, S. 2020. Microbispora catharanthi sp. nov., a novel endophytic actinomycete isolated from the root of Catharanthus roseus. Int. J. Syst. Evol. Microbiol. 70: 964-970. PMID: 31730033.

Iino, T., Kawai, S., Yuki, M., Dekio, I., Ohkuma, M., and Haruta S. 2020. Thermaurantimonas aggregans gen. nov., sp. nov., a moderately thermophilic heterotrophic aggregating bacterium isolated from microbial mats at a terrestrial hot spring. Int. J. Syst. Evol. Microbiol. 70: 1117-1121. PMID: 31778354.

Itoh, T., Miura, T., Sakai, H. D., Kato, S., Ohkuma, M., and Takashina, T. 2020. Sulfuracidifex tepidarius gen. nov., sp. nov. and transfer of Sulfolobus metallicus Huber and Stetter 1992 to the genus Sulfuracidifex as Sulfuracidifex metallicus comb. nov. Int. J. Syst. Evol. Microbiol. 70: 1837-1842. PMID: 31958046.

Dekio, I., Sakamoto, M., Suzuki, T., Yuki, M., Kinoshita, S., Murakami, Y., and Ohkuma, M. 2020. Cutibacterium modestum sp. nov., isolated from meibum of human meibomian glands, and emended descriptions of Cutibacterium granulosum and Cutibacterium namnetense. Int. J. Syst. Evol. Microbiol. 70: 2457-2462. PMID: 32559834.

Kobayashi, H., Tanizawa, Y., Sakamoto, M., Nakamura, Y., Ohkuma, M., and Tohno, M. 2020. Reclassification of Clostridium diolis Biebl and Spröer 2003 as a later heterotypic synonym of Clostridium beijerinckii Donker 1926 (Approved Lists 1980) emend. Keis et al. 2001. Int. J. Syst. Evol. Microbiol. 70: 2463-2466. PMID: 32068529.

Tanizawa, Y., Kobayashi, H., Nomura, M., Sakamoto, M., Arita, M., Nakamura, Y., Ohkuma, M., and Tohno, M. 2020. Lactobacillus buchneri subsp. silagei subsp. nov., isolated from rice grain silage. Int. J. Syst. Evol. Microbiol. 70: 3111-3116. PMID: 32250236.

Klykleung, N., Yuki, M., Kudo, T., Ohkuma, M., Phongsopitanun, W., Inahashi, Y., Matsumoto, A., and Tanasupawat, S. 2020. Streptomyces mimosae sp. nov., an endophytic actinomycete isolated from the root of Mimosa pudica in Thailand. Int. J. Syst. Evol. Microbiol. 70: 3316-3322. PMID: 32375984.

Sorokin, D. Y., Merkel, A. Y., Messina, E., Yakimov, M. M., Itoh, T., Mesbah, N. M., Wiegel, J., and Oren, A. 2020. Reclassification of the genus Natronolimnobius: proposal of two new genera, Natronolimnohabitans gen. nov. to accommodate Natronolimnobius innermongolicus and Natrarchaeobaculum gen. nov. to accommodate Natronolimnobius aegyptiacus and Natronolimnobius sulfurireducens. Int. J. Syst. Evol. Microbiol. 70: 3399-3405. PMID: 32374250.

Ikeyama, N., Toyoda, A., Morohoshi, S., Kunihiro, T., Murakami, T., Mori, H., Iino, T., Ohkuma, M., and Sakamoto M. 2020. Amedibacterium intestinale gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium dolichum Moore et al. 1976 (Approved Lists 1980) as Amedibacillus dolichus gen. nov., comb. nov. Int. J. Syst. Evol. Microbiol. 70: 3656-3664. PMID: 32416738.

Noda, S., Koyama, F., Aihara, C., Ikeyama, N., Yuki, M., Ohkuma M, and Sakamoto, M. 2020. Lactococcus insecticola sp. nov. and Lactococcus hodotermopsidis sp. nov., isolated from the gut of the wood-feeding lower termite Hodotermopsis sjostedti. Int. J. Syst. Evol. Microbiol. 70: 4515-4522. PMID: 32614762.

Liou, J.-S., Huang, C.-H., Ikeyama, N., Lee, A.-Y., Chen, I-C., Blom, J., Chen, C.-C., Chen, C.-H., Lin, Y.-C., Hsieh, S.-Y., Huang, L., Ohkuma, M., Watanabe, K., and Sakamoto, M. 2020. Prevotella hominis sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 70: 4767-4773. PMID: 32697186.

Kanchanasin, P., Yuki, M., Kudo, T., Ohkuma, M., Phongsopitanun, W., and Tanasupawat, S. 2020. Nocardia aurantiaca sp. nov., isolated from soil in Thailand. Int. J. Syst. Evol. Microbiol. 70: 5432-5438. PMID: 32897850.

Enomoto, S., Shimane, Y., Ihara, K., Kamekura, M., Itoh, T., Ohkuma, M., Takahashi-Ando, N., Fukushima, Y., Yoshida, Y., Usami, R., Takai, K., and Minegishi, H. 2020. Haloarcula mannanilytica sp. nov., a galactomannan-degrading haloarchaeon isolated from commercial salt. Int. J. Syst. Evol. Microbiol. 70: 6331-6337. PMID: 33095133.

Takeuchi, M., Kuwahara, H., Murakami, T., Takahashi, K., Kajitani, R., Toyoda, A., Itoh, T., Ohkuma, M., and Hongoh, Y. 2020. Parallel reductive genome evolution in Desulfovibrio ectosymbionts independently acquired by Trichonympha protists in the termite gut. ISME J. 14: 2288-2301. PMID: 32483307.

Nishimura, Y., Otagiri, M., Yuki, M., Shimizu, M., Inoue, J., Moriya, S., and Ohkuma, M. 2020. Division of functional roles for termite gut protists revealed by single-cell transcriptomes. ISME J. 14: 2449-2460. PMID: 32514117.

Takashima, M., Manabe, R., and Ohkuma, M. 2020. Draft genome sequence of oleaginous yeast Saitozyma sp. strain JCM 24511, isolated from soil on iriomote island, okinawa, japan. Microbiol. Resour. Announc. 9: e00196-20. PMID: 33239459.

Sakamoto, M., Ikeyama, N., Toyoda, A., Murakami, T., Mori, H., and Ohkuma, M. 2020. Complete genome sequence of Faecalibacillus intestinalis JCM 34082, isolated from feces from a healthy japanese female. Microbiol. Resour. Announc. 9: e01160-20. PMID: 33303667.

Ogata, Y., Sakamoto, M., Ohkuma, M., Hattori, M., and Suda, W. 2020. Complete genome sequence of Adlercreutzia sp. Strain 8CFCBH1, a potent producer of equol, isolated from healthy japanese feces. Microbiol. Resour. Announc. 9: e01240-20. PMID: 33273007.

Ogata, Y., Sakamoto, M., Ohkuma, M., Hattori, M., and Suda, W. 2020. Complete genome sequence of Akkermansia muciniphila JCM 30893, isolated from feces of a healthy Japanese male. Microbiol. Resour. Announc. 9: e01543-19. PMID: 32054713.

Tourlousse, D. M., Sakamoto, M., Miura, T., Narita, K., Ohashi, A., Uchino, Y., Yamazoe, A., Kameyama, K., Terauchi, J., Ohkuma, M., Kawasaki, H., and Sekiguchi, Y. 2020. Complete genome sequence of Collinsella aerofaciens JCM 10188T. Microbiol. Resour. Announc. 9: e00134-20. PMID: 32299873.

Tourlousse, D. M., Sakamoto, M., Miura, T., Narita, K., Ohashi, A., Uchino, Y., Yamazoe, A., Kameyama, K., Terauchi, J., Ohkuma, M., Kawasaki, H., and Sekiguchi, Y. 2020. Complete genome sequence of Flavonifractor plautiiJCM 32125T. Microbiol. Resour. Announc. 9: e00135-20. PMID: 32327522.

Tourlousse, D. M., Sakamoto, M., Miura, T., Narita, K., Ohashi, A., Uchino, Y., Yamazoe, A., Kameyama, K., Terauchi, J., Ohkuma, M., Kawasaki, H., and Sekiguchi, Y. 2020. Complete genome sequence of Blautia producta JCM 1471T. Microbiol. Resour. Announc. 9: e00141-20. PMID: 32327523.

Tourlousse, D. M., Sakamoto, M., Miura, T., Narita, K., Ohashi, A., Uchino, Y., Yamazoe, A., Kameyama, K., Terauchi, J., Ohkuma, M., Kawasaki, H., and Sekiguchi, Y. 2020. Complete genome sequence of Megamonas funiformis JCM 14723T. Microbiol. Resour. Announc. 9: e00142-20. PMID: 32299874.

Kato, S., Itoh, T., and Ohkuma, M. 2020. Complete genome sequence of Athalassotoga saccharophila strain NAS-01, a deep-branching thermophilic lineage in the phylum Thermotogae. Microbiol. Resour. Announc. 9: 00322-20. PMID: 32299888.

Ikeyama, N., Murakami, T., Toyoda, A., Mori, H., Iino, T., Ohkuma, M., and Sakamoto, M. 2020. Microbial interaction between the succinate‐utilizing bacterium Phascolarctobacterium faecium and the gut commensal Bacteroides thetaiotaomicron. MicrobiologyOpen. 9: e1111. PMID: 32856395.

Ikeyama, N., Ohkuma, M., and Sakamoto, M. 2020. Stress response of Mesosutterella multiformis mediated by nitrate reduction. Microorganisms. 8: 2003. PMID: 33333944.

 

 

 

2019

Kuncharoen, N., Kudo, T., Ohkuma, M., and Tanasupawat, S. 2019. Micromonospora azadirachtae sp. nov., isolated from roots of Azadirachta indica A. Juss. var. siamensis Valeton. Antonie van Leeuwenhoek 112: 253-262. PMID: 30167912.

Ridwan, R., Rusmana, I., Widyastuti, Y., Wiryawan, K. G., Prasetya, B., Sakamoto, M., and Ohkuma, M. 2019. Bacteria and methanogen community in the rumen fed different levels of grass-legume silages. Biodiversitas 20: 1055-1062. DOI: 10.13057/biodiv/d200417.

Sriswasdi, S., Takashima, M., Manabe, R., Ohkuma, M., and Iwasaki, W. 2019. Genome and transcriptome evolve separately in recently hybridized Trichosporon fungi. Commun. Biol. 2 263. PMID: 31341962.

Murakami, T., Onouchi, S., Igai, K., Ohkuma, M., and Hongoh, Y. 2019. Ectosymbiotic bacterial microbiota densely colonize the surface of thelastomatid nematodes in the gut of the wood-feeding cockroach Panesthia angustipennis. FEMS. Microbiol. Ecol. 95: fiy238. PMID: 30561598.

Naradasu, D., Miran, W., Sakamoto, M., and Okamoto, A. 2019. Isolation and characterization of human gut bacteria capable of extracellular electron transport by electrochemical techniques. Front. Microbiol. 9: 3267. PMID: 30697198.

Takashima, M., Manabe, R., Nishimura, Y., Endoh, R., Ohkuma, M., Sriswasdi, S., Sugita, T., and Iwasaki, W. 2019. Recognition and delineation of yeast genera based on genomic data: Lessons from Trichosporonales. Fungal Genet. Biol. 130: 31-42. PMID: 31026590.

Kobayashi, H., Tanizawa, Y., Sakamoto, M., Nakamura, Y., Ohkuma, M., and Tohno, M. 2019. Reclassification of Paenibacillus thermophilus Zhou et al. 2013 as a later heterotypic synonym of Paenibacillus macerans (Schardinger 1905) Ash et al. 1994. Int. J. Syst. Evol. Microbiol. 69: 417-421. PMID: 30540240.

Tohno, M., Tanizawa, Y., Kojima, Y., Sakamoto, M., Nakamura, Y., Ohkuma, M., and Kobayashi, H. 2019. Lactobacillus salitolerans sp. nov., a novel lactic acid bacterium isolated from spent mushroom substrates. Int. J. Syst. Evol. Microbiol. 69: 964-969. PMID: 30628884.

Dekio, I., McDowell, A., Sakamoto, M., Tomida, S., and Ohkuma, M. 2019. Proposal of new combination, Cutibacterium acnes subsp. elongatum comb. nov., and emended descriptions of the genus Cutibacterium, Cutibacterium acnes subsp. acnes and Cutibacterium acnes subsp. defendens. Int. J. Syst. Evol. Microbiol. 69: 1087-1092. PMID: 30762517.

Sakamoto, M., Ikeyama, N., Murakami, T., Mori, H., Yuki, M., and Ohkuma, M. 2019. Comparative genomics of Parolsenella catena and Libanicoccus massiliensis: reclassification of Libanicoccus massiliensis as Parolsenella massiliensis comb. nov. Int. J. Syst. Evol. Microbiol. 69: 1123-1129. PMID: 30762516.

Thawai, C., Tanasupawat, S., and Kudo, T. 2019. Micromonospora caldifontis sp. nov., isolated from hot spring soil. Int. J. Syst. Evol. Microbiol. 69: 1336-1342. PMID: 30810517.

Maejima, Y., Iino, T., Muraguchi, Y., Ohkuma, M., Kimbara, K., and Shintani, M. 2019. Algoriphagus sanaruensis sp. nov., a member of the family Cyclobacteriaceae, isolated from a brackish lake in Hamamatsu, Japan. Int. J. Syst. Evol. Microbiol. 69: 2108-2113. PMID: 31663498.

Kunthiphun, S., Wattanagonniyom, T., Endoh, R., Takashima, M., Ohkuma, M., Tanasupawat, S., and Savarajara, A. 2019. Heterocephalacria mucosa sp. nov., a new basidiomycetous yeast species isolated from a mangrove forest in Thailand. Int. J. Syst. Evol. Microbiol. 69: 2823-2827. PMID: 31259676.

Kuncharoen, N., Kudo, T., Yuki, M., Okuma, M., Pittayakhajonwut, P., and Tanasupawat, S. 2019. Micromonospora radicis sp. nov., isolated from roots of Azadirachta indica var. siamensis Valenton, and reclassification of Jishengella zingiberis as Micromonospora zingiberis comb. nov. Int. J. Syst. Evol. Microbiol. 69: 2884-2891. PMID: 31310194.

Utami, Y. D., Kuwahara, H., Igai, K., Murakami, T., Sugaya, K., Morikawa, T., Nagura, Y., Yuki, M., Deevong, P., Inoue, T., Kihara, K., Lo, N., Yamada, A., Ohkuma, M., and Hongoh, Y. 2019. Genome analyses of uncultured TG2/ZB3 bacteria in ‘Margulisbacteria’ specifically attached to ectosymbiotic spirochetes of protists in the termite gut. ISME J. 13: 455-467. PMID: 30287885.

Kato, S., Itoh, T., Yuki, M., Nagamori, M., Ohnishi, M., Uematsu, K., Suzuki, K., Takashina, T., and Ohkuma, M. 2019. Isolation and characterization of a thermophilic sulfur- and iron-reducing thaumarchaeote from a terrestrial acidic hot spring. ISME J. 13: 2465-2474. PMID: 31171857.

Shintani, M., Ohkuma, M., and Kimbara, K. 2019. High-resolution comparison of bacterial conjugation frequencies. J. Vis. Exp. 143: e57812. PMID: 30688297.

Takashima, M., and Sugita, T. 2019. Draft genome analysis of trichosporonales species that contribute to the taxonomy of the genus Trichosporon and related taxa. Med. Mycol. J. 60: 51-57 PMID: 31155572.

Kunthiphun, S., Endoh, R., Takashima, M., Ohkuma, M., Tanasupawat, S., and Savarajara, A. 2019. Prototheca paracutis sp. nov., a novel oleaginous achlorophyllous microalga isolated from a mangrove forest. Mycoscience 60: 165-169 DOI: 10.1016/j.myc.2019.02.003.

Kato, S., Nakano, S., Kouduka, M., Hirai, M., Suzuki, K., Itoh, T., Ohkuma, M., and Suzuki, Y. 2019. Metabolic potential of as-yet-uncultured archaeal lineages of Candidatus hydrothermarchaeota thriving in deep-sea metal sulfide deposits. Microbes. Environ. 34: 293-303. PMID: 31378759.

Ikeyama, N., Ohkuma, M., and Sakamoto, M. 2019. Draft genome sequence of Mesosutterella multiformis JCM 32464T, a member of the family Sutterellaceae, isolated from human feces. Microbiol. Resour. Announc. 8: e00478-19. PMID: 31196925.

Ogata, Y., Suda, W., Ikeyama, N., Hattori, M., Ohkuma, M., and Sakamoto, M. 2019. Complete genome sequence of Phascolarctobacterium faecium JCM 30894, a succinate-utilizing bacterium isolated from human feces. Microbiol. Resour. Announc. 8: e01487-18. PMID: 30687834.

Takashima, M., Manabe, R., and Ohkuma, M. 2019. Draft genome sequences of basidiomycetous epiphytic phylloplane yeast type strains Dioszegia crocea JCM 2961 and Dioszegia aurantiaca JCM 2956. Microbiol. Resour. Announc. 8: e01727-18. PMID: 31248996.

Kato, S., Hirai, M., Ohkuma, M., and Suzuki, K. 2019. Microbial metabolisms in an abyssal ferromanganese crust from the Takuyo-Daigo seamount as revealed by metagenomics. PLOS ONE 14: e0224888. PMID: 31703093.

Nishimura, Y., Shiratori, T., Ishida, K., Hashimoto, T., Ohkuma, M., and Inagaki, Y. 2019. Horizontally-acquired genetic elements in the mitochondrial genome of a centrohelid Marophrys sp. SRT127. Sci. Rep. 9: 4850. PMID: 30890720.

Kuncharoen, N., Kudo, T., Yuki, M., Okuma, M., Booncharoen, A., and Tanasupawat, S. 2019. Micromonospora musae sp. nov., an endophytic actinomycete isolated from roots of Musa species. Syst. Appl. Microbiol. 42: 126020. PMID: 31601450.

Takashima, M., Suh, S,-O., Bai, F,-Y., and Sugita, T. 2019. Takashi Nakase’s last tweet: what is the current direction of microbial taxonomy research? FEMS. Yeast. Res. 19 foz066. PMID: 31816016.

 

 

 

2018

Shen, X.-X., Opulente, D. A., Kominek, J., Zhou, X., Steenwyk, J. L., Buh, K. V., Haase, M. A. B., Wisecaver, J. H., Wang, M., Doering, D. T., Boudouris, J. T., Schneider, R. M., Langdon, Q. K., Ohkuma, M., Endoh, R., Takashima, M., Manabe, R.-I., Čadež, N., Libkind, D., Rosa, C. A., DeVirgilio, J., Hulfachor, A. B., Groenewald, M., Kurtzman, C. P., Hittinger, C. T., and Rokas, A. 2018. Tempo and mode of genome evolution in the budding yeast subphylum. Cell 175: 1533-1545. PMID: 30415838.

Yanagiya, K., Maejima, Y., Nakata, H., Tokuda, M., Moriuchi, R., Dohra, H., Inoue, K., Ohkuma, M., Kimbara, K., and Shintani, M. 2018. Novel self-transmissible and broad-host-range plasmids exogenously captured from anaerobic granules or cow manure. Front. Microbiol. 9: 2602. PMID: 30459733.

Noda, S., Aihara, C., Yuki, M., and Ohkuma, M. 2018. Draft genome sequence of Lactococcus sp. strain NtB2 (JCM 32569), isolated from the gut of the higher termite Nasutitermes takasagoensis. Genome Announc. 6: e00445-18. PMID: 29903810.

Sakamoto, M., Ikeyama, N., Yuki, M., and Ohkuma, M. 2018. Draft genome sequence of Lawsonibacter asaccharolyticus JCM 32166T, a butyrate-producing bacterium, isolated from human feces. Genome Announc. 6: e00563-18. PMID: 29930067.

Kinjo, Y,. Bourguignon, T., Tong, K. J., Kuwahara, H., Lim, S. J., Yoon, K. B., Shigenobu, S., Park, Y, C., Nalepa, C, A., Hongoh, Y., Ohkuma, M., Lo, N., and Tokuda, G. 2018. Parallel and gradual genome erosion in the Blattabacterium endosymbionts of Mastotermes darwiniensis and Cryptocercus wood roaches. Genome Biol. Evol. 10: 1622-1630. PMID: 29860278.

Wu, L., McCluskey, K., Desmeth, P., Liu, S., Sugawara, H., Yin, Y., Ohkuma, M., Itoh, T., Kim, C. Y., Lee, J.-S., Zhou, Y., Kawasaki, H., Hazbón, M. H., Robert, V., Boekhout, T., Lima, N., Evtushenko, L., Boundy-Mill, K., Bunk, B., Moore, E. R. B., Eurwilaichitr, L., Ingsriswang, S., Shah, H., Yao, S., Jin, T., Huang, J., Shi, W., Sun, Q., Fan, G., Li, W., Li, X., Kurtböke, I., and Ma, J. 2018. The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species. Gigascience 7: giy026. PMID: 29718202.

Yuki, M., Sakamoto, M., Nishimura, Y., and Ohkuma, M. 2018. Lactococcus reticulitermitis sp. nov., isolated from the gut of the subterranean termite Reticulitermes speratus. Int. J. Syst. Evol. Microbiol. 68: 596-601. PMID: 29300157.

Sakamoto, M., Iino, T., Hamada, M., and Ohkuma, M. 2018. Parolsenella catena gen. nov., sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 68: 1165-1172. PMID: 29458507.

Penkhrue, W., Sujarit, K., Kudo, T., Ohkuma, M., Masaki, K., Aizawa, T., Pathom-Aree, W., Khanongnuch, C., and Lumyong, S. 2018. Amycolatopsis oliviviridis sp. nov., a novel polylactic acid-bioplastic-degrading actinomycete isolated from paddy soil. Int. J. Syst. Evol. Microbiol. 68: 1448-1454. PMID: 29517482.

Chiba, M., Itabashi, T., Hirai, K., Sakamoto, M., Ohkuma, M., Ishige, T., and Kawasaki, S. 2018. Lactobacillus metriopterae sp. nov., a novel lactic acid bacterium isolated from the gut of grasshopper Metrioptera engelhardti. Int. J. Syst. Evol. Microbiol. 68: 1484-1489. PMID: 29543150.

Sakamoto, M., Iino, T., Yuki, M., and Ohkuma, M. 2018. Lawsonibacter asaccharolyticus gen. nov., sp. nov., a butyrate-producing bacterium isolated from human faeces. Int. J. Syst. Evol. Microbiol. 68: 2074-2081. PMID: 29745868.

Sujarit, K., Kudo, T., Ohkuma, M., Pathom-Aree, W., and Lumyong, S. 2018. Streptomyces venetus sp. nov., an actinomycete with a blue aerial mycelium. Int. J. Syst. Evol. Microbiol. 68: 3333-3339. PMID: 30168790.

Tanizawa, Y., Tada, I., Kobayashi, H., Endo, A., Maeno, S., Toyoda, A., Arita, M., Nakamura, Y., Sakamoto, M., Ohkuma, M., and Tohno, M. 2018. Lactobacillus paragasseri sp. nov., a sister taxon of Lactobacillus gasseri, based on whole-genome sequence analyses. Int. J. Syst. Evol. Microbiol. 68: 3512-3517. PMID: 30226464.

Noda, S., Sakamoto, M., Aihara, C., Yuki, M., Katsuhara, M., and Ohkuma, M. 2018. Lactococcus termiticola sp. nov., isolated from the gut of the wood-feeding higher termite Nasutitermes takasagoensis. Int. J. Syst. Evol. Microbiol. 68: 3832-3836. PMID: 30320546.

Sakamoto, M., Ikeyama, N., Kunihiro, T., Iino, T., Yuki, M., and Ohkuma, M. 2018. Mesosutterella multiformis gen. nov., sp. nov., a member of the family Sutterellaceae and Sutterella megalosphaeroides sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 68: 3942-3950. PMID: 30394865.

Thawai, C., Kanchanasin, P., Ohkuma, M., Kudo, T., and Tanasupawat, S. 2018. Identification and antimicrobial activity of Micromonospora strains from Thai peat swamp forest soils. J. Appl. Pharm. Sci. 8: 119-125. DOI: 10.7324/JAPS.2018.8417.

Noda, S., Shimizu, D., Yuki, M., Kitade, O., and Ohkuma, M. 2018. Host-symbiont cospeciation of termite-gut cellulolytic protists of the genera Teranympha and Eucomonympha and their Treponema endosymbionts. Microbes Environ. 33: 26-33. PMID: 29367472.

Utami, Y, D., Kuwahara, H., Murakami, T., Morikawa, T., Sugaya, K., Kihara, K., Yuki, M., Lo, N., Deevong, P., Hasin, S., Boonriam, W., Inoue, T., Yamada, A., Ohkuma, M., and Hongoh, Y. 2018. Phylogenetic diversity and single-cell genome analysis of “Melainabacteria“, a non-photosynthetic cyanobacterial group, in the termite gut. Microbes Environ. 33: 50-57. PMID: 29415909.

Kato, S., Yuki, M., Itoh, T., and Ohkuma, M. 2018. Complete genome sequence of Ferriphaselus amnicola strain OYT1, a neutrophilic, stalk forming, iron-oxidizing bacterium. Microbiol. Resour. Announc. 7: e00911-18. PMID: 30533675.

Sakamoto, M., Ikeyama, N., Yuki, M., and Ohkuma, M. 2018. Draft genome sequence of Faecalimonas umbilicata JCM 30896T, an acetate-producing bacterium isolated from human feces. Microbiol. Resour. Announc. 7: e01091-18. PMID: 30533935.

Hazbón, M. H., Rigouts, L., Schito, M., Ezewudo, M., Kudo, T., Itoh, T., Ohkuma, M., Kiss, K., Wu, L., Ma, J., Hamada, M., Strong, M., Salfinger, M., Daley, C. L., Nick, J. A., Lee, J.-S., Rastogi, N., Couvin, D., Hurtado-Ortiz, R., Bizet, C., Suresh, A., Rodwell, T., Albertini, A., Lacourciere, K. A., Deheer-Graham, A., Alexander, S., Russell, J. E., Bradford, R., and Riojas, M. A. 2018. Mycobacterial biomaterials and resources for researchers. Pathog. Dis. 76: fty042. PMID: 29846561.

Tanimura, A., Sugita, T., Endoh, R., Ohkuma, M., Kishino, S., Ogawa, J., Shima, J., and Takashima, M. 2018. Lipid production via simultaneous conversion of glucose and xylose by a novel yeast, Cystobasidium iriomotense. PLOS ONE 13: e0202164. PMID: 30208038.

Suzuki, S., Endoh, R., Manabe, R., Ohkuma, M., and Hirakawa, Y. 2018. Multiple losses of photosynthesis and convergent reductive genome evolution in the colourless green algae Prototheca. Sci. Rep. 8: 940. PMID: 29343788.

Hashimoto, A., Hirayama, K., Takahashi, H., Matsumura, M., Okada, G., Chen, C. Y., Huang, J. W., Kakishima M., Ono, T., and Tanaka, K. 2018. Resolving the Lophiostoma bipolare complex: Generic delimitations within Lophiostomataceae. Stud. Mycol. 90: 161-189. PMID: 29632417.

Takashima, M., Sriswasdi, S., Manabe, R.-I., Ohkuma, M., Sugita, T., and Iwasaki, W. 2018. A Trichosporonales genome tree based on 27 haploid and three evolutionarily conserved ‘natural’ hybrid genomes. Yeast 35: 99-111. PMID: 29027707.

 

 

 

2017

Tanizawa, Y., Kobayashi, H., Kaminuma, E., Sakamoto, M., Ohkuma, M., Nakamura, Y., Arita, M., and Tohno, M. 2017. Genomic characterization reconfirms the taxonomic status of Lactobacillus parakefiri. Biosci. Microbiota Food Health 36: 129-134. PMID: 28748134.

Katahira, S., Muramoto, N., Moriya, S., Nagura, R., Tada, N., Yasutani, N., Ohkuma, M., Onishi, T., and Tokuhiro, K. 2017. Screening and evolution of a novel protist xylose isomerase from the termite Reticulitermes speratus for efficient xylose fermentation in Saccharomyces cerevisiae. Biotechnol. Biofuels 10: 203. PMID: 28852424.

Izawa, K., Kuwahara, H., Sugaya, K., Lo, N., Ohkuma, M., and Hongoh, Y. 2017. Discovery of ectosymbiotic Endomicrobium lineages associated with protists in the gut of stolotermitid termites. Environ. Microbiol. Rep. 9: 411-418. PMID: 28556617.

Tashiro, Y., Hasegawa, Y., Shintani, M., Takaki, K., Ohkuma, M., Kimbara, K., and Futamata, H. 2017. Interaction of bacterial membrane vesicles with specific species and their potential for delivery to target cells. Front. Microbiol. 8: 571. PMID: 28439261.

Tsuchida, S., Maruyama, F., Ogura, Y., Toyoda, A., Hayashi, T., Okuma, M., and Ushida, K. 2017. Genomic characteristics of Bifidobacterium thermacidophilum pig isolates and wild boar isolates reveal the unique presence of a putative mobile genetic element with tetW for pig farm isolates. Front. Microbiol. 8: 1540. PMID: 28861055.

Okada, N., Tanimura, A., Hirakawa, H., Takashima, M., Ogawa, J., and Shima, J. 2017. Draft genome sequences of the xylose-fermenting yeast Scheffersomyces shehatae NBRC 1983T and a thermotolerant isolate of S. shehatae ATY839 (JCM 18690). Genome Announc. 5: 00347-17. PMID: 28522710.

Uzuhashi, S., Endoh, R., Manabe, R., and Ohkuma, M. 2017. Draft genome sequences of the oomycete Pilasporangium apinafurcum strains JCM 30513 and JCM 30514, formerly classified as Pythium apinafurcum. Genome Announc. 5: e00899-17. PMID: 28860253.

Yuki, M., Sakamoto, M., Kuwahara, H., Hongoh, Y., and Ohkuma, M. 2017. Draft genome sequence of Lactococcus sp. strain Rs-Y01, isolated from the gut of the lower termite Reticulitermes speratus. Genome Announc. 5: e00999-17. PMID: 28935745.

Lee, C. G., Yuki, M., Iida, T., Nakaho, K., and Ohkuma, M. 2017. Draft genome sequence of Tepidibacter mesophilus strain JCM 16806T isolated from soil polluted by crude oil in China. Genome Announc. 5: e01308-17. PMID: 29167249.

Jutakanoke, R., Endoh, R., Takashima, M., Ohkuma, M., Tanasupawat, S., and Akaracharanya, A. 2017. Allodekkera sacchari gen. nov., sp. nov., a yeast species in the Saccharomycetales isolated from a sugar factory. Int. J. Syst. Evol. Microbiol. 67: 250-255. PMID: 27902246.

Sakamoto, M., Iino, T., and Ohkuma, M. 2017. Faecalimonas umbilicata gen. nov., sp. nov., isolated from human faeces, and reclassification of Eubacterium contortum, Eubacterium fissicatena and Clostridium oroticum as Faecalicatena contorta gen. nov., comb. nov., Faecalicatena fissicatena comb. nov. and Faecalicatena orotica comb. nov. Int. J. Syst. Evol. Microbiol. 67: 1219-1227. PMID: 28556772.

Sripreechasak, P., Phongsopitanun, W., Supong, K., Pittayakhajonwut, P., Kudo, T., Ohkuma, M., and Tanasupawat, S. 2017. Nonomuraea rhodomycinica sp. nov., isolated from peat swamp forest soil. Int. J. Syst. Evol. Microbiol. 67: 1683-1687. PMID: 28155814.

Minegishi, H., Enomoto, S., Echigo, A., Shimane, Y., Kondo, Y., Inoma, A., Kamekura, M., Takai, K., Itoh, T., Ohkuma, M., Ihara, K., Takahashi-Ando, N., Fukushima, Y., Ishii, S., Yoshida, Y., and Usami, R. 2017. Salinarchaeum chitinilyticum sp. nov., a chitin-degrading haloarchaeon isolated from commercial salt. Int. J. Syst. Evol. Microbiol. 67: 2274-2278. PMID: 28671534.

Khunnamwong, P., Ribeiro, J. R. A., Garcia, K. M., Hagler, A. N., Takashima, M., Ohkuma, M., Endoh, R., Sugita, T., Jindamorakot, S., and Limtong, S. 2017. Occultifur plantarum f.a., sp. nov., a novel cystobasidiomycetous yeast species. Int. J. Syst. Evol. Microbiol. 67: 2628-2633. PMID: 28771126.

Sujarit, K., Sujada, N., Kudo, T., Ohkuma, M., Pathom-Aree, W., and Lumyong, S. 2017. Pseudonocardia thailandensis sp. nov., an actinomycete isolated from a subterranean termite nest. Int. J. Syst. Evol. Microbiol. 67: 2773-2778. PMID: 28853680.

Tohno, M., Tanizawa, Y., Irisawa, T., Masuda, T., Sakamoto, M., Arita, M., Ohkuma, M., and Kobayashi, H. 2017. Lactobacillus silagincola sp. nov. and Lactobacillus pentosiphilus sp. nov., isolated from silage. Int. J. Syst. Evol. Microbiol. 67: 3639-3644. PMID: 28879844.

Kobayashi, H., Nakasato, T., Sakamoto, M., Ohtani, Y., Terada, F., Sakai, K., Ohkuma, M., and Tohno, M. 2017. Clostridium pabulibutyricum sp. nov., a butyric-acid-producing organism isolated from high-moisture grass silage. Int. J. Syst. Evol. Microbiol. 67: 4974-4978. PMID: 29034861.

Kuwahara, H., Yuki, M., Izawa, K., Ohkuma, M., and Hongoh, Y. 2017. Genome of ‘Ca. Desulfovibrio trichonymphae’, an H2-oxidizing bacterium in a tripartite symbiotic system within a protist cell in the termite gut. ISME J. 11: 766-776. PMID: 27801909.

Tsuchida, S., Murata, K., Ohkuma, M., and Ushida, K. 2017. Isolation of Streptococcus gallolyticus with very high degradability of condensed tannins from feces of the wild Japanese rock ptarmigans on Mt. Tateyama. J. Gen. Appl. Microbiol. 63: 195-198. PMID: 28392540

Siqueira, J. F., Jr., Sakamoto, M., and Rosado, A. S. 2017. Microbial community profiling using terminal restriction fragment length polymorphism (T-RFLP) and denaturing gradient gel electrophoresis (DGGE). Methods Mol. Biol. 1537: 139-152. PMID: 27924592.

Lee, C, G., Iida, T., Inoue, Y., Muramoto, Y., Watanabe, H., Hakaho, K., and Ohkuma, M. 2017. Prokaryotic communities at different depths between soils with and without tomato bacterial wilt but pathogen-present in a single greenhouse. Microbes Environ. 32: 118-124. PMID: 28502968.

Haruta, S., Iino, T., Ohkuma, M., Suzuki, K., and Igarashi, Y. 2017. Ca2+ in hybridization solutions for fluorescence in situ hybridization facilitates the detection of Enterobacteriaceae. Microbes Environ. 32: 142-146. PMID: 28515389.

Lee, C. G., Iida, T., Uwagaki, Y., Otani, Y., Nakaho, K., and Ohkuma, M. 2017. Comparison of prokaryotic and eukaryotic communities in soil samples with and without tomato bacterial wilt collected from different fields. Microbes Environ. 32: 376-385. PMID: 29187707.

Hagen, F., Lumbsch, H. T., Arsic Arsenijevic, V., Badali, H., Bertout, S., Billmyre, R. B., Bragulat, M. R., Cabañes, F. J., Carbia, M., Chakrabarti, A., Chaturvedi, S., Chaturvedi, V., Chen, M., Chowdhary, A., Colom, M. F., Cornely, O. A., Crous, P. W., Cuétara, M. S., Diaz, M. R., Espinel-Ingroff, A., Fakhim, H., Falk, R., Fang, W., Herkert, P. F., Ferrer Rodríguez, C., Fraser, J. A., Gené, J., Guarro, J., Idnurm, A., Illnait-Zaragozi, M. T., Khan, Z., Khayhan, K., Kolecka, A., Kurtzman, C. P., Lagrou, K., Liao, W., Linares, C., Meis, J. F., Nielsen, K., Nyazika, T. K., Pan, W., Pekmezovic, M., Polacheck, I., Posteraro, B., de Queiroz Telles Filho, F., Romeo, O., Sánchez, M., Sampaio, A., Sanguinetti, M., Sriburee, P., Sugita, T., Taj-Aldeen, S. J., Takashima, M., Taylor, J. W., Theelen, B., Tomazin, R., Verweij, P. E., Wahyuningsih, R., Wang, P., and Boekhout, T. 2017. Importance of resolving fungal nomenclature: the case of multiple pathogenic species in the Cryptococcus genus. mSphere 2: e00238-17. PMID: 28875175.

Wu, L., Sun, Q., Desmeth, P., Sugawara, H., Xu, Z., McCluskey, K., Smith, D., Alexander, V., Lima, N., Ohkuma, M., Robert, V., Zhou, Y., Li, J., Fan, G., Ingsriswang, S., Ozerskaya, S., and Ma, J. 2017. World data centre for microorganisms: an information infrastructure to explore and utilize preserved microbial strains worldwide. Nucleic Acids Res. 45: 611-618. PMID: 28053166.

Nakazawa, S., Haramiishi, A., Fukuda, K., Kanayama, Y., Watanabe, T., Yuki, M., Ohkuma, M., Takeda, K., Kimbara, K., and Shintani, M. 2017. Different transferability of incompatibility (Inc) P-7 plasmid pCAR1 and IncP-1 plasmid pBP136 in stirring liquid conditions. PLOS ONE 12: e0186248. PMID: 29023575.

Péter, G., Takashima, M., and Čadež, N. 2017. Yeast habitats: different but global, In: Buzzini, P., Lachance, M.-A., and Yurkov, A. (eds.), Yeasts in Natural Ecosystems: Ecology, pp. 39-71, Springer, Cham. DOI: 10.1007/978-3-319-61575-2_2.

 

 

 

2016

Tanimura, A., Takashima, M., Sugita, T., Endoh, R., Ohkuma, M., Kishino, S., Ogawa, J., and Shima, J. 2016. Lipid production through simultaneous utilization of glucose, xylose, and L-arabinose by Pseudozyma hubeiensis: a comparative screening study. AMB Express 6: 58. PMID: 27566647.

Ohkuma, M. 2016. The outset of another nitrogenase. Environ. Microbiol. 18: 4. PMID: 26249540.

Cho, O., Ichikawa, T., Kurakado, S., Takashima, M., Manabe, R., Ohkuma, M., and Sugita, T. 2016. Draft genome sequence of the causative antigen of summer-type hypersensitivity pneumonitis, Trichosporon domesticum JCM 9580. Genome Announc. 4: e00651-16. PMID: 27389271.

Masuya, H., Manabe, R., Ohkuma, M., and Endoh, R. 2016. Draft genome sequence of Raffaelea quercivora JCM 11526, a Japanese oak wilt pathogen associated with the platypodid beetle, Platypus quercivorus. Genome Announc. 4: e00755-16. PMID: 27469944.

Izawa, K., Kuwahara, H., Kihara, K., Yuki, M., Lo, N., Itoh, T., Ohkuma, M., and Hongoh, Y. 2016. Comparison of intracellular “Ca. Endomicrobium trichonymphae” genomovars illuminates the requirement and decay of defense systems against foreign DNA. Genome Biol. Evol. 8: 3099-3107. PMID: 27635050.

Sriswasdi, S., Takashima, M., Manabe, R., Ohkuma, M., Sugita, T., and Iwasaki W. 2016. Global deceleration of gene evolution following recent genome hybridizations in fungi. Genome Res. 26: 1081-1090. PMID: 27440871.

Ike, F., Sakamoto, M., Ohkuma, M., Kajita, A., Matsushita, S., and Kokubo, T. 2016. Filobacterium rodentium gen. nov., sp. nov., a member of Filobacteriaceae fam. nov. within the phylum Bacteroidetes; includes a microaerobic filamentous bacterium isolated from specimens from diseased rodent respiratory tracts. Int. J. Syst. Evol. Microbiol. 66: 150-157. PMID: 26476525.

Tanasupawat, S., Phongsopitanun, W., Suwanborirux, K., Ohkuma, M., and Kudo, T. 2016. Streptomyces actinomycinicus sp. nov., isolated from soil of a peat swamp forest. Int. J. Syst. Evol. Microbiol. 66: 290-295. PMID: 26510888.

Phongsopitanun, W., Matsumoto, A., Inahashi, Y., Kudo, T., Mori, M., Shiomi, K., Takahashi, Y., and Tanasupawat, S. 2016. Actinoplanes lichenis sp. nov., isolated from lichen. Int. J. Syst. Evol. Microbiol. 66: 468-473. PMID: 26552374.

Itoh, T., Onishi, M., Kato, S., Iino, T., Sakamoto, M., Kudo, T., Takashina, T., and Ohkuma, M. 2016. Athalassotoga saccharophila gen. nov., sp. nov., isolated from an acidic terrestrial hot spring, and proposal of Mesoaciditogales ord. nov. and Mesoaciditogaceae fam. nov. in the phylum Thermotogae. Int. J. Syst. Evol. Microbiol. 66: 1045-1051. PMID: 26651491.

Daroonpunt, R., Itoh, T., Kudo, T., Ohkuma, M., and Tanasupawat, S. 2016. Bacillus piscicola sp. nov., isolated from Thai fish sauce (Nam-pla). Int. J. Syst. Evol. Microbiol. 66: 1151-1155. PMID: 26674773.

Kunthiphun ,S., Endoh, R., Takashima, M., Ohkuma, M., Tanasupawat ,S., and Akaracharanya, A. 2016. Trichosporon heliocopridis sp. nov., a ureasenegative basidiomycetous yeast associated with dung beetles (Heliocopris bucephalus Fabricius). Int. J. Syst. Evol. Microbiol. 66: 1180-1186. PMID: 26674642.

Irisawa, T., Saputra, S., Kitahara, M., Sakamoto, M., Sulistiani, S., Yulineri, T., Dinoto, A., and Ohkuma, M. 2016. Bacteroides caecicola sp. nov. and Bacteroides gallinaceum sp. nov., isolated from the caecum of an Indonesian chicken. Int. J. Syst. Evol. Microbiol. 66: 1431-1437. PMID: 26769263.

Daroonpunt, R., Tanasupawat, S., Kudo, T., Ohkuma, M., and Itoh, T. 2016. Virgibacillus kapii sp. nov., isolated from Thai shrimp paste (Ka-pi). Int. J. Syst. Evol. Microbiol. 66: 1832-1837. PMID: 26869011.

Tanasupawat, S., Phongsopitanun, W., Suwanborirux, K., Ohkuma, M., and Kudo, T. 2016. Nocardia rayongensis sp. nov., isolated from Thai peat swamp forest soil. Int. J. Syst. Evol. Microbiol. 66: 1950-1955. PMID: 26873179.

Phongsopitanun, W., Kudo, T., Ohkuma, M., Pittayakhajonwut, P., Suwanborirux, K., and Tanasupawat, S. 2016. Micromonospora sediminis sp. nov., isolated from mangrove sediment. Int. J. Syst. Evol. Microbiol. 66: 3235-3240. PMID: 27220280.

Songsumanus, A., Kudo, T., Ohkuma, M., Phongsopitanun, W., and Tanasupawat, S. 2016. Actinomadura montaniterrae sp. nov., isolated from mountain soil. Int. J. Syst. Evol. Microbiol. 66: 3310-3316. PMID: 27255441.

Phongsopitanun, W., Kudo, T., Ohkuma, M., Pittayakhajonwut, P., Suwanborirux, K., and Tanasupawat, S. 2016. Streptomyces verrucosisporus sp. nov., isolated from marine sediments. Int. J. Syst. Evol. Microbiol. 66: 3607-3613. PMID: 27306744.

Harada, T., Dang, V. C., Nguyen, D. P., Nguyen, T. A., Sakamoto, M., Ohkuma, M., Motooka, D., Nakamura, S., Uchida, K., Jinnai, M., Yonogi, S., Kawahara, R., Kanki, M., Kawai, T., Kumeda, Y., and Yamamoto, Y. 2016. Enterococcus saigonensis sp. nov., isolated from retail chicken meat and liver. Int. J. Syst. Evol. Microbiol. 66: 3779-3785. PMID: 27374383.

Tohno, M., Sakamoto, M., Ohkuma, M., and Tajima, K. 2016. Paenibacillus silagei sp. nov. isolated from corn silage. Int. J. Syst. Evol. Microbiol. 66: 3873-3877. PMID: 27380964.

Klykleung, N., Phongsopitanun, W., Pittayakhajonwut, P., Ohkuma, M., Kudo, T., and Tanasupawat, S. 2016. Streptomyces phyllanthi sp. nov., isolated from the stem of Phyllanthus amarus. Int. J. Syst. Evol. Microbiol. 66: 3923-3928. PMID: 27393329.

Sujarit, K., Kudo, T., Ohkuma, M., Pathom-Aree, W., and Lumyong, S. 2016. Streptomyces palmae sp. nov., isolated from oil palm (Elaeis guineensis) rhizosphere soil. Int. J. Syst. Evol. Microbiol. 66: 3983-3988. PMID: 27405543.

Minegishi, H., Shimogaki, R., Enomoto, S., Echigo, A., Kondo, Y., Nagaoka, S., Shimane, Y., Kamekura, M., Itoh, T., Ohkuma, M., Nunoura, T., Takai, K., and Usami, R. 2016. Halopiger thermotolerans sp. nov., a thermo-tolerant haloarchaeon isolated from commercial salt. Int. J. Syst. Evol. Microbiol. 66: 4975-4980. PMID: 27562780.

Iino, T., Ohkuma, M., Kamagata, Y., and Amachi, S. 2016. Iodidimonas muriae gen. nov., sp. nov., an aerobic iodide-oxidizing bacterium isolated from brine of a natural gas and iodine recovery facility, and proposals of Iodidimonadaceae fam. nov., Iodidimonadales ord. nov., Emcibacteraceae fam. nov. and Emcibacterales ord. nov. Int. J. Syst. Evol. Microbiol. 66: 5016-5022. PMID: 27566239.

Kondo, Y., Minegishi, H., Echigo, A., Shimane, Y., Kamekura, M., Itoh, T., Ohkuma, M., Tanaka, A., Takahashi-Ando, N., Fukushima, Y., Yoshida, Y., Ihara, K., and Usami, R. 2016. Haloparvum alkalitolerans sp. nov., alkali-tolerant haloarchaeon isolated from commercial salt. Int. J. Syst. Evol. Microbiol. 66: 5314-5319. PMID: 27666573.

Hamana, K., Furuchi, T., Hayashi, H., Itoh, T., Ohkuma, M., and Niitsu, M. 2016. Occurrence of two novel linear penta-amines, pyropentamine and homopyropentamine, in extremely thermophilic Thermus composti. J. Gen. Appl. Microbiol. 62: 334-339. PMID: 27885192.

Tomihama, T., Nishi, Y., Mori, K., Shirao, T., Iida, T., Uzuhashi, S., Ohkuma, M., and Ikeda, S. 2016. Rice bran amendment suppresses potato common scab by increasing antagonistic bacterial community levels in the rhizosphere. Phytopathology 106: 719-728. PMID: 27050572.

Igai, K., Itakura, M., Nishijima, S., Tsurumaru, H., Suda, W., Tsutaya, T., Tomitsuka, E., Tadokoro, K., Baba, J., Odani, S., Natsuhara, K., Morita, A., Yoneda, M., Greenhill, A. R., Horwood, P. F., Inoue, J., Ohkuma, M., Hongoh, Y., Yamamoto, T., Siba, P. M., Hattori, M., Minamisawa, K., and Umezaki, M. 2016. Nitrogen fixation and nifH diversity in human gut microbiota. Sci. Rep. 6: 31942. PMID: 27554344.

Gao, F., Al-Saari, N., Rohul Amin, A. K. M., Sato, K., Mino, S., Suda, W., Oshima, K., Hattori, M., Ohkuma, M., Hargreaves, P. I., Meirelles, P. M., Thompson, F. L., Thompson, C., Gomez-Gil, B., Sawabe, T., and Sawabe, T. 2016. Vibrio ishigakensis sp. nov., in Halioticoli clade isolated from seawater in Okinawa coral reef area, Japan. Syst. Appl. Microbiol. 39: 330-335. PMID: 27262360.

Itoh, T. 2016. Caldisphaeraceae, In: Whitman, W. B. (ed.), Bergey’s Manual of Systematics of Archaea and Bacteria, pp. 1-3, John Wiley & Sons, Chichester. DOI: 10.1002/9781118960608.fbm00267.

Itoh, T. 2016. Caldisphaera, In: Whitman, W. B. (ed.), Bergey’s Manual of Systematics of Archaea and Bacteria, pp. 1-4, John Wiley & Sons, Chichester. DOI: 10.1002/9781118960608.gbm01323.

Itoh, T. 2016. Vulcanisaeta, In: Whitman, W. B. (ed.), Bergey’s Manual of Systematics of Archaea and Bacteria, pp. 1-7, John Wiley & Sons, Chichester. DOI: 10.1002/9781118960608.gbm01326.

Itoh, T. 2016. Natronolimnobius, In: Whitman, W. B. (ed.), Bergey’s Manual of Systematics of Archaea and Bacteria, pp. 1-8, John Wiley & Sons, Chichester. DOI: 10.1002/9781118960608.gbm01360.

Itoh, T. 2016. Thermogymnomonas, In: Whitman, W. B. (ed.), Bergey’s Manual of Systematics of Archaea and Bacteria, pp. 1-5, John Wiley & Sons, Chichester. DOI: 10.1002/9781118960608.gbm01374.

 

 

 

2015

Uzuhashi, S., Okada, G., and Ohkuma, M. 2015. Four new Pythium species from aquatic environments in Japan. Antonie van Leeuwenhoek 107: 375-391. PMID: 25411087.

Bangash, A., Ahmed, I., Abbas, S., Kudo, T., Shahzad, A., Fujiwara, T., and Ohkuma, M. 2015. Kushneria pakistanensis sp. nov., a novel moderately halophilic bacterium isolated from rhizosphere of a plant (Saccharum spontaneum) growing in salt mines of the Karak area in Pakistan. Antonie van Leeuwenhoek 107: 991-1000. PMID: 25631404.

Abbas, S., Ahmed, I., Iida, T., Lee, Y.-J., Busse, H.-J., Fujiwara, T., and Ohkuma, M. 2015. A heavy-metal tolerant novel bacterium, Alcaligenes pakistanensis sp. nov., isolated from industrial effluent in Pakistan. Antonie van Leeuwenhoek 108: 859-870. PMID: 26238381.

Abbas, S., Ahmed, I., Kudo, T., Iqbal, M., Lee, Y.-J., Fujiwara, T., and Ohkuma, M. 2015. A heavy metal tolerant novel bacterium, Bacillus malikii sp. nov., isolated from tannery effluent wastewater. Antonie van Leeuwenhoek 108: 1319-1330.PMID: 26362330.

Iino, T., Ito, K., Wakai, S., Tsurumaru, H., Ohkuma, M., and Harayama, S. 2015. Iron corrosion induced by nonhydrogenotrophic nitrate-reducing Prolixibacter sp. strain MIC1-1. Appl. Environ. Microbiol. 81: 1839-1846. PMID: 25548048.

Ridwan, R., Rusmana, I., Widyastuti, Y., Wiryawan, K. G., Prasetya, B., Sakamoto, M., and Ohkuma, M. 2015. Fermentation characteristics and microbial diversity of tropical grass-legumes silages. Asian Australas. J. Anim. Sci. 28: 511-518. PMID: 25656192.

Kato, S., Ikehata, K., Shibuya, T., Urabe, T., Ohkuma, M., and Yamagishi, A. 2015. Potential for biogeochemical cycling of sulfur, iron and carbon within massive sulfide deposits below the seafloor. Environ. Microbiol. 17: 1817-1835. PMID: 25330135.

Yuki, M., Kuwahara, H., Shintani, M., Izawa, K., Sato, T., Starns, D., Hongoh, Y., and Ohkuma, M. 2015. Dominant ectosymbiotic bacteria of cellulolytic protists in the termite gut also have the potential to digest lignocellulose. Environ. Microbiol. 17: 4942-4963. 26079531.

Kato, S., Ohkuma, M., Powell, D. H., Krepski, S. T., Oshima, K., Hattori, M., Shapiro, N., Woyke, T., and Chan, C. S. 2015. Comparative genomic insights into ecophysiology of neutrophilic, microaerophilic iron oxidizing bacteria. Front. Microbiol. 13: 1265. 26617599.

Pramono, A. K., Sakamoto, M., Iino, T., Hongoh, Y., and Ohkuma, M. 2015. Dysgonomonas termitidis sp. nov., isolated from the gut of the subterranean termite Reticulitermes speratus. Int. J. Syst. Evol. Microbiol. 65: 681-685. PMID: 25428419.

Phongsopitanun, W., Tanasupawat, S., Suwanborirux, K., Ohkuma, M., and Kudo, T. 2015. Actinomadura rayongensis sp. nov., isolated from peat swamp forest soil. Int. J. Syst. Evol. Microbiol. 65: 890-895. PMID: 25525125.

Thamacharoensuk, T., Kitahara, M., Ohkuma, M., Thongchul, N., and Tanasupawat, S. 2015. Sporolactobacillus shoreae sp. nov. and Sporolactobacillus spathodeae sp. nov., two spore-forming lactic acid bacteria isolated from tree barks in Thailand. Int. J. Syst. Evol. Microbiol. 65: 1220-1226. PMID: 25634946.

Sakamoto, M., Tanaka, Y., Benno, Y., and Ohkuma, M. 2015. Parabacteroides faecis sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 65: 1342-1346. PMID: 25667391.

Minegishi, H., Echigo, A., Shimane, Y., Kamekura, M., Itoh, T., Ohkuma, M., and Usami, R. 2015. Halococcus agarilyticus sp. nov., an agar-degrading haloarchaeon isolated from commercial salt. Int. J. Syst. Evol. Microbiol. 65: 1634-1639. PMID: 25721723.

Minegishi, H., Echigo, A., Kuwahara, A., Shimane, Y., Kamekura, M., Itoh, T., Ohkuma, M., and Usami, R. 2015. Halocalculus aciditolerans gen. nov., sp. nov., an acid-tolerant haloarchaeon isolated from commercial salt. Int. J. Syst. Evol. Microbiol. 65: 1640-1645. PMID: 25721724.

Tohno, M., Kitahara, M., Irisawa, T., Ohmori, H., Masuda, T., Ohkuma, M., and Tajima, K. 2015. Lactobacillus mixtipabuli sp. nov. isolated from total mixed ration silage. Int. J. Syst. Evol. Microbiol. 65: 1981-1985. PMID: 25807979.

Kondo, Y., Minegishi, H., Echigo, A, Shimane, Y., Kamekura, M., Itoh, T., Ohkuma, M., Takahashi-Ando, N., Fukushima, Y., Yoshida, Y., and Usami, R. 2015. Halorubrum gandharaense sp. nov., an alkaliphilic haloarchaeon from commercial rock salt. Int. J. Syst. Evol. Microbiol. 65: 2345-2350. PMID: 25870255.

Sakamoto, M., Li, D., Shibata, Y., Takeshita, T., Yamashita, Y., and Ohkuma, M. 2015. Porphyromonas pasteri sp. nov., isolated from human saliva. Int. J. Syst. Evol. Microbiol. 65: 2511-2515. PMID: 25933621.

Iino, T., Sakamoto, M., and Ohkuma, M. 2015. Prolixibacter denitrificans sp. nov., an iron-corroding, facultatively aerobic, nitrate-reducing bacterium isolated from crude oil, and emended descriptions of the genus Prolixibacter and Prolixibacter bellariivorans. Int. J. Syst. Evol. Microbiol. 65: 2865-2869. PMID: 25991662.

Shimane, Y., Minegishi, H., Echigo, A., Kamekura, M., Itoh, T., Ohkuma, M., Tsubouchi, T., Usui, K., Maruyama, T., Usami, R., and Hatada, Y. 2015. Halarchaeum grantii sp. nov., a moderately acidophilic haloarchaeon isolated from a commercial salt sample. Int. J. Syst. Evol. Microbiol. 65: 3830-3835. 26238453.

Klykleung, N., Tanasupawat, S., Pittayakhajonwut, P., Ohkuma, M., and Kudo, T. 2015. Amycolatopsis stemonae sp. nov., isolated from Thai medicinal plant. Int. J. Syst. Evol. Microbiol. 65: 3894-3899. PMID: 26243287.

Saputra, S., Irisawa, T., Sakamoto, M., Kitahara, M., Sulistiani, Yulinery, T., Ohkuma, M., and Dinoto, A. 2016. Bacteroides caecigallinarum sp. nov., isolated from caecum of an Indonesian chicken. Int. J. Syst. Evol. Microbiol. 65: 4341-4346. 26345419.

Phongsopitanun, W., Kudo, T., Mori, M., Shiomi, K., Pittayakhajonwut, P., Suwanborirux, K., and Tanasupawat, S. 2015. Micromonospora fluostatini sp. nov., isolated from marine sediment. Int. J. Syst. Evol. Microbiol. 65: 4417-4423. PMID: 26358439.

Dekio, I., Culak, R., Misra, R., Gaulton, T., Fang, M., Sakamoto, M., Ohkuma, M., Oshima, K., Hattori, M., Klenk, H.-P., Rajendram, D., Gharbia, S. E., and Shah, H. N. 2015. Dissecting the taxonomic heterogeneity within Propionibacterium acnes: proposal for Propionibacterium acnes subsp. acnes subsp. nov. and Propionibacterium acnes subsp. elongatum subsp. nov. Int. J. Syst. Evol. Microbiol. 65: 4776-4787. PMID: 26432704.

Phongsopitanun, W., Kudo, T., Ohkuma, M., Suwanborirux, K., and Tanasupawat, S. 2015. Dactylosporangium sucinum sp. nov., isolated from Thai peat swamp forest soil. J. Antibiot. 68: 379-384. PMID: 25605042.

Inoue, J., Oshima, K., Suda, W., Sakamoto, M., Iino, T., Noda, S., Hongoh, Y., Hattori, M., and Ohkuma, M. 2015. Distribution and evolution of nitrogen fixation genes in the phylum Bacteroidetes. Microbes Environ. 30: 44-50. PMID: 25736980.

Takashima, M., Manabe, R., Iwasaki, W., Ohyama, A., Ohkuma, M., and Sugita, T. 2015. Selection of orthologous genes for construction of a highly resolved phylogenetic tree and clarification of the phylogeny of Trichosporonales species. PLOS ONE 10: e0131217. PMID: 26241762.

Al-Saari, N., Gao, F., Rohul, A. A. K. M., Sato, K., Sato, K., Mino, S., Suda, W., Oshima, K., Hattori, M., Ohkuma, M., Meirelles, P. M., Thompson, F. L., Thompson, C., Filho, G. M. A., Gomez-Gil, B., Sawabe, T., and Sawabe, T. 2015. Advanced microbial taxonomy combined with genome-based-approaches reveals that Vibrio astriarenae sp. nov., an agarolytic marine bacterium, forms a new clade in Vibrionaceae. PLOS ONE 10: e0136279. PMID: 26313925.

Ohkuma, M., Noda, S., Hattori, S., Iida, T., Yuki, M., Starns, D., Inoue, J., Darby, A. C., and Hongoh, Y. 2015. Acetogenesis from H2 plus CO2 and nitrogen fixation by an endosymbiotic spirochete of a termite-gut cellulolytic protist. Proc. Natl. Acad. Sci. USA 112: 10224-10230. PMID: 25979941.

Sakamoto, M., Lapidus, A. L., Han, J., Trong, S., Haynes, M., Reddy, T. B. K., Mikhailova, N., Huntemann, M., Pati, A., Ivanova, N. N., Pukall, R., Markowitz, V. M., Woyke, T., Klenk, H.-P., Kyrpides, N. C., and Ohkuma, M. 2015. High quality draft genome sequence of Bacteroides barnesiae type strain BL2T (DSM18169T) from chicken caecum. Stand. Genomic Sci. 10: 48. PMID: 26380636.

Wang, Q.-M., Groenewald, M., Takashima, M., Theelen, B., Han, P.-J., Liu, X.-Z., Boekhout, T., and Bai, F.-Y. 2015. Phylogeny of yeasts and related filamentous fungi within Pucciniomycotina determined from multigene sequence analyses. Stud. Mycol. 81: 27-53. PMID: 26955197.

Kato, S., Suzuki, K., Shibuya, T., Ishibashi, J., Ohkuma, M., and Yamagishi, A. 2015. Experimental assessment of microbial effects on chemical interaction between seafloor massive sulfides and seawater at 4℃, In: Ishibashi, J., Okino, K., and Sunamura, M. (eds.), Subseafloor Biosphere Linked to Hydrothermal Systems, pp. 95-103, Springer, Tokyo. DOI: 10.1007/978-4-431-54865-2_9.

Kato, S., Ohkuma, M., and Yamagishi, A. 2015. Intra-field variation of prokaryotic communities on and below the seafloor in the back-arc hydrothermal system of the Southern Mariana Trough, In: Ishibashi, J., Okino, K., and Sunamura, M. (eds.), Subseafloor Biosphere Linked to Hydrothermal Systems, pp. 301-311, Springer, Tokyo. DOI: 10.1007/978-4-431-54865-2_24.

 

 

 

2014

Huang, I., Sato, Y., Sakamoto, M., Ohkuma, M., Ohnuma, S., Naitoh, T., Shibata, C., Horii, A., Nishimura, J., Kitazawa, H., and Saito, T. 2014. Diversity of microflora in colonic mucus from severe ulcerative colitis patients analyzed by terminal restriction fragment length polymorphism and clone libraries of bacterial 16S rRNA gene sequences. Adv. Microbiol. 4: 857-870. DOI: 10.4236/aim.2014.413095.

Shintani, M., Matsui, K., Inoue, J., Hosoyama, A., Ohji, S., Yamazoe, A., Nojiri, H., Kimbara, K., and Ohkuma, M. 2014. Single-cell analyses revealed transfer ranges of IncP-1, IncP-7, and IncP-9 plasmids in a soil bacterial community. Appl. Environ. Microbiol. 80: 5283-5290. PMID: 24141122.

Tanimura, A., Takashima, M., Sugita, T., Endoh, R., Kikukawa, M., Yamaguchi, S., Sakuradani, E., Ogawa, J., and Shima, J. 2014. Selection of oleaginous yeasts with high lipid productivity for practical biodiesel production. Bioresour. Technol. 153: 230-235. PMID: 24368271.

Nakabachi, A., Ishida, K., Hongoh, Y., Ohkuma, M., and Miyagishima, S. 2014. Aphid gene of bacterial origin encodes a protein transported to an obligate endosymbiont. Curr. Biol. 24: R640-R641. PMID: 25050957.

Ikeda, R., Ichikawa, T., Miyazaki, Y., Shimizu, N., Ryoke, T., Haru, K., Sugita, T., and Takashima, M. 2014. Detection and characterization of plasminogen receptors on clinical isolates of Trichosporon asahii. FEMS Yeast Res. 14: 1186-1195. PMID: 25263492.

Lackner, M., Sybren de Hoog, G., Yang, L., Moreno, L. F., Ahmed, S. A., Andreas, F., Kaltseis, J., Nagl, M., Lass-Flörl, C., Risslegger, B., Rambach, G., Speth, C., Robert, V., Buzina, W., Chen, S., Bouchara, J.-P., Cano-Lira, J.-F., Guarro, J., Gené, J., Silva, F. F., Haido, R., Haase, G., Havlicek, V., Garcia-Hermoso, D., Meis, J. F., Hagen, F., Kirchmair, M., Rainer, J., Schwabenbauer, K., Zoderer, M., Meyer, W., Gilgado, F., Schwabenbauer, K., Vicente, V. A., Piecková, E., Regenermel, M., Rath, P.-M., Steinmann, J., Wellington de Alencar, X., Symoens, F., Tintelnot, K., Ulfig, K., Velegraki, A., Tortorano, M. A., Giraud, S., Mina, S., Rigler-Hohenwarter, K., Hernando, F. L., Ramirez-Garcia, A., Pellon, A., Kaur, J., Bergter, E. B., Vieira de Meirelles, J., Dutra da Silva, I., Delhaes, L., Alastruey-Izquerdo, A., Li, R., Lu, Q., Moussa, T., Almaghrabi, O., Al-Zahrani, H., Okada, G., Deng, S., Liao, W., Zeng, J., Issakainen, J., and Lopes, L. C. L. 2014. Proposed nomenclature for Pseudallescheria, Scedosporium and related genera. Fungal Divers. 67: 1-10. DOI: 10.1007/s13225-014-0295-4.

Ohkuma, M., Yuki, M., Oshima, K., Suda, W., Oshida, Y., Kitamura, K., Iida, T., and Hattori, M. 2014. Draft genome sequence of an alkaliphilic and xylanolytic Paenibacillus sp. strain JCM 10914, isolated from the gut of a soil-feeding termite. Genome Announc. 2: e01144-13. PMID: 24459258.

Sakamoto, M., Oshima, K., Suda, W., Kitamura, K., Iida, T., Hattori, M., and Ohkuma, M. 2014. Draft genome sequences of three strains of Bacteroides pyogenes isolated from a cat and swine. Genome Announc. 2: e01242-13. PMID: 24482517.

Yuki, M., Oshima, K., Suda, W., Oshida, Y., Kitamura, K., Iida, T., Hattori, M., and Ohkuma, M. 2014. Draft genome sequences of three alkaliphilic Bacillus strains, Bacillus wakoensis JCM 9140T, Bacillus akibai JCM 9157T, and Bacillus hemicellulosilyticus JCM 9152T. Genome Announc. 2: e01258-13. PMID: 24482522.

Yuki, M., Oshima, K., Suda, W., Sakamoto, M., Iida, T., Hattori, M., and Ohkuma, M. 2014. Draft genome sequence of Bacteroides reticulotermitis strain JCM 10512T, isolated from the gut of a termite. Genome Announc. 2: e00072-14. PMID: 24526645.

Ahmed, I., Oshima, K., Suda, W., Kitamura, K., Iida, T., Ohmori, Y., Fujiwara, T., Hattori, M., and Ohkuma, M. 2014. Draft genome sequence of the boron-tolerant and moderately halotolerant bacterium Gracilibacillus boraciitolerans JCM 21714T. Genome Announc. 2: e00097-14. PMID: 24558242.

Yuki, M., Oshima, K., Suda, W., Sakamoto, M., Kitamura, K., Iida, T., Hattori, M., and Ohkuma M. 2014. Draft genome sequence of Clostridium straminisolvens strain JCM 21531T, isolated from a cellulose-degrading bacterial community. Genome Announc. 2: e00110-14. PMID: 24558248.

Starns, D., Oshima, K., Suda, W., Iino, T., Yuki, M., Inoue, J., Kitamura, K., Iida, T., Darby, A., Hattori, M., and Ohkuma, M. 2014. Draft genome sequence of Cytophaga fermentans JCM 21142T, a facultative anaerobe isolated from marine mud. Genome Announc. 2: e00206-14. PMID: 24675859.

Yuki, M., Oshima, K., Suda, W., Oshida, Y., Kitamura, K., Iida, T., Hattori, M., and Ohkuma, M. 2014. Draft genome sequence of Paenibacillus pini JCM 16418T, isolated from the rhizosphere of pine tree. Genome Announc. 2: e00210-14. PMID: 24652984.

Kudo, T., Sakamoto, K., Akinaga, M., Kawauchi, A., Nakahara, T., Zhang, X., Yamada, A., Oshima, K., Suda, W., Kuwahara, H., Nakamura, N., Nogi, Y., Kitamura, K., Yuki, M., Iida, T., Moriya, S., Inoue, T., Hongoh, Y., Hattori, M., and Ohkuma, M. 2014. Draft genome sequences of cyclodextrin-producing alkaliphilic Bacillus spp. strains JCM 19045, JCM 19046, and JCM 19047. Genome Announc. 2: e00211-14. PMID: 24652985.

Yuki, M., Oshima, K., Suda, W., Kitahara, M., Kitamura, K., Iida, T., Hattori, M., and Ohkuma, M. 2014. Draft genome sequences of two Lactobacillus strains, Lactobacillus farraginis JCM 14108T and Lactobacillus composti JCM 14202T, isolated from composts of distilled shochu residue. Genome Announc. 2: e00257-14. PMID: 24675866.

Kudo, T., Kidera, A., Kida, M., Kawauchi, A., Shimizu, R., Nakahara, T., Zhang, X., Yamada, A., Amano, M., Hamada, Y., Taniyama, S., Arakawa, O., Yoshida, A., Oshima, K., Suda, W., Kuwahara, H., Nogi, Y., Kitamura, K., Yuki, M., Iida, T., Moriya, S., Inoue, T., Hongoh, Y., Hattori, M., and Ohkuma, M. 2014. Draft genome sequences of Psychrobacter strains JCM 18900, JCM 18901, JCM 18902, and JCM 18903, isolated preferentially from frozen aquatic organisms. Genome Announc. 2: e00280-14. PMID: 24699965.

Irisawa, T., Oshima, K., Suda, W., Kitahara, M., Sakamoto, M., Kitamura, K., Iida, T., Hattori, M., and Ohkuma, M. 2014. Draft genome sequence of Lactobacillus sucicola JCM 15457T, a motile lactic acid bacterium isolated from oak sap. Genome Announc. 2: e00403-14. PMID: 24812225.

Ivanova, E. P., Ng, H. J., Webb, H. K., Feng, G., Oshima, K., Hattori, M., Ohkuma, M., Sergeev, A. F., Mikhailov, V. V., Crawford, R. J., and Sawabe, T. 2014. Draft genome ｓequences of Marinobacter similis A3d10T and Marinobacter salarius R9SW1T. Genome Announc. 2: e00442-14. PMID: 24855296.

Kudo, T., Nakahara, T., Zhang, X., Taniyama, S., Arakawa, O., Murase, S., Nakata, H., Oshima, K., Suda, W., Kitamura, K., Iida, T., Oshida, Y., Inoue, T., Hongoh, Y., Hattori, M., and Ohkuma, M. 2014. Draft genome sequences of Geomicrobium sp. strains JCM 19037, JCM 19038, JCM 19039, and JCM 19055, isolated from aquatic samples. Genome Announc. 2: e00622-14. PMID: 24948772.

Kudo, T., Kawauchi, A., Nakahara, T., Zhang, X., Taniyama, S., Takatani, T., Arakawa, O., Oshima, K., Suda, W., Kitamura, K., Iida, T., Iino, T., Inoue, T., Hongoh, Y., Hattori, M., and Ohkuma, M. 2014. Draft genome sequences of Vibrio sp. strains isolated from tetrodotoxin-bearing scavenging gastropod. Genome Announc. 2: e00623-14. PMID: 24948773.

Al-Saari, N., Meirelles, P. M., Mino, S., Suda, W., Oshima, K., Hattori, M., Ohkuma, M., Thompson, F.L., Gomez-Gil, B., Sawabe, T., and Sawabe, T. 2014. Draft genome sequences of two Vibrionaceae species, Vibrio ponticus C121 and Photobacterium aphoticum C119, isolated as coral reef microbiota. Genome Announc. 2: e01095-14. PMID: 25359913.

Takatani, N., Nakanishi, M., Meirelles, P., Mino, S., Suda, W., Oshima, K., Hattori, M., Ohkuma, M., Hosokawa, M., Miyashita, K., Thompson, F. L., Niwa, A., Sawabe, T., and Sawabe, T. 2014. Draft genome sequences of marine flavobacterium Algibacter lectus strains SS8 and NR4. Genome Announc. 2: e01168-14. PMID: 25395640.

Takatani, N., Nakanishi, M., Meirelles, P., Mino, S., Suda, W., Oshima, K., Hattori, M., Ohkuma, M., Hosokawa, M., Miyashita, K., Thompson, F. L., Niwa, A., Sawabe, T., and Sawabe, T. 2014. Draft genome sequence of marine flavobacterium Jejuia pallidilutea strain 11shimoA1 and pigmentation mutants. Genome Announc. 2: e01236-14. PMID: 25477402.

Tsuchida, S., Takahashi, S., Philippe, P., Nguema, M., Fujita, S., Kitahara, M., Yamagiwa, J., Ngomanda, A., Ohkuma, M., and Ushida, K. 2014. Bifidobacterium moukalabense sp. nov., isolated from the faeces of wild west lowland gorilla (Gorilla gorilla gorilla). Int. J. Syst. Evol. Microbiol. 64: 449-455. PMID: 24158945.

Kato, S., Krepski, S., Chan, C., Itoh, T., and Ohkuma, M. 2014. Ferriphaselus amnicola gen. nov., sp. nov., a neutrophilic, stalk-forming, iron-oxidizing bacterium isolated from an iron-rich groundwater seep. Int. J. Syst. Evol. Microbiol. 64: 921-925. PMID: 24425821.

Tohno, M., Kitahara, M., Matsuyama, S., Kimura, K., Ohkuma, M., and Tajima, K. 2014. Aerococcus vaginalis sp. nov., isolated from the vaginal mucosa of a beef cow, and emended descriptions of Aerococcus suis, Aerococcus viridans, Aerococcus urinaeequi, Aerococcus urinaehominis, Aerococcus urinae, Aerococcus christensenii and Aerococcus sanguinicola. Int. J. Syst. Evol. Microbiol. 64: 1229-1236. PMID: 24421273.

Landell, M. F., Brandão, L. R., Barbosa, A. C., Ramos, J. P., Safar, S. V., Gomes, F. C., Sousa, F. M., Morais, P. B., Broetto, L., Leoncini, O., Ribeiro, J. R., Fungsin, B., Takashima, M., Nakase, T., Lee, C. F., Vainstein, M. H., Fell, J. W., Scorzetti, G., Vishniac, H. S., Rosa, C. A., and Valente, P. 2014. Hannaella pagnoccae sp. nov., a tremellaceous yeast species isolated from plants and soil. Int. J. Syst. Evol. Microbiol. 64: 1970-1977. PMID: 24614844.

Ahmed, I., Kudo, T., Abbas, S., Ehsan, M., Iino, T., Fujiwara, T., and Ohkuma, M. 2014. Cellulomonas pakistanensis sp. nov., a moderately halotolerant Actinobacteria. Int. J. Syst. Evol. Microbiol. 64: 2305-2311. PMID: 24733176.

Phongsopitanun, W., Thawai, C., Suwanborirux, K., Kudo, T., Ohkuma, M., and Tanasupawat, S. 2014. Streptomyces chumphonensis sp. nov., isolated from marine sediments. Int. J. Syst. Evol. Microbiol. 64: 2605-2610. PMID: 24814337.

Irisawa, T., Tanaka, N., Kitahara, M., Sakamoto, M., Ohkuma, M., and Okada S. 2014. Lactobacillus furfuricola sp. nov., isolated from Nukadoko, rice bran paste for Japanese pickles. Int. J. Syst. Evol. Microbiol. 64: 2902-2906. PMID: 24876240.

Sakamoto, M., Tanaka, Y., Benno, Y., and Ohkuma, M. 2014. Butyricimonas faecihominis sp. nov. and Butyricimonas paravirosa sp. nov., isolated from human faeces, and emended description of the genus Butyricimonas. Int. J. Syst. Evol. Microbiol. 64: 2992-2997. PMID: 24903545.

Shiratori-Takano, H., Akita, K., Yamada, K., Itoh, T., Sugihara, T., Beppu, T., and Ueda, K. 2014. Description of Symbiobacterium ostreiconchae sp. nov., Symbiobacterium turbinis sp. nov. and Symbiobacterium terraclitae sp. nov., isolated from shellfish, emended description of the genus Symbiobacterium and proposal of Symbiobacteriaceae fam. nov. Int. J. Syst. Evol. Microbiol. 64: 3375-3383. PMID: 25013225.

Iino, T., Mori, K., Itoh, T., Kudo, T., Suzuki, K., Ohkuma, M. 2014. Description of Mariniphaga anaerophila gen. nov., sp. nov., a facultatively aerobic marine bacterium isolated from tidal flat sediment, reclassification of the Draconibacteriaceae as a later heterotypic synonym of the Prolixibacteraceae and description of the family Marinifilaceae fam. nov. Int. J. Syst. Evol. Microbiol. 64: 3660-3667. PMID: 25096325.

Tsuchida, S., Kitahara, M., Nguema, P. P. M., Norimitsu, S., Fujita, S., Yamagiwa, J., Ngomanda, A., Ohkuma, M., and Ushida, K. 2014. Lactobacillus gorillae sp. nov., isolated from the faeces of captive and wild western lowland gorillas (Gorilla gorilla gorilla). Int. J. Syst. Evol. Microbiol. 64: 4001-4006. PMID: 25240022.

Ahmed, I., Abbas, S., Kudo, T., Iqbal, M., Fujiwara, T., and Ohkuma, M. 2014. Deinococcus citri sp. nov., isolated from citrus leaf canker lesions. Int. J. Syst. Evol. Microbiol. 64: 4134-4140. PMID: 25256704.

Sato, T., Kuwahara, H., Fujita, K., Noda, S., Kihara, K., Yamada, A., Ohkuma, M., Hongoh, Y. 2014. Intranuclear verrucomicrobial symbionts and evidence of lateral gene transfer to the host protist in the termite gut. ISME J. 8: 1008-1019. PMID: 24335826.

Hamana, K., Hayashi, H., Niitsu, M., Itoh, T., and Ohkuma, M. 2014. Long linear and branched polyamines of new thermophilic members located in the bacterial orders Thermotogales, Thermales, Aquificales, Thermodesulfobacteriales, Clostridiales, Thermoanaerobacterales, Bacillales, Caldisericales and Desulfovibrionales, and the family Rhodothermaceae – Polyamine catalogues of bacterial (eubacterial) and archaeal (archaebacterial) extremophiles VIII -. J. Jpn. Soc. Extremophiles 13: 32-52.

Namwong, S., Tanasupawat, S., Benjakul, S., Kudo, T., Itoh, T., and Visessanguan, W. 2014. Identification of halophilic strains and its proteolytic degradation of fish protein. Malaysian J. Microbiol. 10: 92-100. DOI: 10.21161/mjm.55713.

Ridwan, R., Rusmana, I., Widyastuti, Y., Wiryawan, K. G., Praseta, B., Sakamoto, M., and Ohkuma, M. 2014. Methane mitigation and microbial diversity of silage diets containing Calliandra calothyrsus in a rumen in vitro fermentation system. Media Peternakan 37: 121-128. DOI: 10.5398/medpet.2014.37.2.121.

Okazaki, K., Iino, T., Kuroda, Y., Taguchi, K., Takahashi, H., Ohwada, T., Tsurumaru, H., Okubo, T., Minamisawa, K., and Ikeda, S. 2014. An assessment of the diversity of culturable bacteria from main root of sugar beet. Microbes Environ. 29:220-223. PMID: 24789987.

Mekha, N., Takashima, M., Boon-Long, J., Cho, O., and Sugita, T. 2014. Three new basidiomycetous yeasts, Pseudozyma alboarmeniaca sp. nov., Pseudozyma crassa sp. nov. and Pseudozyma siamensis sp. nov. isolated from Thai patients. Microbiol. Immunol. 58: 9-14. PMID: 24215507

Abbas, S., Ahmed, I., Kudo, T., Iida, T., Ali, G. M., Fujiwara, T., and Ohkuma, M. 2014. Heavy metal-tolerant and psychrotolerant bacterium Acinetobacter pakistanensis sp. nov., isolated from a textile dyeing wastewater treatment pond. Pak. J. Agric. Sci. 51: 595-608.

Kyrpides, N. C., Hugenholtz, P., Eisen, J. A., Woyke, T., Göker, M., Parker, C. T., Amann, R., Beck, B. J., Chain, P. S. G., Chun, J., Colwell, R. R., Danchin, A., Dawyndt, P., Dedeurwaerdere, T., DeLong, E. F., Detter, J. C., De, Vos, P., Donohue, T. J., Dong, X.-Z., Ehrlich, D. S., Fraser, C., Gibbs, R., Gilbert, J., Gilna, P., Glöckner, F. O., Jansson, J. K., Keasling, J. D., Knight, R., Labeda, D., Lapidus, A., Lee, J. S., Li, W.-J., Ma, J., Markowitz, V., Moore, E. R., Morrison, M., Meyer, F., Nelson, K. E., Ohkuma, M., Ouzounis, C. A., Pace, N., Parkhill, J., Qin, N., Rossello-Mora, R., Sikorski, J., Smith, D., Sogin, M., Stevens, R., Stingl, U., Suzuki, K., Taylor, D., Tiedje, J. M., Tindall, B., Wagner, M., Weinstock, G., Weissenbach, J., White, O., Wang, J., Zhang, L., Zhou, Y.-G., Field, D., Whitman, W. B., Garrity, G. M., and Klenk, H.-P. 2014. Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. PLOS Biol. 12: e1001920. PMID: 25093819.

Goto, Y., Obata, T., Kunisawa , J., Sato, S., Ivanov, I. I., Lamichhane, A., Takeyama, N., Kamioka, M., Sakamoto, M., Matsuki T., Setoyama, H., Imaoka, A., Uematsu, S., Akira, S., Domino, S. E., Kulig, P., Becher, B., Renauld, J. C., Sasakawa, C., Uemesaki, Y., Benno, Y., and Kiyono, H. 2014. Innate lymphoid cells regulate intestinal epithelial cell glycosylation. Science 345: 1254009. PMID: 25214634.

Tanimura, A., Takashima, M., Sugita, T., Endoh, R., Kikukawa, M., Yamaguchi, S., Sakuradani, E., Ogawa, J., Ohkuma, M., and Shima, J. 2014. Cryptococcus terricola is a promising oleaginous yeast for biodiesel production from starch through consolidated bioprocessing. Sci. Rep. 4: 4776. PMID: 24758986.

Itoh, T. 2014. The family Caldisphaeraceae, In: Rosenberg, E., DeLong, E. F., Lory, S., Stackebrandt, E., and Thompson, F. (eds.), The Prokaryotes – Other Major Lineages of Bacteria and the Archaea, pp. 25-28, Springer-Verlag, Heidelberg. DOI: 10.1007/978-3-642-38954-2_333.

Itoh, T. 2014. The family Thermoproteaceae, In: Rosenberg, E., DeLong, E. F., Lory, S., Stackebrandt, E., and Thompson, F. (eds.), The Prokaryotes – Other Major Lineages of Bacteria and the Archaea, pp. 389-401, Springer-Verlag, Heidelberg. DOI: 10.1007/978-3-642-38954-2_330.

Sakamoto, M. 2014. The family Porphyromonadaceae, In: Rosenberg, E., DeLong, E. F., Lory, S., Stackebrandt, E., and Thompson, F. (eds.), The Prokaryotes – Other Major Lineages of Bacteria and the Archaea, pp. 811-824, Springer-Verlag, Heidelberg. DOI: 10.1007/978-3-642-38954-2_132.

 

 

 

2013

Sitdhipol, J., Tanasupawat, S., Tepkasikul, P., Yukphan, P., Tosukhowong, A., Itoh, T., Benjakul, S., and Visessanguan, W. 2013. Identification and histamine formation of Tetragenococcus isolated from Thai fermented food products. Ann. Microbiol. 63: 745-753. DOI: 10.1007/s13213-012-0529-1.

Kim, T.-Y., Kim, S.-J., Park, S.-J., Kim, J.-G., Cha, I.-T., Jung, M.-Y., Lee, S.-A, Roh, S. W., Yim, K. J., Itoh, T., and Rhee, S.-K. 2013. Natronomonas gomsonensis sp. nov., isolated from a solar saltern. Antonie van Leeuwenhoek 104: 627-635. PMID: 23851717.

Kato, S., Chan, C., Itoh, T., and Ohkuma, M. 2013. Functional gene analysis of freshwater iron-rich flocs at circumneutral pH and isolation of a stalk-forming microaerophilic iron-oxidizing bacterium. Appl. Environ. Microbiol. 79: 138-145. PMID: 23811518.

Wu, L., Sun, Q., Sugawara, H., Yang, S., Zhou, Y., McCluskey, K., Vasilenko, A., Suzuki, K., Ohkuma, M., Lee, Y., Robert, V., Ingsriswang, S., Guissart, F., Philippe, D., and Ma, J. 2013. Global catalogue of microorganisms (gcm): a comprehensive database and information retrieval, analysis, andvisualization system for microbial resources. BMC Genomics 14: 933. PMID: 24377417.

Nakabachi, A., Ueoka, R., Oshima, K., Teta, R., Mangoni, A., Gurgui, M., Oldham, N. J., van Echten-Deckert, G., Okamura, K., Yamamoto, K., Inoue, H., Ohkuma, M., Hongoh, Y., Miyagishima, S, Hattori, M., Piel, J., Fukatsu, T. 2013. Defensive bacteriome symbiont with a drastically reduced genome. Curr. Biol. 23: 1478-1484. PMID: 23850282.

Kato, S., Nakawake, M., Kita, J., Yamanaka, T., Utsumi, M., Okamura, K., Ishibashi, J., Ohkuma, M., and Yamagishi, A. 2013. Characteristics of microbial communities in crustal fluids in a deep-sea hydrothermal field of the suiyo seamount. Front. Microbiol. 4:85. PMID: 23626587.

Mino, S., Makita, H., Toki, T., Miyazaki, J., Kato, S., Watanabe, H., Imachi, H., Watsuji, T., Nunoura, T., Kojima, S., Sawabe, T., Takai, K., and Nakagawa, S. 2013. Biogeography of Persephonella in deep-sea hydrothermal vents of the Western Pacific. Front. Microbiol. 4:107. PMID: 23630523.

Sakamoto, M., Tanaka, N., Shiwa, Y., Yoshikawa, H., and Ohkuma, M. 2013. Draft genome sequences of Porphyromonas crevioricanis JCM 15906T and Porphyromonas cansulci JCM 13913T isolated from a canine oral cavity. Genome Announc. 1: e00483-13. PMID: 23887912.

Sakamoto, M. and Ohkuma, M. 2013. Porphyromonas crevioricanis is an earlier heterotypic synonym of Porphyromonas cansulci and has priority. Int. J. Syst. Evol. Microbiol. 63: 454-457. PMID: 22467157.

Songsumanus, A., Tanasupawat, S., Igarashi, Y., and Kudo, T. 2013. Micromonospora maritima sp. nov., isolated from mangrove soil. Int. J. Syst. Evol. Microbiol. 63: 554-559. PMID: 22523171.

Supong, K., Suriyachadkun, C., Tanasupawat, S., Suwanborirux, K., Pittayakhajonwut, P., Kudo, T., and Thawai, C. 2013. Micromonospora sediminicola sp. nov., isolated from marine sediment. Int. J. Syst. Evol. Microbiol. 63: 570-575. PMID: 22523170.

Sakamoto, M. and Ohkuma, M. 2013. Bacteroides reticulotermitis sp. nov., isolated from the gut of a subterranean termite (Reticulitermes speratus). Int. J. Syst. Evol. Microbiol. 63: 691-695. PMID: 22544795.

Shimoshige, H., Yamada, T., Minegishi, H., Echigo, A., Shimane, Y., Kamekura, M., Itoh, T., and Usami, R. 2013. Halobaculum magnesiiphilum sp. nov., a magnesium-dependent haloarchaeon isolated from commercial salt. Int. J. Syst. Evol. Microbiol. 63: 861-866. PMID: 22611203.

Shimane, Y., Nagaoka, S., Minegishi, H., Kamekura, M., Echigo, A., Hatada, Y., Ito, T., and Usami, R. 2013. Natronoarchaeum philippinense sp. nov., a haloarchaeon isolated from commercial solar salt. Int. J. Syst. Evol. Microbiol. 63: 920-924. PMID: 22659499.

Thawai, C., Thamsathit, W., and Kudo, T. 2013. Planosporangium thailandense sp. nov., isolated from soil from a Thai hot spring. Int. J. Syst. Evol. Microbiol. 63: 1051-1055. PMID: 22707531.

Yamauchi, Y., Minegishi, H., Echigo, A., Shimane, Y., Shimoshige, H., Kamekura, M., Itoh, T., Doukyu, N., Inoue, A., and Usami, R. 2013. Halarchaeum salinum sp. nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt. Int. J. Syst. Evol. Microbiol. 63: 1138-1142. PMID: 22753525.

Tohno, M., Kitahara, M., Inoue, H., Uegaki, R., Irisawa, T., Ohkuma, M., and Tajima, K. 2013. Weissella oryzae sp. nov., isolated from fermented rice grains. Int. J. Syst. Evol. Microbiol. 63: 1417-1420. PMID: 22843715.

Ziegler, S., Waidner, B., Itoh, T., Schumann, P., Spring, S., and Gescher, J. 2013. Metallibacterium scheffleri gen. nov., sp. nov., an alkalinizing gammaproteobacterium isolated from an acidic biofilm. Int. J. Syst. Evol. Microbiol. 63: 1499-1504. PMID: 22863988.

Promnuan, Y., Kudo, T., Ohkuma, M., and Chantawannakul, P. 2013. Streptomyces chiangmaiensis sp. nov. and Streptomyces lannensis sp. nov., isolated from the South-East Asian stingless bee (Tetragonilla collina). Int. J. Syst. Evol. Microbiol. 63: 1896-1901. PMID: 23002051.

Tohno, M., Kitahara, M., Uegaki, R., Irisawa, T., Ohkuma, M., and Tajima, K. 2013. Lactobacillus hokkaidonensis sp. nov., isolated from subarctic timothy grass (Phleum pratense L.) silage. Int. J. Syst. Evol. Microbiol. 63: 2526-2531. PMID: 23223820.

Azuma, R., Ung-Bok, B., Murakami, S., Ishiwata, H., Osaki, M., Shimada, N., Ito, Y., Miyagawa, E., Makino, T., Kudo, T., Takahashi, Y., Yano, I., Murata, R., and Yokoyama, E. 2013. Tonsilliphilus suis gen. nov., sp. nov., causing tonsil infections in pigs. Int. J. Syst. Evol. Microbiol. 63: 2545-2552. PMID: 23243095.

Tohno, M., Kitahara, M., Irisawa, T., Inoue, H., Uegaki, R., Ohkuma, M., and Tajima, K. 2013. Lactobacillus oryzae sp. nov., isolated from fermented rice grain (Oryza sativa L. subsp. japonica). Int. J. Syst. Evol. Microbiol. 63: 2957-2962. PMID: 23378109.

Yamauchi, Y., Minegishi, H., Echigo, A., Shimane, Y., Kamekura, M., Itoh, T., Ohkuma, M., Doukyu, N., Inoue, A., and Usami, R. 2013. Halarchaeum rubridurum sp. nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt samples. Int. J. Syst. Evol. Microbiol. 63: 3143-3147. PMID: 23435243.

Kitahara, M., Sakamoto, M., Tsuchida, S., Kawasumi, K., Amao, H., Benno, Y., and Ohkuma, M. 2013. Parabacteroides chinchillae sp. nov., isolated from chinchilla (Chincilla lanigera) faeces. Int. J. Syst. Evol. Microbiol. 63: 3470-3474. PMID: 23563230.

Echigo, A., Minegishi, H., Shimane, Y., Kamekura, M., Itoh, T., and Usami R. 2013. Halomicroarcula pellucida gen. nov., sp. nov., a non-pigmented, transparent-colony-forming, halophilic archaeon isolated from solar salt. Int. J. Syst. Evol. Microbiol. 63: 3556-3562. PMID: 23563231.

Tohno, M., Kitahara, M., Irisawa, T., Masuda, T., Uegaki, R., Ohkuma, M., and Tajima, K. 2013. Description of Lactobacillus iwatensis sp. nov., isolated from orchardgrass (Dactylis glomerata L.) silage, and Lactobacillus backii sp. nov. Int. J. Syst. Evol. Microbiol. 63: 3854-3860. PMID: 23687059.

Minegishi, H., Yamauchi, Y., Echigo, A., Shimane, Y., Kamekura, M., Itoh, T., Ohkuma, M., and Usami, R. 2013. Halarchaeum nitratireducens sp. nov., a moderately acidophilic haloarchaeon isolated from commercial sea salt. Int. J. Syst. Evol. Microbiol. 63: 4202-4206. PMID: 23771625.

Endo, A., Irisawa, T., Futagawa-Endo, Y., Salminen, S., Ohkuma, M., and Dicks, L. 2013. Lactobacillus faecis sp. nov., isolated from animal faeces. Int. J. Syst. Evol. Microbiol. 63: 4502-4507. PMID: 23907223.

Tohno, M., Kitahara, M., Irisawa, T., Masuda, T., Uegaki, R., Ohkuma, M., and Tajima, K. 2013. Lactobacillus silagei sp. nov., isolated from orchardgrass silage. Int. J. Syst. Evol. Microbiol. 63: 4613-4618. PMID: 23919960.

Koyanagi, T., Sakamoto, M., Takeuchi, Y., Maruyama, N., Ohkuma, M., and Izumi, Y. 2013. Comprehensive microbiological findings in peri-implantitis and periodontitis. J. Clin. Periodontol. 40: 218-226. PMID: 23294017.

Hattori, S., Hongoh, Y., Itoh, T., Deevong, P., Trakulnaleamsai, S., Noparatnaraporn, N., Kudo, T., and Ohkuma, M. 2013. Sporomusa intestinalis sp. nov., a homoacetogenic bacterium isolated from the gut of a higher termite, Termes comis (Termitinae). J. Gen. Appl. Microbiol. 59: 321-324. PMID: 24005182.

Hamana, K., Hayashi, H., Niitsu, M., Takeda, A., and Itoh, T. 2013. Cellular polyamines of alkaliphilic, halophilic and thermophilic methanogens, and acidophilic and alkaliphilic extreme halophiles, and acidophilic thermophiles belonging to the domain Archaea. -Polyamine catalogues of bacterial (eubacterial) and archaeal (archaebacterial) extremophiles VII-. J. Jpn. Soc. Extremophiles 12: 18-28.

Songsumanus, A., Kudo, T., Igarashi, Y., and Tanasupawat, S. 2013. Characterization and screening of antimicrobial activity of Micromonospora strains from Thai soils. Malaysian J. Microbiol. 9: 260-269. DOI: 10.21161/mjm.51913.

Iino, T., Tamaki, H., Tamazawa, S., Ueno, Y., Ohkuma, M., Suzuki, K., Igarashi, Y., and Haruta, S. 2013. Candidatus Methanogranum caenicola: a novel methanogen from the anaerobic digested sludge, and proposal of Methanomassiliicoccaceae fam. nov. and Methanomassiliicoccales ord. nov., for a methanogenic lineage of the class Thermoplasmata. Microbes Environ. 28: 244-250. PMID: 23524372.

Lorliam, W., Akaracharanya, A., Suzuki, M., Ohkuma, M., and Tanasupawat, S. 2013. Diversity and fermentation products of xylose-utilizing yeasts isolated from buffalo feces in Thailand. Microbes Environ. 28: 354-360. PMID: 24005843.

Nakabachi, A., Nikoh, N., Oshima, K., Inoue, H., Ohkuma, M., Hongoh, Y., Miyagishima, S., Hattori, M., and Fukatsu, T. 2013. Horizontal gene acquisition of liberibacter plant pathogens from a bacteriome-confined endosymbiont of their psyllid vector. PLOS ONE 8: e82612. PMID: 24349319.

Doi, K., Nishizaki, Y., Kimura, H., Kitahara, M., Fujino, Y., Ohmomo, S., Ohshima, T., and Ogata, S. 2013. Identification of thermo tolerant lactic acid bacteria isolated from silage prepared in the hot and humid climate of Southwestern Japan. SpringerPlus 2: 485. PMID: 24130959.

Yarza, P., Spröer, C., Swiderski, J., Mrotzek, N., Spring, S., Tindall, B. J., Gronow, S., Pukall, R., Klenk, H.-P., Lang, E., Verbarg, S., Crouch, A., Lilburn, T., Beck, B., Unosson, C., Cardew, S., Moore, E. R. B., Gomila, M., Nakagawa, Y., Janssens, D., De Vos, P., Peiren, J., Suttels, T., Clermont, D., Bizet, C., Sakamoto, M., Iida, T., Kudo, T., Kosako, Y., Oshida, Y., Ohkuma, M., Arahal, D. R. Spieck, E., Pommerening Roeser, A., Figge, M., Park, D., Buchanan, P., Cifuentes, A., Munoz, R., Euzéby, J. P., Schleifer, K.-H., Ludwig, W., Amann, R., Glöckner, F. O., and Rosselló-Móra, R. 2013. Sequencing orphan species initiative (SOS): Filling the gaps in the 16S rRNA gene sequence database for all species with validly published names. Syst. Appl. Microbiol. 36: 69-73. PMID: 23410935.

Itoh, T. and Iino, T. 2013. Phylogeny and biological features of thermophiles, In: Satyanarayana, T., Littlechild, J., and Kawarabayasi, Y. (eds.), Thermophilic Microbes in Environmental and Industrial Biotechnology, 2nd ed., pp. 249-270, Springer, Dordrecht. DOI: 10.1007/978-94-007-5899-5_9.

 

 

 

2012

Tohno, M., Kobayashi, H., Nomura, M., Kitahara, M., Ohkuma, M., Uegaki, R., and Cai, Y. 2012. Genotypic and phenotypic characterization of lactic acid bacteria isolated from Italian ryegrass silage. Anim. Sci. J. 83: 111-120. PMID: 22339691.

Saksinchai, S., Suzuki, M., Lumyong, S., Ohkuma, M., and Chantawannakul, P. 2012. Two new species of the genus Candida in the Zygoascus clade, Candida lundiana sp. nov. and Candida suthepensis sp. nov., isolated from raw honey in Thailand. Antonie van Leeuwenhoek 101: 633-640. PMID: 22105532.

Mori, K., Iino, T., Suzuki, K., Yamaguchi, K., and Kamagata, Y. 2012. Aceticlastic and NaCl-requiring methanogen “Methanosaeta pelagica” sp. nov., isolated from marine tidal flat sediment. Appl. Environ. Microbiol. 78: 3416-3423. PMID: 22344667.

Kato. S., Nakawake, M., Ohkuma, M., and Yamagishi, A. 2012. Distribution and phylogenetic diversity of cbbM genes encoding RubisCO form II in a deep-sea hydrothermal field revealed by newly designed PCR primers. Extremophiles 16: 277-283. PMID: 22212659.

Kato, S., Nakamura, K., Toki T., Ishibashi J., Tsunogai, U., Hirota, A., Ohkuma, M., and Yamagishi, A. 2012. Iron-based microbial ecosystem on and below the seafloor: a case study of hydrothermal fields of the Southern Mariana Trough. Front. Microbiol. 3: 89. PMID: 22435065.

Liu, Z., Frigaard, N.-U., Vogl, K., Iino, T., Ohkuma, M., Overmann, J., and Bryant, D. A. 2012. Complete genome of Ignavibacterium album, a metabolically versatile, flagellated, facultative anaerobe from the phylum Chlorobi. Front. Microbiol. 3: 185. PMID: 22661972.

An, K.-D., Degawa, Y., Fujihara, E., Mikawa, T., Ohkuma, M., and Okada, G. 2012. Molecular phylogenetic analyses based on the nuclear rRNA genes and the intron-exon structures of the nuSSU rRNA gene in Dictyocatenulata alba (anamorphic Ascomycota). Fungal Biol. 116: 1134-1145. PMID: 23153804.

Saksinchai, S., Suzuki, M., Chantawannakul, P., Ohkuma, M., and Lumyong, S. 2012. A novel ascosporogenous yeast species, Zygosaccharomyces siamensis, and the sugar tolerant yeasts associated with raw honey collected in Thailand. Fungal Divers. 52: 123-139. DOI: 10.1007/s13225-011-0115-z.

Kato, S., Kikuchi, S., Kashiwabara, T., Takahashi, Y., Suzuki, K., Ito, T., Ohkuma, M., and Yamagishi, A. 2012. Prokaryotic abundance and community composition in a freshwater iron-rich microbial mat at circumneutral pH. Geomicrobiol. J. 29: 896-905. DOI: 10.1080/01490451.2011.635763.

Mori, K., Iino, T., Ishibashi, J., Kimura, H., Hamada, M., and Suzuki, K. 2012. Meiothermus hypogaeus sp. nov., a moderately thermophilic bacterium isolated from a hot spring. Int. J. Syst. Evol. Microbiol. 62: 112-117. PMID: 21335495.

Minegishi, H., Kamekura, M., Kitajima-Ihara, T., Nakasone, K., Echigo, A., Shimane, Y., Usami, R., Itoh, T., and Ihara, K. 2012. Gene orders in the upstream of 16S rRNA genes divide genera of the family Halobacteriaceae into two groups. Int. J. Syst. Evol. Microbiol. 62: 188-195. PMID: 21378133.

Cai, Y., Pang, H., Kitahara, M., and M. Ohkuma 2012. Lactobacillus nasuensis sp. nov., a lactic acid bacterium isolated from silage, and emended description of the genus Lactobacillus. Int. J. Syst. Evol. Microbiol. 62: 1140-1144. PMID: 21724957.

Kitahara, M., Sakamoto, M., Tsuchida, S., Kawasumi, K., Amao, H., Benno, Y., and Ohkuma, M. 2012. Bacteroides stercorirosoris sp. nov. and Bacteroides faecichinchillae sp. nov., isolated from chinchilla (Chinchilla lanigera) faeces. Int. J. Syst. Evol. Microbiol. 62: 1145-1150. PMID: 21724955.

Sakamoto, M. and Ohkuma, M. 2012. Bacteroides sartorii is an earlier heterotypic synonym of Bacteroides chinchillae and has priority. Int. J. Syst. Evol. Microbiol. 62: 1241-1244. PMID: 21764984.

Iino, T., Suzuki, R., Tanaka, N., Kosako, Y., Ohkuma, M., Komagata, K., and Uchimura, T. 2012. Gluconacetobacter kakiaceti sp. nov., an acetic acid bacterium isolated from a traditional Japanese fruit vinegar. Int. J. Syst. Evol. Microbiol. 62: 1465-1469. PMID: 21841006.

Thawai, C. and Kudo, T. 2012. Promicromonospora thailandica sp. nov., isolated from marine sediment. Int. J. Syst. Evol. Microbiol. 62: 2140-2144. PMID: 22058317.

Pang, H., Kitahara, M., Tan, Z., Wang, Y., Qin, G., Ohkuma, M., and Cai, Y. 2012. Reclassification of Lactobacillus kimchii and Lactobacillus bobalius as later subjective synonyms of Lactobacillus paralimentarius. Int. J. Syst. Evol. Microbiol. 62: 2383-2387. PMID: 22140166.

Jabari, L., Gannoun, H., Cayol, J.-L., Hedi, A., Sakamoto, M., Falsen, E., Ohkuma, M., Hamdi, M., Fauque, G., Ollivier, B., and Fardeau, M.-L. 2012. Macellibacteroides fermentans gen. nov., sp. nov., a member of the family Porphyromonadaceae isolated from an upflow anaerobic filter treating abattoir wastewaters. Int. J. Syst. Evol. Microbiol. 62: 2522-2527. PMID: 22180609.

Sakamoto, M. and Ohkuma, M. 2012. Reclassification of Xylanibacter oryzae Ueki et al. 2006 as Prevotella oryzae comb. nov., with an emended description of the genus Prevotella. Int. J. Syst. Evol. Microbiol. 62: 2637-2642. PMID: 22199207.

Thanh, V. N., Hai, D. A., Hien, D. D., Takashima, M., and Lachance, M.-A. 2012. Moniliella carnis sp. nov. and Moniliella dehoogii sp. nov., two novel species of black yeasts isolated from meat processing environments. Int. J. Syst. Evol. Microbiol. 62: 3088-3094. PMID: 22863989.

Iino, T., Suzuki, R., Kosako, Y., Ohkuma, M., Komagata, K., and Uchimura, T. 2012. Acetobacter okinawensis sp. nov., Acetobacter papayae sp. nov., and Acetobacter persicus sp. nov.; novel acetic acid bacteria isolated from stems of sugarcane, fruits, and a flower in Japan. J. Gen. Appl. Microbiol. 58: 235-243. PMID: 22878741.

Hamana, K., Itoh, T., Sakamoto, M., and Hayashi, H. 2012. Covalently linked polyamines in the cell wall peptidoglycan of the anaerobes belonging to the order Selenomonadales. J. Gen. Appl. Microbiol. 58: 339-347. PMID: 22990495.

Thong-On, A., Suzuki, K., Noda, S., Inoue, J., Kajiwara, S., and Ohkuma, M. 2012. Isolation and characterization of anaerobic bacteria for symbiotic recycling of uric acid nitrogen in the gut of various termites. Microbes Environ. 27: 186-192. PMID: 22791052.

Furiya, N., Takamshima, M., and Shiotani, T. 2012. Reclassification of citrus pseudo greasy spot causal yeasts, and a proposal of two new species, Sporobolomyces productus sp. nov. and S. corallinus sp. nov. Mycoscience 53: 261-269. DOI: 10.1007/S10267-011-0163-Y.

Schoch, C. L., Seifert, K. A., Huhndorf, S., Robert, S., Spouge, J. L., Levesque, C. A., Chen, W., and Fungal Barcoding Consortium. 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. PNAS 109: 6241-6246. PMID: 22454494.

Noda, S., Mantini, C., Meloni, D., Inoue, J., Kitade, O., Viscogliosi, E., and Ohkuma, M. 2012. Molecular phylogeny and evolution of Parabasalia with improved taxon sampling and new protein markers of actin and elongation factor-1α. PLOS ONE 7: e29938. PMID: 22253832

Takashima, M., Sugita, T., Van, B. H., Nakamura, M., Endoh, R., and Ohkuma, M. 2012. Taxonomic richness of yeasts in Japan within subtropical and cool temperate areas. PLOS ONE 7: e50784. PMID: 23226383

Sato, H., Torimura, M., Kitahara, M.,Ohkuma, M., Hotta, Y., and Tamura, H. 2012. Characterization of the Lactobacillus casei group based on the profiling of ribosomal proteins coded in S10-spc-alpha operons as observed by MALDI-TOF MS. Syst. App. Microbiol. 35: 447-454. PMID: 23099260.

Katano, Y., Fujinami, S., Kawakoshi, A., Nakazawa, H., Oji, S., Iino, T., Oguchi, A., Ankai, A., Fukui, S., Terui, Y., Kamata, S., Harada, T., Tanikawa, S., Suzuki, K., and Fujita, N. 2012. Complete genome sequence of Oscillibacter valericigenes Sjm18-20T (=NBRC 101213T). Stand. Genomic Sci. 6: 406-414. PMID: 23408234.

Okuda, T., Ono, Y., Aoki, T., and Okada, G. 2012. The Mycological Society of Japan and the Melbourne Code. IMA Fungus 3: 48-52. PDF.

Enache, M., Popescu, G., Itoh, T., and Kamekura, M. 2012. Halophilic microorganisms from man-made and natural hypersaline environments: physiology, ecology, and biotechnological potential, In: Stan-Lotter, H. and Fendrihan, S. (eds.), Adaption of Microbial Life to Environmental Extremes, pp. 173-197, Springer-Verlag, Wien. DOI: 10.1007/978-3-211-99691-1_8.

Kudo, T. 2012. Herbidospora Kudo, Itoh, Miyadoh, Shomura and Seino 1993, 327VP, In: Goodfellow, M., Kampfer, P., Busse, H.-J., Trujillo, M. E., Suzuki, K., Ludwig, W., and Whitman, W. B. (eds.), Bergey’s Manual of Systematic Bacteriology, 2nd ed., vol. 5, pp. 1827-1831, Springer, New York. DOI: 10.1002/9781118960608.gbm00199.

 

 

 

2011

Todaka, T., Nakamura, R., Moriya, S., Ohkuma, M., Kudo, T., Takahashi, H., and Ishida, N. 2011. Screening of optimal cellulases from symbiotic protists of termites through expression in the secretory pathway of Saccharomyces cerevisiae. Biosci. Biotechnol. Biochem. 75: 2260-2263. DOI: 10.1271/bbb.110490.

Kato, S., Itoh, T., and Yamagishi, A. 2011. Archaeal diversity in a terrestrial acidic spring field revealed by a novel PCR primer targeting archaeal 16S rRNA genes. FEMS Microbiol. Lett. 319: 34-43. PMID: 21410512.

Takeda, T., Yun, C.-S., Shintani, M., Yamane, H., and Nojiri, H. 2011. Distribution of genes encoding nucleoid-associated protein homologs in plasmids. Int. J. Evol. Biol. 2011: 685015. PMID: 21350637.

Namwong, S., Tanasupawat, S., Kudo, T., and Itoh, T. 2011. Haloarcula salaria sp. nov. and Haloarcula tradensis sp. nov., isolated from salt in Thai fish sauce. Int. J. Syst. Evol. Microbiol. 61: 231-236. PMID: 20207809.

Tanaka, N., Romanenko, L. A., Iino, T., Frolova, G. A., and Mikhailov, V. V. 2011. Cocleimonas flava gen. nov., sp. nov., a gammaproteobacterium isolated from sand snail (Umbonium costatum). Int. J. Syst. Evol. Microbiol. 61: 412-416. PMID: 20348322.

Thawai, C., Tanasupawat, S., Suwanborirux, K., and Kudo, T. 2011. Agromyces tropicus sp. nov., isolated from soil. Int. J. Syst. Evol. Microbiol. 61: 605-609. PMID: 20435752.

Moriya, T., Hikota, T., Yumoto, I., Ito, T., Terui, Y., Yamagishi, A., and Oshima, T. 2011. Calditerricola satsumensis gen. nov., sp. nov. and Calditerricola yamamurae sp. nov., extreme thermophiles isolated from a high-temperature compost. Int. J. Syst. Evol. Microbiol. 61: 631-636. PMID: 20400666.

Kitahara, M., Tsuchida, S., Kawasumi, K., Amao, H., Sakamoto, M., Benno, Y., and Ohkuma, M. 2011. Bacteroides chinchillae sp. nov. and Bacteroides rodentium sp. nov., isolated from chinchilla (Chinchilla lanigera) faeces. Int. J. Syst. Evol. Microbiol. 61: 877-881. PMID: 20495039.

Inoue, K, Itoh, T., Ohkuma, M., and Kogure, K. 2011. Halomarina oriensis gen. nov., sp. nov., a halophilic archaeon isolated from a seawater aquarium. Int. J. Syst. Evol. Microbiol. 61: 942-946. PMID: 20495022.

Péter, G., Dlauchy, D., Tornai-Lehoczki, J., Suzuki, M., and Kurtzman, C. P. 2011. Spencermartinsiella europaea gen. nov., sp. nov., a new member of the family Trichomonascaceae. Int. J. Syst. Evol. Microbiol. 61: 993-1000. PMID: 20435745.

Shibazaki, A., Omoto, Y., Kudo, T., Yaguchi, T., Saito, A., Ando, A., Mikami, Y., and Gonoi, T. 2011. Streptomyces coacervatus sp. nov., isolated from the intestinal tract of Armadillidium vulgare. Int. J. Syst. Evol. Microbiol. 61: 1073-1077. PMID: 20525817.

Songsumanus, A., Tanasupawat, S., Thawai, C., Suwanborirux, K., and Kudo, T. 2011. Micromonospora humi sp. nov., isolated from peat swamp forest soil. Int. J. Syst. Evol. Microbiol. 61: 1176-1181. PMID: 20562246.

Itoh, T., Yamanoi, K., Kudo, T., and Takashina, T. 2011. Aciditerrimonas ferrireducens gen. nov., sp. nov., an iron-reducing thermoacidophilic actinobacterium isolated from a solfataric field. Int. J. Syst. Evol. Microbiol. 61: 1281-1285. PMID: 20639230.

Kawasaki, S., Kurosawa, K., Miyazaki, M., Yagi, C., Kitajima, Y., Tanaka, S., Irisawa, T., Okada, S., Sakamoto, M., Ohkuma, M., and Niimura, Y. 2011. Lactobacillus floricola sp. nov., lactic acid bacteria isolated from mountain flowers. Int. J. Syst. Evol. Microbiol. 61: 1356-1359. PMID: 20601482.

Cai, Y., Yang, J., Pang, H., and Kitahara, M. 2011. Lactococcus fujiensis sp. nov., a lactic acid bacterium isolated from vegetable matter. Int. J. Syst. Evol. Microbiol. 61: 1590-1594. PMID: 20675438.

Takashima, M., Van, B. H., An, K.-D., and Ohkuma, M. 2011. Dioszegia rishiriensis sp. nov., a novel yeast species from soil collected on Rishiri Island, Hokkaido, Japan. Int. J. Syst. Evol. Microbiol. 61: 1736-1739. PMID: 20656806.

Promnuan, Y., Kudo, T., Ohkuma, M., and Chantawannakul, P. 2011. Actinomadura apis sp. nov., isolated from a honey bee (Apis mellifera) hive, and the reclassification of Actinomadura cremea subsp. rifamycini Gauze et al. 1987 as Actinomadura rifamycini (Gauze et al. 1987) sp. nov., comb. nov. Int. J. Syst. Evol. Microbiol. 61: 2271-2277. PMID: 20952541.

Thawai, C., Tanasupawat, S., Kudo, T. 2011. Dactylosporangium tropicum sp. nov., isolated from soil. Int. J. Syst. Evol. Microbiol. 61: 2358-2362. PMID: 21037030.

Kawasaki, S., Kurosawa, K., Miyazaki, M., Sakamoto, M., Ohkuma, M., Niimura, Y. 2011. Lactobacillus ozensis sp. nov., isolated from mountain flowers. Int. J. Syst. Evol. Microbiol. 61: 2435-2438. PMID: 21075903.

Morita, T., Ogura, Y., Takashima, M., Hirose, N., Fukuoka, T., Imura, T., Kondo, Y., and Kitamoto, D. 2011. Isolation of Pseudozyma churashimaensis sp. nov., a novel ustilaginomycetous yeast species as a producer of glycolipid biosurfactants, mannosylerythritol lipds. J. Biosci. Bioeng. 112: 137-144. PMID: 21606002.

Hamana, K., Hayashi, H., Niitsu, M., Sugata, D., Higuchi, K., and Itoh, T. 2011. Cellular distribution of unusual long linear and branched polyamines within the newly validated thermophiles belonging to the bacterial orders Thermoanaerobacterales and Clostridiales. -Polyamine catalogues of bacterial (eubacterial) and archaeal (archaebacterial) extremophiles VI-. J. Jpn. Soc. Extremophiles 10: 83-89.

Park, S., Yokota, A., Itoh, T., and Park, J.-S. 2011. Sphingomonas jejuensis sp. nov., isolated from marine sponge Hymeniacidon flavia. J. Microbiol. 49: 238-242. PMID: 21538244.

Odamaki, T., Yonezawa, S., Kitahara, M., Sugahara, Y., Xiao, J.-Z., Yaeshima, T., Iwatsuki, K., and Ohkuma, M. 2011. Novel multiplex polymerase chain reaction primer set for identification of Lactococcus species. Lett. Appl. Microbiol. 52: 491-496. PMID: 21299580.

Shintani, M., Horisaki, T., Yamane, H., Ohkuma, M., and Nojiri, H. 2011. Evolution of the IncP-7 carbazole-degradative plasmid pCAR1 improves survival of its host Psudomonas fluorescens Pf0-1 in artificial water microcosms. Microbiology 157: 2276-2286. PMID: 21565929.

Sakamoto, M. and Ohkuma, M. 2011. Identification and classification of the genus Bacteroides by multilocus sequence analysis. Microbiology 157: 3388-3397. PMID: 21948050.

Shintani, M., Matsumoto, T., Yoshikawa, H., Yamane, H., Ohkuma, M., and Nojiri, H. 2011. DNA rearrangement has occured in the carbazole degradative plasmid pCAR1 and the chromosome of its unsuitable plasmid host, Pseudomonas fluorescens Pf0-1. Microbiology 157: 3405-3416. PMID: 21948045.

Endoh, R., Suzuki, M., Okada, G., Takeuchi, Y., and Futai, K. 2011. Fungus symbionts colonizing the galleries of the ambrosia beetle Platypus quercivorus. Mirob. Ecol. 62: 106-120. PMID: 21384214.

Gams, W., Jaklitsch, W., and 77 signatories. 2011. Fungal nomenclature 3. A critical response to the ‘Amsterdam Declaration’. Mycotaxon 116: 501-512. DOI: 10.5248/116.501.

Crous, P. W., Groenewald, J. Z., Shivas, R. G., Edwards, J., Seifert, K. A., Alfenas, A. C., Alfenas, R. F., Burgess, T. I., Carnegie, A. J., Hardy, G. E. St. J., Hiscock, N., Huberli, D., Jung, T., Louis-Seize, G., Okada, G., Pereira, O. L., Stukely, M. J. C., Wang, W., White, G. P., Young, A. J., McTaggart, A. R., Pascoe, I. G., Porter, I. J., and Quaedvlieg, W. 2011. Fungal Planet description sheets: 69-91. Persoonia 26: 108-156. PMID: 22025808.

Shintani, M., Tokumaru, H., Takahashi, Y., Miyakoshi, M., Yamane, H., Nishida, H., and Nojiri, H. 2011. Alterations of RNA maps of IncP-7 plasmid pCAR1 in various Pseudomonas bacteria. Plasmid 66: 85-92. PMID: 21708189.

Sugita, T., Tajima, M., Tsubuku, H., Miyamoto, M., Zhang, E., Tsuboi, R., Takashima, M., Ishibashi, Y., and Nishikawa, A. 2011. Malasseizia, In: Liu, D. (ed.), Molecular Detection of Human Fungal Pathogens, pp. 643-651, CRC Press, New York.

Sugita, T., Ikeda, R., Nishikawa, A., Takashima, M., Mekha, N., Poonwan, N., Kalkanci, A., and Kustimur, S. 2011. Trichosporon, In: Liu, D. (ed.), Molecular Detection of Human Fungal Pathogens, pp. 681-686, CRC Press, New York.

Seifert, K. and Okada, G. 2011. Keys: Synnematous hyphomycete genera, In: Seifert, K., Morgan-Jones, G., Gams, W., and Kendrick, B. (eds.), The Genera of Hyphomycetes, pp. 929-940, CBS-KNAW Fungal Biodiversity Centre, Utrecht, Netherlands.

Takashima, M. and Nakase, T. 2011. Dioszegia Zsolt emend. Takashima, Deak & Nakase (2001), In: Kurtzman, C. P., Fell, J. W., and Boekhout, T. (eds.), The Yeasts – A Taxonomic Study (5th ed.), pp. 1747-1757, Elsevier, San Diego.

Takashima, M. and Nakase, T. 2011. Kockovaella Nakase, Banno & Yamada (1991), In: Kurtzman, C. P., Fell, J. W., and Boekhout, T. (eds.), The Yeasts – A Taxonomic Study (5th ed.), pp. 1781-1794, Elsevier, San Diego.

Takashima, M. and Nakase, T. 2011. Udeniomyces Nakase & Takematsu (1992), In: Kurtzman, C. P., Fell, J. W., and Boekhout, T. (eds.), The Yeasts – A Taxonomic Study (5th ed.), pp. 2063-2068, Elsevier, San Diego.

 

 

 

2010

Morita, T., Takashima, M., Fukuoka, T., Konishi, M., Imura, T., and Kitamoto, D. 2010. Isolation of basidiomycetous yeast Pseudozyma tsukubaensis and production of glycolipid biosurfactant, a diastereomer type of mannosylerythritol lipid-B. Appl. Microbiol. Biotechnol. 88: 679-688. PMID: 20652239.

Yamagishi, A., Yokobori, S., Yoshimura, Y., Yamashita, M., Hashimoto, H., Kubota, T., Yano, H., Haruyama, J., Tabata, M., Kobayashi, K., Honda, H., Utsumi, Y., Saiki, T., Itoh, T., Miyakawa, A., Hamase, K., Naganuma, T., Mita, H., Tonokura, K., Sasaki, S., and Miyamoto, H. 2010. Japan Astrobiology Mars Project (JAMP): Search for microbes on the Mars surface with special interest in methane-oxidizing bacteria. Biol. Sci. Space 24: 67-82. DOI: 10.2187/bss.24.67.

Nakazawa, Y., Suzuki, R., Uchino, M., Sagane, Y., Kudo, T., Nagai, T., Sato, H., and Takano, K. 2010. Identification of actinomycetes producing phospholipase D with high transphosphatidylation activity. Curr. Microbiol. 60: 365-372. PMID: 19937030.

Kitahara, M., Sakamoto, M., and Benno, Y. 2010. Lactobacillus similis sp. nov., isolated from fermented cane molasses. Int. J. Syst. Evol. Microbiol. 60: 187-190. PMID: 19648343.

Sakamoto, M., Suzuki, N., and Okamoto, M. 2010. Prevotella aurantiaca sp. nov., isolated from the human oral cavity. Int. J. Syst. Evol. Microbiol. 60: 500-503. PMID: 19654360.

Tanasupawat, S., Jongrungruangchok, S., and Kudo, T. 2010. Micromonospora marina sp. nov., isolated from sea sand. Int. J. Syst. Evol. Microbiol. 60: 648-652. PMID: 19656925.

Yang, Y., Itoh, T., Yokobori, S., Shimada, H., Itahashi, S., Satoh, K., Ohba, H., Narumi, I., and Yamagishi, A. 2010. Deinococcus aetherius sp. nov., isolated from the stratosphere. Int. J. Syst. Evol. Microbiol. 60: 776-779. PMID: 19656935.

Chamroensaksri, N., Tanasupawat, S., Akaracharanya, A., Visessanguan, W., Kudo, T., and Itoh, T. 2010. Gracilibacillus thailandensis sp. nov., from fermented fish (pla-ra). Int. J. Syst. Evol. Microbiol. 60: 944-948. PMID: 19661518.

Burns, D. G., Janssen, P. H., Itoh, T., Minegishi, H., Usami, R., Kamekura, M., and Dyall-Smith, M. L. 2010. Natronomonas moolapensis sp. nov., non-alkaliphilic isolates recovered from a solar saltern crystallizer pond, and emended description of the genus Natronomonas. Int. J. Syst. Evol. Microbiol. 60: 1173-1176. PMID: 19667395.

Burns, D. G., Janssen, P. H., Itoh, T., Kamekura, M., Echigo, A., and Dyall-Smith, M. L. 2010. Halonotius pteroides gen. nov., sp. nov., an extremely halophilic archaeon recovered from a saltern crystallizer. Int. J. Syst. Evol. Microbiol. 60: 1196-1199. PMID: 19667389.

Vishniac, H. S. and Takashima, M. 2010. Rhodotorula arctica sp. nov., a basidiomycetous yeast from Arctic soil. Int. J. Syst. Evol. Microbiol. 60: 1215-1218. PMID: 19666804.

Iino, T., Mori, K., Uchino, Y., Nakagawa, T., Harayama, S., and Suzuki, K. 2010. Ignavibacterium album gen. nov., sp. nov., a moderately thermophilic anaerobic bacterium isolated from microbial mats at a terrestrial hot spring and proposal of Ignavibacteria classis nov., for a novel lineage at the periphery of green sulfur bacteria. Int. J. Syst. Evol. Microbiol. 60: 1376-1382. PMID: 19671715.

Thawai, C., Tanasupawat, S., Suwanborirux, K., and Kudo, T. 2010. Actinaurispora siamensis gen. nov., sp. nov., a new member of the family Micromonosporaceae. Int. J. Syst. Evol. Microbiol. 60: 1660-1666. PMID: 19734290.

Jin, J.-S., Kitahara, M., Sakamoto, M., Hattori, M., and Benno, Y. 2010. Slackia equolifaciens sp. nov., a human intestinal bacterium capable of producing equol. Int. J. Syst. Evol. Microbiol. 60: 1721-1724. PMID: 19734283.

Minegishi, H., Kamekura, M., Itoh, T., Echigo, A., Usami, R., and Hashimoto, T. 2010. Further refinement of the phylogeny of the Halobacteriaceae based on the full-length RNA polymerase subunit B’ (rpoB’) gene. Int. J. Syst. Evol. Microbiol. 60: 2398-2408. PMID: 19946058.

Endo, A., Futagawa-Endo, Y., Sakamoto, M., Kitahara, M., and Dicks, L. M. T. 2010. Lactobacillus florum sp. nov., a fructophilic species isolated from flowers. Int. J. Syst. Evol. Microbiol. 60: 2478-2482. PMID: 19965998.

Iino, T., Mori, K., and Suzuki, K. 2010. Methanospirillum lacunae sp. nov., a methane-producing archaeon isolated from a puddly soil, and emended descriptions of the genus Methanospirillum and Methanospirillum hungatei. Int. J. Syst. Evol. Microbiol. 60: 2563-2566. PMID: 20008107.

Sakamoto, M., Suzuki, N., and Benno, Y. 2010. hsp60 and 16S rRNA gene sequence relationships among species of the genus Bacteroides with the finding that Bacteroides suis and Bacteroides tectus are heterotypic synonyms of Bacteroides pyogenes. Int. J. Syst. Evol. Microbiol. 60: 2984-2990. PMID: 20118288.

Sugiyama, Y., Oya, A., Kudo, T., and Hirota, A. 2010. Surugapyrone A from Streptomyces coelicoflavus strain USF-6280 as a new DPPH radical-scavenger. J. Antibiot. 63: 365-369. PMID: 20588303.

Nakase, T., Imanishi, Y., Ninomiya, S., and Takashima, M. 2010. Candida rishirensis sp. nov., a novel methylotrophic anamorphic yeast species isolated from soil on Rishiri Island in Japan. J. Gen. Appl. Microbiol. 56: 169-173. PMID: 20513965.

Suzuki, R., Zhang, Y., Iino, T., Kosako, Y., Komagata, K., and Uchimura, T. 2010. Asaia astilbes sp. nov., Asaia platycodi sp. nov., and Asaia prunellae sp. nov., novel acetic acid bacteria isolated from flowers in Japan. J. Gen. Appl. Microbiol. 56: 339-346. PMID: 20953098.

Tanasupawat, S., Chamroensaksri, N., Kudo, T., and Itoh, T. 2010. Identification of moderately halophilic bacteria from Thai fermented fish (pla-ra) and proposal of Virgibacillus siamensis sp. nov. J. Gen. Appl. Microbiol. 56: 369-379. PMID: 21099133.

Sakamoto, M. and Ohkuma, M. 2010. Usefulness of the hsp60 gene for the identification and classification of Gram-negative anaerobic rods. J. Med. Microbiol. 59: 1293-1302. PMID: 20671088.

Koyanagi, T., Sakamoto, M., Takeuchi, Y., Ohkuma, M., and Izumi, Y. 2010. Analysis of microbiota associated with peri-implantitis using 16S rRNA gene clone library. J. Oral Microbiol. 2: 5104. PMID: 21523229.

Siqueira, J. F., Jr., Sakamoto, M., and Rosado, A. S. 2010. Microbial community profiling using terminal restriction fragment length polymorphism (T-RFLP) and denaturing gradient gel electrophoresis (DGGE). Methods Mol. Biol. 666: 71-85. PMID: 20717779.

Kurtzman, C. P. and Suzuki, M. 2010. Phylogenetic analysis of ascomycete yeasts that form coenzyme Q-9 and the proposal of the new genera Babjeviella, Meyerozyma, Millerozyma, Priceomyces and Scheffersomyces. Mycoscience 51: 2-14. DOI: 10.1007/s10267-009-0011-5.

Yamazaki, Y., Akashi, R., Banno, Y., Endo, T., Ezura, H., Fukami-Kobayashi, K., Inaba, K., Isa, T., Kamei, K., Kasai, F., Kobayashi, M., Kurata, N., Kusaba, M., Matuzawa, T., Mitani, S., Nakamura, T., Nakamura, Y., Nakatsuji, N., Naruse, K., Niki, H., Nitasaka, E., Obata, Y., Okamoto, H., Okuma, M., Sato, K., Serikawa, T., Shiroishi, T., Sugawara, H., Urushibara, H., Yamamoto, M., Yaoita, Y., Yoshiki, A., and Kohara, Y. 2010. NBRP databases: databases of biological resources in Japan. Nuleic Acids Res. 38: D26-D32. PMID: 19934255.

Todaka, N., Inoue, T., Saita, K., Ohkuma, M., Nalepa, C., A., Lenz, M., Kudo, T., and Moriya, S. 2010. Phylogenetic analysis of cellulolytic enzyme genes from representative lineages of termites and a related cockroach. PLOS ONE 5: e8636. PMID: 20072608.

Obata, T., Goto, Y., Kunisawa, J., Sato, S., Sakamoto, M., Setoyama, H., Matsuki, T., Nonaka, K., Shibata, N., Gohda, M., Kagiyama, Y., Nochi, T., Yuki, Y., Fukuyama, Y., Mukai, A., Shinzaki, S., Fujihashi, K., Sasakawa, C., Iijima, H., Goto, M., Umesaki, Y., Benno, Y., and Kiyono, H. 2010. Indigenous opportunistic bacteria inhabit mammalian gut-associated lymphoid tissues and share a mucosal antibody-mediated symbiosis. Proc. Natl. Acad. Sci. USA 107: 7419-7424. PMID: 20360558.

Bonfante, P., Visick, K., and Ohkuma, M. 2010. Symbiosis in the omics era. Environ. Microbiol. Rept. 2: 475-478.

Seifert, K. and Okada, G. 2010. International Commission on the Taxonomy of Fungi (ICTF). IMA Fungus 1: 11-12.

Okabe, S., Oshiki, M., Kamagata, Y., Yamaguchi, N., Toyofuku, M., Yawata, Y., Tashiro, Y., Nomura, N., Ohta, H., Ohkuma, M., Hiraishi, A., and Minamisawa, K. 2010. A great leap forward in microbial ecology. Microbes Environ. 25: 230-240. PMID: 21576878.

Shintani, M., Takahashi, Y., Yamane, H., and Nojiri, H. 2010. The behavior and significance of degradative plasmids belonging to Inc groups in Pseudomonas within natural environments and microcosms. Microbes Environ. 25: 253-265. PMID: 21576880.

Sakamoto, M., Tanner, A. C. R, and Benno, Y. 2010. Tannerella Sakamoto, Suzuki, Umeda, Ishikawa and Benno 2002, 848VP, In: Krieg, N. R., Staley, J. T., Brown, D. R., Hedlund, B. P., Paster, B. J., Ward, N. L., Ludwig, W., and Whitman, W. B. (eds.), Bergey’s Manual of Systematic Bacteriology, 2nd ed., vol. 4, pp. 78-85, Springer, New York. DOI: 10.1002/9781118960608.gbm00248.

Ohkuma, M. and Brune, A. 2010. Diversity, structure, and evolution of the termite gut microbial community, In: Bignell, D. E., Roisin, Y., and Lo, N. (eds.), Biology of Termites: A Modern Synthesis, pp. 413-438, Springer Science+Business Media, Dordrecht. DOI: 10.1007/978-90-481-3977-4_15.

Brune, A. and Ohkuma, M. 2010. Role of the termite gut-microbiota in symbiotic digestion, In: Bignell, D. E., Roisin, Y., and Lo, N. (eds.), Biology of Termites: A Modern Synthesis, pp. 439-475, Springer Science+Business Media, Dordrecht. DOI: 10.1007/978-90-481-3977-4_16.

Hongo, Y. and Ohkuma, M. 2010. Termite gut flagellates and their methanogenic and eubacterial symbionts, In: Hackstein, J. H. P. (ed.), Microbiology Monographs, vol. 19, (Endo)symbiotic Methanogenic Archaea, pp. 55-79, Springer-Verlag, Berlin. DOI: 10.1007/978-3-642-13615-3_5.

 

 

 

2009

Noda, S., Hongoh, Y., Sato, T., and Ohkuma, M. 2009. Complex coevolutionary history of symbiotic Bacteroidales bacteria of various protists in the gut of termites. BMC Evol. Biol. 9: 158. PMID: 19586555.

Kajiura, T., Takeda, T., Sakata, S., Sakamoto, M., Hashimoto, M., Suzuki, H., Suzuki, M., and Benno, Y. 2009. Change of intestinal microbiota with elemental diet and its impact on therapeutic effects in a murine model of chronic colitis. Dig. Dis. Sci. 54: 1892-1900. PMID: 19058004.

Sato, T., Hongoh, Y., Noda, S., Hattori, S., Ui, S., and Ohkuma, M. 2009. Candidatus Desulfovibrio trichonymphae, a novel intracellular symbiont of the flagellate Trichonympha agilis in termite gut. Environ. Microbiol. 11: 1007-1015. PMID: 19170725.

Takashima, M., Sugita, T., Toriumi, Y., and Nakase, T. 2009. Cryptococcus tepidarius sp. nov., a thermotolerant yeast species isolated from a stream from a hot-spring area in Japan. Int. J. Syst. Evol. Microbiol. 59: 181-185. PMID: 19126744.

Sakamoto, M., Kumada, H., Hamada, N., Takahashi, Y., Okamoto, M., Bakir, M. A., and Benno, Y. 2009. Prevotella falsenii sp. nov., a Prevotella intermedia-like organism isolated from monkey dental plaque. Int. J. Syst. Evol. Microbiol. 59: 319-322. PMID: 19196771.

Chamroensaksri, N., Tanasupawat, S., Akaracharanya, A., Visessanguan, W., Kudo, T., and Itoh, T. 2009. Salinivibrio siamensis sp. nov., from fermented fish (pla-ra) in Thailand. Int. J. Syst. Evol. Microbiol. 59: 880-885. PMID: 19329624.

Sakamoto, M., Takagaki, A., Matsumoto, K., Kato, Y., Goto, K., and Benno, Y. 2009. Butyricimonas synergistica gen. nov., sp. nov. and Butyricimonas virosa sp. nov., butyric acid-producing bacteria in the family ‘Porphyromonadaceae‘ isolated from rat faeces. Int. J. Syst. Evol. Microbiol. 59: 1748-1753. PMID: 19542124.

Yang, Y., Itoh, T., Yokobori, S., Itahashi, S., Shimada, H., Satoh, K., Ohba, Hirofumi, Narumi, I., and Yamagishi, A. 2009. Deinococcus aerius sp. nov., isolated from the high atmosphere. Int. J. Syst. Evol. Microbiol. 59: 1862-1866. PMID: 19567578.

Sakamoto, M., Suzuki, N., Matsunaga, N., Koshihara, K., Seki, M., Komiya, H., and Benno, Y. 2009. Parabacteroides gordonii sp. nov., isolated from human blood cultures. Int. J. Syst. Evol. Microbiol. 59: 2843-2847. PMID: 19628614.

Sakamoto, M., Siqueira, J. F., Jr., Rôças, I. N., and Benno, Y. 2009. Diversity of spirochetes in endodontic infections. J. Clin. Microbiol. 47: 1352-1357. PMID: 19261792.

Mayanagi, G., Kimura, M., Nakaya, S., Hirata, H., Sakamoto, M., Benno, Y., and Shimauchi, H. 2009. Probiotic effects of orally administered Lactobacillus salivarius WB21-containing tablets on periodontopathic bacteria: a double-blinded, placebo-controlled, randomized clinical trial. J. Clin. Periodontol. 36: 506-513. PMID: 19453574.

Yang, X., Sugita, T., Takashima, M., Hiruma, M., Li, R., Sudo, H., Ogawa, H., and Ikeda, S. 2009. Differentiation of Trichophyton rubrum clinical isolates from Japanese and Chinese patients by randomly amplified polymorphic DNA and DNA sequence analysis of the non-transcribed spacer region of the rRNA gene. J. Dermatol. Sci. 54: 38-42. PMID: 19162448.

Li, B., Furihata, K., Kudo, T., and Yokota, A. 2009. Kitasatospora saccharophila sp. nov. and Kitasatospora kazusanensis sp. nov., isolated from soil and transfer of Streptomyces atroaurantiacus to the genus Kitasatospora as Kitasatospora atroaurantiaca comb. nov. J. Gen. Appl. Microbiol. 55: 19-26. PMID: 19282629.

Hamana, K., Hayashi, H., Niitsu, M., and Itoh, T. 2009. Polyamine analysis of thermophilic, acidophilic, alkaliphilic and radio-tolerant bacteria belonging to the domain Bacteria and methanogens, thermophiles and extreme halophiles belonging to the domain Archaea -Polyamine catalogues of bacterial (eubacterial) and archaeal (archaebacterial) extremophiles IV-. J. Jpn. Soc. Extremophiles 8: 59-68. DOI: 10.3118/jjse.8.59.

Sugiyama, Y., Ito, Y., Suzuki, M., and Hirota, A. 2009. Indole derivatives from a marine sponge-derived yeast as DPPH radical scavengers. J. Nat. Prod. 72: 2069-2071. PMID: 19943625.

Matsumoto, M., Sakamoto, M., and Benno, Y. 2009. Dynamics of fecal microbiota in hospitalized elderly fed probiotic LKM512 yogurt. Microbiol. Immunol. 53: 421-432. PMID: 19659926.

Noda, S., Mantini, C., Bordereau, C., Kitade, O., Dolan, M. F., Viscogliosi, E., and Ohkuma, M. 2009. Molecular phylogeny of parabasalids with emphasis on the order Cristamonadida and its complex morphological evolution. Mol. Phylogenet. Evol. 52: 217-224. PMID: 19306937.

Yoshinari, S., Shiba, T., Inaoka, D., Itoh, T., Kurisu, G., Harada, S., Kita, K., and Watanabe, Y. 2009. Functional importance of Crenarchaea-specific extra-loop revealed by an X-ray structure of a heterotetrameric crenarchaeal splicing endonuclease. Nucleic Acids Res. 37: 4787-4798. PMID: 19515941.

Mantini, C., Dalia-Cornette, J., Noda, S., Van, Der, Heijden, H. M. J. F., Capron, M., Dei-Cas, E., Landman, W. J. M., Ohkuma, M., and Viscogliosi, E. 2009. Molecular identification and phylogenetic relationships of trichomonad isolates of galliform birds inferred from nuclear small subunit rRNA gene sequences. Parasitol. Res. 106: 163-170. PMID: 19806364.

Atsumi, H., Yoshimoto, K., Saito, S., Ohkuma, M., Maeda, M., and Nagasaki, Y. 2009. Luminescence-based colorimetric discrimination of single-nucleotide transversions by the combined use of the derivatives of DOTA-conjugated naphthyridine and its terbium complex. Tetrahedron Lett. 50: 2177-2180. DOI: 10.1016/j.tetlet.2009.02.152.

Promnuan, Y., Kudo, T., and Chantawannakul, P. 2009. Actinomycetes isolated from beehives in Thailand. World J. Microbiol. Biotechnol. 25: 1685-1689. DOI: 10.1007/s11274-009-0051-1.

Okada, G. 2009. Online manuscript submission for Mycoscience using Editorial Manager. Mycoscience 50: 83. DOI: 10.1007/s10267-009-0465-5.

 

 

 

2008

Ozutsumi, Y., Sakamoto, M., Itabashi, H., and Benno, Y. 2008. Effect of ruminal protozoa on fecal microbiota in cattle using terminal restriction fragment length polymorphism. Anim. Sci. J. 79: 29-34. DOI: 10.1111/j.1740-0929.2007.00494.x.

Endoh, R., Suzuki, M., and Benno, Y. 2008. Ambrosiozyma kamigamensis sp. nov. and A. neoplatypodis sp. nov., two new ascomycetous yeasts from ambrosia beetle galleries. Antonie van Leeuwenhoek 94: 365-376. PMID: 18516700.

Endoh, R., Suzuki, M., Benno, Y., and Futai, K. 2008. Candida kashinagacola sp. nov., C. pseudovanderkliftii sp. nov. and C. vanderkliftii sp. nov., three new yeasts from ambrosia beetle-associated sources. Antonie van Leeuwenhoek 94: 389-402. PMID: 18537038.

Odamaki, T., Xiao, J.-Z., Sakamaoto, M., Kondo, S., Yaesima, T., Iwatsuki, K., Togashi, H., Enomoto, T., and Benno, Y. 2008. Distribution of different species of the Bacteroides fragilis group in individuals with Japanese cedar pollinosis. Appl. Environ. Microbiol. 74: 6814-6817. PMID: 18791010.

Suezawa, Y., Suzuki, M., and Mori, H. 2008. Genotyping of a miso and soy sauce fermentation yeast, Zygosaccharomyces rouxii, based on sequence analysis of the partial 26S ribosomal RNA gene and two internal transcribed spacers. Biosci. Biotechnol. Biochem. 72: 2452-2455. PMID: 18776675.

Enache, M., Itoh, T., Kamekura, M., Popescu, G., and Dumitru, L. 2008. Halophilic archaea isolated from man-made young (200 years) salt lakes in Slanic, Prahova, Romania. Cent. Eur. J. Biol. 3: 388-395. DOI: 10.2478/s11535-008-0034-5.

Seifert, K. A., Rehner, Stephen. A., Sugita, T., and Okada, G. 2008. Spicellum ovalisporum Seifert & Rehner, sp. nov. Fungal Planet 28: 1-4.

Bakir, M. A., Kudo, T., and Benno, Y. 2008. Microbacterium hatanonis sp. nov., isolated as a contaminant of hairspray. Int. J. Syst. Evol. Microbiol. 58: 654-658. PMID: 18319473.

Jongrungruangchok, S., Tanasupawat, S., and Kudo, T. 2008. Micromonospora chaiyaphumensis sp. nov., isolated from Thai soils. Int. J. Syst. Evol. Microbiol. 58: 924-928. PMID: 18398196.

Maruo, T., Sakamoto, M., Ito, C., Toda, T., and Benno, Y. 2008. Adlercreutzia equolifaciens gen. nov., sp. nov., an equol-producing bacterium isolated from human faeces, and emended description of the genus Eggerthella. Int. J. Syst. Evol. Microbiol. 58: 1221-1227. PMID: 18450717.

Thawai, C., Tanasupawat, S., and Kudo, T. 2008. Micromonospora pattaloongensis sp. nov., isolated from a Thai mangrove forest. Int. J. Syst. Evol. Microbiol. 58: 1516-1521. PMID: 18599686.

Ara, I., Matsumoto, A., Bakir, M. A., Kudo, T., Ōmura, S., and Takahashi, Y. 2008. Pseudosporangium ferrugineum gen. nov., sp. nov., a new member of the family Micromonosporaceae. Int. J. Syst. Evol. Microbiol. 58: 1644-1652. PMID: 18599710.

Ara, I., Matsumoto, A., Bakir, M. A., Kudo, T., Ōmura, S., and Takahashi, Y. 2008. Actinomadura bangladeshensis sp. nov. and Actinomadura chokoriensis sp. nov. Int. J. Syst. Evol. Microbiol. 58: 1653-1659. PMID: 18599711.

Ara, I., Bakir, M. A., and Kudo, T. 2008. Transfer of Catellatospora koreensis Lee et al. 2000 as Catelliglobosispora koreensis gen. nov., comb. nov. and Catellatospora tsunoense Asano et al. 1989 as Hamadaea tsunoensis gen. nov., comb. nov., and emended description of the genus Catellatospora Asano and Kawamoto 1986 emend. Lee and Hah 2002. Int. J. Syst. Evol. Microbiol. 58: 1950-1960. PMID: 18676486.

Yachai, M., Tanasupawat, S., Itoh, T., Benjkul, S., Visessanguan, W., and Valyasevi, R. 2008. Halobacterium piscisalsi sp. nov., from fermented fish (pla-ra) in Thailand. Int. J. Syst. Evol. Microbiol. 58: 2136-2140. PMID: 18768619.

Tapingkae, W., Tanasupawat, S., Itoh, T., Parkin, K. L., Benjakul, S., Visessanguan, W., and Valyasevi, R. 2008. Natrinema gari sp. nov., a halophilic archaeon isolated from fish sauce in Thailand. Int. J. Syst. Evol. Microbiol. 58: 2378-2383. PMID: 18842859.

Jongrungruangchok, S., Tanasupawat, S., and Kudo, T. 2008. Micromonospora krabiensis sp. nov., isolated from marine soil in Thailand. J. Gen. Appl. Microbiol. 54: 127-133. PMID: 18497487.

Endoh, R., Suzuki, M., and Benno, Y. 2008. Pichia rarassimilans sp. nov., a novel yeast species isolated from body surface of the ambrosia beetle Platypus quercivorus. J. Gen. Appl. Microbiol. 54: 181-186. PMID: 18654040.

Hamana, K., Itoh, T., Benno, Y., and Hayashi, H. 2008. Polyamine distribution profiles of new members of the phylum Bacteroides. J. Gen. Appl. Microbiol. 54: 229-236. PMID: 18802322.

Ara, I., Matsumoto, A., Bakir, M. A., Kudo, T., Omura, S., and Takahashi, Y. 2008. Actinomadura maheshkhaliensis sp. nov., a novel actinomycete isolated from mangrove rhizosphere soil of Maheshkhali, Bangladesh. J. Gen. Appl. Microbiol. 54: 335-342. PMID: 19164876.

Hamana, K., Hosoya, R., Yokota, A., Niitsu, M., Hayashi, H., and Itoh, T. 2008. Distribution of long linear and branched polyamines in the thermophiles belonging to the domain Bacteria. J. Jpn. Soc. Extremophiles 7: 10-20. DOI: 10.3118/jjse.7.1.10.

Hamana, K., Hosoya, R., Niitsu, M., Hayashi, H., and Itoh, T. 2008. Temperature and salt dependent long linear and branched polyamine syntheses in the thermophiles belonging to the domain Archaea. J. Jpn. Soc. Extremophiles 7: 21-27. DOI: 10.3118/jjse.7.1.21.

Ionata, E., Canganella, F., Bianconi, G., Benno, Y., Sakamoto, M., Capasso, A., Rossi, M., and La, Cara, F. 2008. A novel keratinase from Clostridium sporogenes bv. pennavorans bv. nov., a thermotolerant organism isolated from solfataric muds. Microbiol. Res. 163: 105-112. PMID: 17085026.

Sakamoto, M., Siqueira, J. F., Jr., Rôças, I. N., and Benno,Y. 2008. Molecular analysis of the root canal microbiota associated with endodontic treatment failures. Oral Microbiol. Immunol. 23: 275-281. PMID: 18582326.

Crous, P. W., Wood, A. R., Okada, G., and Groenewald, J. Z. 2008. Foliicolous microfungi occurring on Encephalartos. Persoonia 21: 135-146. PMID: 20396583.

Enache, M., Itoh, T., Kamekura, M., Popescu, G., and Dumitru, L. 2008. Halophilic archaea of Haloferax genus isolated from anthropocentric Telega (Palada) salt lake. Proc. Rom. Acad. Ser. B 10: 11-16. PDF.

Harada, A., Ohkusa, T., Kushima, K., Sakamoto, M., Benno, Y., Beppu, K., Shibuya, T., Sakamoto, N., and Watanabe, S. 2008. Identification of bacteria from blood in febrile patients with ulcerative colitis by terminal restriction fragment length polymorphism profile analysis of 16S rRNA gene. Scad. J. Gastroenterol. 43: 423-430. PMID: 18365907.

 

 

2007

Ara, I. and Kudo, T. 2007. Krasilnikovia gen. nov., a new member of the family Micromonosporaceae and description of Krasilnikovia cinnamonea sp. nov. Actinomycetologica 21: 1-10. DOI: 10.3209/saj.SAJ210101.

Ara, I. and Kudo, T. 2007. Sphaerosporangium gen. nov., a new member of the family Streptosporangiaceae, with descriptions of three new species as Sphaerosporangium melleum sp. nov., Sphaerosporangium rubeum sp. nov. and Sphaerosporangium cinnabarinum sp. nov., and transfer of Streptosporangium viridialbum Nonomura and Ohara 1960 to Sphaerosporangium viridialbum comb. nov. Actinomycetologica 21: 11-21. DOI: 10.3209/saj.SAJ210102.

Matsumoto, M., Aranami, A., Ishige, A., Watanabe, K., and Benno, Y. 2007. LKM512 yogurt consumption improves the intestinal environment and induces the T-helper type 1 cytokine in adult patients with intractable atopic dermatitis. Clin. Exp. Allergy 37: 358-370. PMID: 17359386.

Matsumoto, M., Hara, K., and Benno, Y. 2007. The influence of the immunostimulation by bacterial cell components derived from altered large intestinal microbiota on probiotic anti-inflammatory benefits. FEMS Immunol. Med. Microbiol. 49: 387-390. PMID: 17378901.

Sakamoto, M., Kitahara, M., and Benno, Y. 2007. Parabacteroides johnsonii sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 57: 293-296. PMID: 17267966.

Sakamoto, M., Lan, P. T. N., and Benno, Y. 2007. Barnesiella viscericola gen. nov., sp. nov., a novel member of the family Porphyromonadaceae isolated from chicken caecum. Int. J. Syst. Evol. Microbiol. 57: 342-346. PMID: 17267976.

Pakdeeto, A., Tanasupawat, S., Thawai, C., Moonmangmee, S., Kudo, T., and Itoh, T. 2007. Lentibacillus kapialis sp. nov., from fermented shrimp paste in Thailand. Int. J. Syst. Evol. Microbiol. 57: 364-369. PMID: 17267980.

Burns, D. G., Janssen, P. H., Itoh, T., Kamekura, M., Li, Z., Jensen, G., Rodriguez-Valera, F., Bolhuis, H., and Dyall-Smith, M. L. 2007. Haloquadratum walsbyi gen. nov., sp. nov., the square haloarchaeon of Walsby, isolated from saltern crystallizers in Australia and Spain. Int. J. Syst. Evol. Microbiol. 57: 387-392. PMID: 17267984.

Enache, M., Itoh, T., Kamekura, M., Teodosiu, G., and Dumitru, L. 2007. Haloferax prahovense sp. nov., an extremely halophilic archaeon isolated from a Romanian salt lake. Int. J. Syst. Evol. Microbiol. 57: 393-397. PMID: 17267985.

Hayashi, H., Shibata, K., Sakamoto, M., Tomita, S., and Benno, Y. 2007. Prevotella copri sp. nov. and Prevotella stercorea sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 57: 941-946. PMID: 17473237.

Hayashi, H., Shibata, K., Bakir, M. A., Sakamoto, M., Tomita, S., and Benno, Y. 2007. Bacteroides coprophilus sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 57: 1323-1326. PMID: 17551051.

Tanasupawat, S., Namwong, S., Kudo, T., and Itoh, T. 2007. Piscibacillus salipiscarius gen. nov., sp. nov., a moderately halophilic bacterium from fermented fish (pla-ra) in Thailand. Int. J. Syst. Evol. Microbiol. 57: 1413-1417. PMID: 17625167.

Aizawa, T., Ve, N. B., Kimoto, K., Iwabuchi, N., Sumida, H., Hasegawa, I., Sasaki, S., Tamura, T., Kudo, T., Suzuki, K., Nakajima, M., and Sunairi, M. 2007. Curtobacterium ammoniigenes sp. nov., an ammonia-producing bacterium isolated from plants inhabiting acidic swamps in actual acid sulfate soil areas of Vietnam. Int. J. Syst. Evol. Microbiol. 57: 1447-1452. PMID: 17625173.

Hoshino, Y., Watanabe, K., Iida, S., Suzuki, S., Kudo, T., Kogure, T., Yazawa, K., Ishikawa, J., Kroppenstedt, R. M., and Mikami, Y. 2007. Nocardia terpenica sp. nov., isolated from Japanese patients with nocardiosis. Int. J. Syst. Evol. Microbiol. 57: 1456-1460. PMID: 17625175.

Ara, I., Kudo, T., Matsumoto, A., Takahashi, Y., and Omura, S. 2007. Nonomuraea bangladeshensis sp. nov. and Nonomuraea coxensis sp. nov. Int J Syst. Evol. Microbiol. 57: 1504-1509. PMID: 17625184.

Pikuta, E. V., Marsic, D., Itoh, T., Bej, A. K., Tang, J., Whitman, W. B., Ng, J. D., Garriott, O. K., and Hoover, R. B. 2007. Thermococcus thioreducens sp. nov., a novel hyperthermophilic, obligately sulfur-reducing archaeon from a deep-sea hydrothermal vent. Int. J. Syst. Evol. Microbiol. 57: 1612-1618. PMID: 17625204.

Sakamoto, M., Ohkusu, K., Masaki, T., Kako, H., Ezaki, T., and Benno, Y. 2007. Prevotella pleuritidis sp. nov., isolated from pleural fluid. Int. J. Syst. Evol. Microbiol. 57: 1725-1728. PMID: 17684245.

Pakdeeto, A., Tanasupawat, S., Thawai, C., Moonmangmee, S., Kudo, T., and Itoh, T. 2007. Salinicoccus siamensis sp. nov., isolated from fermented shrimp paste in Thailand. Int. J. Syst. Evol. Microbiol. 57: 2004-2008. PMID: 17766863.

Namwong, S., Tanasupawat, S., Visessanguan, W., Kudo, T., and Itoh, T. 2007. Halococcus thailandensis sp. nov., from fish sauce in Thailand. Int. J. Syst. Evol. Microbiol. 57: 2199-2203. PMID: 17911282.

Enache, M., Itoh, T., Fukushima, T., Usami, R., Dumitru, L., and Kamekura, M. 2007. Phylogenetic relationships within the family Halobacteriaceae inferred from rpoB‘ gene and protein sequences. Int. J. Syst. Evol. Microbiol. 57: 2289-2295. PMID: 17911299.

Itoh, T., Yoshikawa, N., and Takashina, T. 2007. Thermogymnomonas acidicola gen. nov., sp. nov., a novel thermoacidophilic, cell wall-less archaeon in the order Thermoplasmatales, isolated from a solfataric soil in Hakone, Japan. Int. J. Syst. Evol. Microbiol. 57: 2557-2561. PMID: 17978217.

Ishiko, A., Dekio, I., Fujimoto, A., Kameyama, K., Sakamoto, M., Benno, Y., Amagai, M., and Nishikawa, T. 2007. Abnormal keratin expression in circumscribed palmar hypokeratosis. J. Am. Acad. Dermatol. 57: 285-291. PMID: 17553594.

Ara, I. and Kudo, T. 2007. Two new species of the genus Micromonospora: Micromonospora chokoriensis sp. nov. and Micromonospora coxensis sp. nov., isolated from sandy soil. J. Gen. Appl. Microbiol. 53: 29-37. PMID: 17429159.

Ara, I. and Kudo, T. 2007. Luedemannella gen. nov., a new member of the family Micromonosporaceae and description of Luedemannella helvata sp. nov. and Luedemannella flava sp. nov. J. Gen. Appl. Microbiol. 53: 39-51. PMID: 17429160.

Ara, I., Kudo, T., Matsumoto, A., Takahashi, Y., and Omura, S. 2007. Nonomuraea maheshkhaliensis sp. nov., a novel actinomycete isolated from mangrove rhizosphere mud. J. Gen. Appl. Microbiol. 53: 159-166. PMID: 17726296.

Thawai, C., Tanasupawat, S., Suwanborirux, K., Itoh, T., and Kudo, T. 2007. Micromonospora narathiwatensis sp. nov., from Thai peat swamp forest soils. J. Gen. Appl. Microbiol. 53: 287-293. PMID: 18057819.

Odamaki, T., Xiao, J.-Z., Iwabuchi, N., Sakamoto. M., Takahashi, N., Kondo, S., Iwatsuki, K., Kokubo, S., Togashi, H., Enomoto, T., and Benno, Y. 2007. Fluctuation of fecal microbiota in individuals with Japanese cedar pollinosis during the pollen season and influence of probiotic intake. J. Investig. Allergol. Clin. Immunol. 17: 92-100. PMID: 17460947.

Hamana, K., Hosoya, R., and Itoh, T. 2007. Polyamine analysis of methanogens, thermophiles and extreme halophiles belonging to the domain Archaea. J. Jpn. Soc. Extremophiles 6: 25-31. DOI: 10.3118/jjse.6.25.

Odamaki, T., Xiao, J.-Z., Iwabuchi, N., Sakamoto, M., Takahashi, N., Kondo, S., Miyaji, K., Iwatsuki, K., Togashi, H., Enomoto, T., and Benno, Y. 2007. Influence of Bifidobacterium longum BB536 intake on faecal microbiota in individuals with Japanese cedar pollinosis during the pollen season. J. Med. Microbiol. 56: 1301-1308. PMID: 17893165.

Dekio, I., Sakamoto. M., Hayashi, H., Amagai, M., Suematsu, M., and Benno, Y. 2007. Characterization of skin microbiota in patients with atopic dermatitis and in normal subjects using 16S rRNA gene-based comprehensive analysis. J. Med. Microbiol. 56: 1675-1683. PMID: 18033838.

Nakayama, H., Shimamura, T., Imagawa, T., Shirai, N., Itoh, T., Sako, Y., Miyano, M., Sakuraba, H., Ohshima, T., Nomura, N., and Tsuge, H. 2007. Structure of a hyperthermophilic archaeal homing endonuclease, I-Tsp061I: contribution of cross-domain polar networks to thermostability. J. Mol. Biol. 365: 362-378. PMID: 17069851.

Hasegawa, H., Sakamoto, M., and Benno, Y. 2007. Bacteroides uniformis as the dominant bacterial species involved in activation of ginseng protopanaxadial saponins in human intestines. J. Trad. Med. 24: 140-143. DOI: 10.11339/jtm.24.140.

Kajikazawa, T., Sugita, T., Takashima, M., and Nishikawa, A. 2007. Detection of pathogenic yeasts from processed fresh edible sea urchins sold in a fish market. Nippon Ishinkin Gakkai Zasshi (Jpn. J. Med. Mycol.) 48: 169-172. PMID: 17975532.

Matsumoto, M. and Benno, Y. 2007. The relationship between microbiota and polyamine concentration in the human intestine: a pilot study. Microbiol. Immunol. 51: 25-35. PMID: 17237596.

Matsumoto, M., Kakizoe, K., and Benno, Y. 2007. Comparison of fecal microbiota and polyamine concentration in adult patients with intractable atopic dermatitis and healthy adults. Microbiol. Immunol. 51: 37-46. PMID: 17237597.

Kibe, R., Sakamoto, M., Yokota, H., and Benno, Y. 2007. Characterization of the inhabitancy of mouse intestinal bacteria (MIB) in rodents and humans by real-time PCR with group-specific primers. Microbiol. Immunol. 51: 349-357. PMID: 17446674.

Sugita, T., Takashima, M., Sano, A., Nishimura, K., Kinebuchi, T., Yamaguchi, S., and Osanai, H. 2007. Cryptococcus arboriformis sp. nov., a novel anamorphic basidiomycetous yeast species isolated from a patient’s urine. Microbiol. Immunol. 51: 543-545. PMID: 17579264.

Okamoto, M., Benno, Y., Leung, K. P., and Maeda, N. 2007. Metascardovia criceti gen. nov. sp. nov., from hamster dental plaque. Microbiol. Immunol. 51: 747-754. PMID: 17704637.

Sakamoto, M., Siqueira, J. F., Jr., Rôças, I. N., and Benno, Y. 2007. Bacterial reduction and persistence after endodontic treatment procedures. Oral Microbiol. Immunol. 22: 19-23. PMID: 17241166.

 

 

2006

Jongrungruangchok, S., Tanasupawat, S., Kitakoop, P., Bavovada, R., Kobayashi, H., and Kudo, T. 2006. Identification of Streptomyces and Kitasatospora strains from Thai soils with geldanamycin production strain. Actinomycetologica 20: 10-14. DOI: 10.3209/saj.20.10.

Nakanishi, Y., Murashima, K., Ohara, H., Suzuki, T., Hayashi, H., Sakamoto, M., Fukasawa, T., Kubota, H., Hosono, A., Kono, T., Kaminogawa, S., and Benno, Y. 2006. Increase in terminal restriction fragments of Bacteroidetes-derived 16S rRNA genes after administration of short-chain fructooligosaccharides. Appl. Environ. Microbiol. 72: 6271-6276. PMID: 16957254.

Salminen, S., Benno, Y., and de Vos, W. M. 2006. International colonisation, microbiota, and future probiotics? Asia. Pac. J. Clin. Nutr. 15: 558-562. PMID: 17077076.

Yoshinari, S., Itoh, T., Hallam, S. J., DeLong, E. F., Yokobori, S., Yamagishi, A., Oshima, T., Kita, K., and Watanabe, Y. 2006. Archaeal pre-mRNA splicing: A connection to hetero-oligomeric splicing endonuclease. Biochem. Biophys. Res. Commun. 346: 1024-1032. PMID: 16781672.

Hashimoto, K., Kawasaki, H., Akazawa, K., Nakamura, J., Asakura, Y., Kudo, T., Sakuradani, E., Shimizu, S., and Nakamatsu, T. 2006. Changes in composition and content of mycolic acids in glutamate-overproducing Corynebacterium glutamicum. Biosci. Biotechnol. Biochem. 70: 22-30. PMID: 16428817.

Suezawa, Y., Kimura, I., Inoue, M., Gohda, N., and Suzuki, M. 2006. Identification and typing of miso and soy sauce fermentation yeasts, Candida etchellsii and C. versatilis, based on sequence analyses of the D1D2 domain of the 26S ribosomal RNA gene, and the region of internal transcribed spacer 1, 5.8S ribosomal RNA gene and internal transcribed spacer 2. Biosci. Biotechnol. Biochem. 70: 348-354. PMID: 16495649.

Matsumoto, M. and Benno, Y. 2006. Anti-inflammatory metabolite production in the gut from the consumption of probiotic yogurt containing Bifidobacterium animalis subsp. lactis LKM512. Biosci. Biotechnol. Biochem. 70: 1287-1292. PMID: 16794305.

Hayashi, H., Sakamoto, M., Kitahara, M., and Benno, Y. 2006. Diversity of the Clostridium coccoides group in human fecal microbiota as determined by 16S rRNA gene library. FEMS Microbiol. Lett. 257: 202-207. PMID: 16553854.

Tomita, S., Shirasaki, N., Matsuyama, J., Benno, Y., and Kiyosawa, I. 2006. Growth behavior of Clostridium perfringens cells aggregated by bovine lactoferrin in the presence of lipoteichoic acid. Food Preserv. Sci. 32: 85-89. DOI: 10.5891/jafps.32.3_85.

Maruo, T., Sakamoto, M., Toda, T., and Benno, Y. 2006. Monitoring the cell number of Lactococcus lactis subsp. cremoris FC in human feces by real-time PCR with strain-specific primers designed using the RAPD technique. Int. J. Food Microbiol. 110: 69-76. PMID: 16737755.

Bakir, M. A., Kitahara, M., Sakamoto, M., Matsumoto, M., and Benno, Y. 2006. Bacteroides intestinalis sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 56: 151-154. PMID: 16403880.

Ara, I. and Kudo, T. 2006. Three novel species of the genus Catellatospora, Catellatospora chokoriensis sp. nov., Catellatospora coxensis sp. nov. and Catellatospora bangladeshensis sp. nov., and transfer of Catellatospora citrea subsp. methionotrophica Asano and Kawamoto 1988 to Catellatospora methionotrophica sp. nov., comb. nov. Int. J. Syst. Evol. Microbiol. 56: 393-400. PMID: 16449446.

Bakir, M. A., Kitahara, M., Sakamoto, M., Matsumoto, M., and Benno, Y. 2006. Bacteroides finegoldii sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 56: 931-935. PMID: 16627634.

Sakamoto, M. and Benno, Y. 2006. Reclassification of Bacteroides distasonis, Bacteroides goldsteinii and Bacteroides merdae as Parabacteroides distasonis gen. nov., comb.nov., Parabacteroides goldsteinii comb. nov. and Parabacteroides merdae comb. nov. Int. J. Syst. Evol. Microbiol. 56: 1599-1605. PMID: 16825636.

Bakir, M. A., Sakamoto, M. Kitahara, M., Matsumoto, M., and Benno, Y. 2006. Bacteroides dorei sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 56: 1639-1643. PMID: 16825642.

Thawai, C., Tanasupawat, S., Itoh, T., and Kudo, T. 2006. Actinocatenispora thailandica gen. nov., sp. nov., a new member of the family Micromonosporaceae. Int. J. Syst. Evol. Microbiol. 56: 1789-1794. PMID: 16902009.

Kageyama, A., Iida, S., Yazawa, K., Kudo, T., Suzuki, S., Koga, T., Saito, H., Inagawa, H., Wada, A., Kroppenstedt, R. M., and Mikami, Y. 2006. Gordonia araii sp. nov. and Gordonia effusa sp. nov., isolated from patients in Japan. Int. J. Syst. Evol. Microbiol. 56: 1817-1821. PMID: 16902014.

Tanasupawat, S., Pakdeeto, A., Namwong, S., Thawai, C., Kudo, T., and Itoh, T. 2006. Lentibacillus halophilus sp. nov., from fish sauce in Thailand. Int. J. Syst. Evol. Microbiol. 56: 1859-1863. PMID: 16902021.

Pikuta, E. V., Itoh, T., Krader, P., Tang, J., Whitman, W. B., and Hoover, R. B. 2006. Anaerovirgula multivorans gen. nov., sp. nov., a novel spore-forming, alkaliphilic anaerobe isolated from Owens Lake, California, USA. Int. J. Syst. Evol. Microbiol. 56: 2623-2629. PMID: 17082402.

Lan, P. T. N., Sakamoto, M., Sakata, S., and Benno, Y. 2006. Bacteroides barnesiae sp. nov., Bacteroides salanitronis sp. nov. and Bacteroides gallinarum sp. nov., isolated from chicken caecum. Int. J. Syst. Evol. Microbiol. 56: 2853-2859. PMID: 17158987.

Degawa, Y., Shibanuma, K., and Benno, Y. 2006. The proliferation factors affecting the growth of intestinal bifidobacterium in the presence of corn-fiber components of containing hydrolyzed oligosaccharides. Int. J. Probiot. Prebiot. 1: 203-212.

Asami, Y., Kakeya, H., Okada, G., Toi, M., and Osada, H. 2006. RK-95113, a new angiogenesis inhibitor produced by Aspergillus fumigatus. J. Antibiot. 59: 724-728. PMID: 17256472.

Fungsin, B., Takashima, M., Sugita, T., Artjariyasripong, S., Potacharoen, W., Tanticharoen, M., and Nakase, T. 2006. Bullera koratensis sp. nov. and Bullera lagerstroemiae sp. nov., two new ballistoconidium-forming yeast species in the Trichosporonales clade isolated from plant leaves in Thailand. J. Gen. Appl. Microbiol. 52: 73-81. PMID: 16778350.

Gueimonde, M., Sakata, S., Kalliomaki, M., Isolauri, E., Benno, Y., and Salminen, S. 2006. Effect of maternal consumption of Lactobacillus GG on transfer and establishment of fecal bifidobacterial microbiota in neonates. J. Pediatr. Gastroenterol. Nutr. 42: 166-170. PMID: 16456409.

Hasegawa, H. and Benno, Y. 2006. Clinical evaluation of probiotic Lactobacillus paracasei A221 for standardizing ginseng-hydrolyzing potentials of human intestinal bacteria. J. Trad. Med. 23: 42-46. DOI: 10.11339/jtm.23.42.

Hosoya, R., Yokoyama, Y., Hamana, K., and Itoh, T. 2006. Polyamine analysis within the eubacterial thirteen phyla Acidobacteria, Actinobacteria, Chlorobi, Chloroflexi, Chrysiogenetes, Deferribacteres, Fibrobacteres, Firmicutes, Fusobacteria, Gemmatimonadetes, Nitrospirae, Planctomycetes, and Verrucomicrobia. Microbiol. Cult. Collect. 22: 21-33. PDF.

Sakata, S., Ryu, C. S., Kitahara, M., Sakamoto, M., Hayashi, H., Fukuyama, M., and Benno, Y. 2006. Characterization of the genus Bifidobacterium by automated ribotyping and 16S rRNA gene sequences. Microbiol. Immunol. 50: 1-10. PMID: 16428867.

Sugita, T., Takashima, M., Poonwan, N., and Mekha, N. 2006. Candida pseudohaemulonii sp. nov., an amphotericin B- and azole-resistant yeast species, isolated from the blood of a patient from Thailand. Microbiol. Immunol. 50: 469-473. PMID: 16785719.

Sakuma, K., Kitahara, M., Kibe, R., Sakamoto, M., and Benno, Y. 2006. Clostridium glycyrrhizinilyticum sp. nov., a glycyrrhizin-hydrolysing bacterium isolated from human faeces. Microbiol. Immunol. 50: 481-485. PMID: 16858139.

Takahashi, H., Fujita, T., Suzuki, Y., and Benno, Y. 2006. Monitoring and survival of Lactobacillus gasseri SBT2055 in the human intestinal tract. Microbiol. Immunol. 50: 867-870. PMID: 17116981.

Ibrahim, F., Salminen, S., Mykkanen, H., El-Nezami, H., Salminen, E., Ma, J., Ling, W. H., Benno, Y., and Tahvonen, R. 2006. Cadmium and lead elimination in young male chinese students a probiotic intervention study. Nutra foods 5: 5-9.

Sakamoto, M., Rôças, I. N., Siqueira, J. F., Jr., and Benno, Y. 2006. Molecular analysis of bacteria in asymptomatic and symptomatic endodontic infections. Oral Microbiol. Immunol. 21: 112-122. PMID: 16476021.

 

 

2005

Nomura, T., Ohkusa, T., Okayasu, I., Yoshida, T., Sakamoto, M., Hayashi, H., Benno, Y., Hirai, S., Hojo, M., Kobayashi, O., Terai, T., Miwa, H., Takei, Y., Ogihara, T., and Sato, N. 2005. Mucosa-associated bacteria in ulcerative colitis before and after antibiotic combination therapy. Aliment. Pharmacol. Ther. 21: 1017-1027. PMID: 15813838.

Peter, G., Tornai-Lehoczki, J., Suzuki, M., and Dlauchy, D. 2005. Metschnikowia viticola sp. nov., a new yeast species from grape. Antonie van Leeuwenhoek 87: 155-160. PMID: 15723177.

Kibe, R., Sakamoto, M., Yokota, H., Ishikawa, H., Aiba, Y., Koga, Y., and Benno, Y. 2005. Movement and fixation of intestinal microbiota after administration of human feces to germfree mice. Appl. Environ. Microbiol. 71: 3171-3178. PMID: 15933018.

Ozutsumi, Y., Hayashi, H., Sakamoto, M., Itabashi, H., and Benno, Y. 2005. Culture-independent analysis of fecal microbiota in cattle. Biosci. Biotechnol. Biochem. 69: 1793-1797. PMID: 16195605.

Hayashi, H., Abe, T., Sakamoto, M., Ohara, H., Ikemura, T., Sakka, K., and Benno, Y. 2005. Direct cloning of genes encoding novel xylanases from the human gut. Can. J. Microbiol. 51: 251-259. PMID: 15920623.

Kurosawa, N., Itoh, Y. H., and Itoh, T. 2005. Thermus kawarayensis sp. nov., a new member of the genus Thermus, isolated from Japanese hot springs. Extremophiles 9: 81-84. PMID: 15378402.

Itoh, T., Yamaguchi, T., Zhou, P., and Takashina, T. 2005. Natronolimnobius baerhuensis gen. nov., sp. nov. and Natronolimnobius innermongolicus sp. nov., novel haloalkaliphilic archaea isolated from soda lakes in lnner Mongolia, China. Extremophiles 9: 111-116. PMID: 15841343.

Sakata, S., Tonooka, T., Ishizaki, S., Takada, M., Sakamoto, M., Fukuyama, M., and Benno, Y. 2005. Culture-independent analysis of fecal microbiota in infants, with special reference to Bifidobacterium species. FEMS Microbiol. Lett. 243: 417-423. PMID: 15686844.

Namwong, S., Tanasupawat, S., Smitinont, T., Visessanguan, W., Kudo, T., and Itoh, T. 2005. Isolation of Lentibacillus salicampi strains and Lentibacillus juripiscarius sp. nov. from fish sauce in Thailand. Int. J. Syst. Evol. Microbiol. 55: 315-320. PMID: 15653893.

Thawai, C., Tanasupawat, S., Itoh, T., Suwanborirux, K., Suzuki, K., and Kudo, T. 2005. Micromonospora eburnea sp. nov., isolated from a Thai peat swamp forest. Int. J. Syst. Evol. Microbiol. 55: 417-422. PMID: 15653911.

Sakamoto, M., Huang, Y., Umeda, M., Ishikawa, I., and Benno, Y. 2005. Prevotella multiformis sp. nov., isolated from human subgingival plaque. Int. J. Syst. Evol. Microbiol. 55: 815-819. PMID: 15774668.

Sakamoto, M., Umeda, M., Ishikawa, I., and Benno, Y. 2005. Prevotella multisaccharivorax sp. nov., isolated from human subgingival plaque. Int. J. Syst. Evol. Microbiol. 55: 1839-1843. PMID: 16166675.

Kitahara, M., Sakamoto, M., Ike, M., Sakata, S., and Benno, Y. 2005. Bacteroides plebeius sp. nov. and Bacteroides coprocola sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 55: 2143-2147. PMID: 16166722.

Singla, A. K., Mayilraj, S., Kudo, T., Krishnamurthi, S., Prasad, G. S., and Vohra, R. M. 2005. Actinoalloteichus spitiensis sp. nov., a novel actinobacterium isolated from a cold desert of the Indian Himalayas. Int. J. Syst. Evol. Microbiol. 55: 2561-2564. PMID: 16280527.

Nakase, T., Lee, F., Am-in, S., Jindamorakot, S., Potacharoen, W., Tanticharoen, M., and Takashima, M. 2005. Sporobolomyces fushanensis sp. nov., a new species of ballistoconidium-forming yeast in the Microbotryum lineage isolated from a plant in Taiwan. J. Gen. Appl. Microbiol. 51: 41-45. PMID: 15864760.

Thawai, C., Tanasupawat, S., Itoh, T., Suwanborirux, K., and Kudo, T. 2005. Micromonospora siamensis sp. nov., isolated from Thai peat swamp forest. J. Gen. Appl. Microbiol. 51: 229-234. PMID: 16205030.

Nakase, T., Tsuzuki, S., Lee, F.-L., Jindamorakot, S., Jan-ngam, H., Am-in, S., Potacharoen, W., Tanticharoen, M., and Takashima, M. 2005. Sporobolomyces diospyroris sp. nov., Sporobolomyces lophatheri sp. nov. and Sporobolomyces pyrrosiae sp. nov., three new species of ballistoconidium-forming yeasts in the Agaricostilbum lineage isolated from plants in Taiwan. J. Gen. Appl. Microbiol. 51: 277-286. PMID: 16314682.

Luong, D. T., Takashima, M., Ty, P. V., Dung, N. L., and Nakase, T. 2005. Bullera hoabinhensis sp. nov., a new ballistoconidiogenous yeast isolated from a plant leaf collected in Vietnam. J. Gen. Appl. Microbiol. 51: 335-342. PMID: 16474193.

Kawabe, M., Kobayashi, Y., Okada, G., Yamaguchi, I., Teraoka, T., and Arie, T. 2005. Three evolutionary lineages of tomato wilt pathogen, Fusarium oxysporum f. sp. lycopersici, based on sequences of IGS, MAT1, and pg1, are each composed of isolates of a single mating type and a single or closely related vegetative compatibility group. J. Gen. Plant Pathol. 71: 263-272. DOI: 10.1007/s10327-005-0203-6.

Hayashi, H., Takahashi, R., Nishi, T., Sakamoto, M., and Benno, Y. 2005. Molecular analysis of jejunal, ileal, caecal and recto-sigmoidal human colonic microbiota using 16S rRNA gene libraries and terminal restriction fragment length polymorphism. J. Med. Microbiol. 54: 1093-1101. PMID: 16192442.

Dekio, I., Hayashi, H., Sakamoto, M., Kitahara, M., Nishikawa, T., Suematsu, M., and Benno, Y. 2005. Detection of potentially novel bacterial components of the human skin microbiota using culture-independent molecular profiling. J. Med. Microbiol. 54: 1231-1238. PMID: 16278439.

Matsumoto, M., Sakamoto, M., Hayashi, H., and Benno, Y. 2005. Novel phylogenetic assignment database for terminal-restriction fragment length polymorphism analysis of human colonic microbiota. J. Microbiol. Methods 61: 305-319. PMID: 15767007.

Kitahara, M., Sakata, S., and Benno, Y. 2005. Biodiversity of Lactobacillus sanfranciscensis strains isolated from five sourdoughs. Lett. Appl. Microbiol. 40: 353-357. PMID: 15836738.

Sugita, T., Takeo, K., Hama, K., Virtudazo, E., Takashima, M., Nishikawa, A., Kucsera, J., Dorogi, J., Komori, S, Nakagaki, K., Vollekova, A, Slavikova, E., and Farkas, V. 2005. DNA sequence diversity of intergenic spacer I region in the non-lipid-dependent species Malassezia pachydermatis isolated from animals. Med. Mycol. 43: 21-26. PMID: 15712605.

Tonooka, T., Sakata, S., Kitahara, M., Hanai, M., Ishizeki, S., Takada, M., Sakamoto, M., and Benno, Y. 2005. Detection and quantification of four species of the genus Clostridium in infant feces. Microbiol. Immunol. 49: 987-992. PMID: 16301809.

Lopandic, K., Molnar, O., Suzuki, M., Pinsker, W., and Prillinger, H. 2005. Estimation of phylogenetic relationships within the Ascomycota on the basis of 18S rDNA sequences and chemotaxonomy. Mycol. Prog. 4: 205-214. DOI: 10.1007/s11557-006-0124-6.

Sakamoto, M., Umeda, M., and Benno, Y. 2005. Molecular analysis of human oral microbiota. J. Periodontal Res. 40: 277-285. PMID: 15853975.

Yabuuchi, E. and Kosako, Y. 2005. Sphingomonadaceae, In: Brenner, D. J., Krieg, N. R., and Staley, J. T. (eds.), Bergey’s Manual of Systematic Bacteriology, 2nd ed., vol. 2, Part C. The Alpha-, Beta-, Delta-, and Epsilonproteobacteria, p. 233, Springer, East Lansing.

Yabuuchi, E. and Kosako, Y. 2005. Sphingomonadales ord. nov., In: Brenner, D. J., Krieg, N. R., and Staley, J. T. (eds.), Bergey’s Manual of Systematic Bacteriology, 2nd ed., vol. 2, Part C. The Alpha-, Beta-, Delta-, and Epsilonproteobacteria, pp. 230-233, Springer, East Lansing.

Yabuuchi, E. and Kosako, Y. 2005. Sphingomonas, In: Brenner, D. J., Krieg, N. R., and Staley, J. T. (eds.), Bergey’s Manual of Systematic Bacteriology, 2nd ed., vol. 2, Part C. The Alpha-, Beta-, Delta-, and Epsilonproteobacteria, pp. 234-258, Springer, East Lansing.

Pikuta, E. V., Itoh, T., and Hoover, R. B. 2005. Anaerobic decomposition of cellulose by alkaliphilic microbial community of Owens Lake, California, In: Astrobiology and Planetary Missions, The Intenational Society for Optical Engineering, San Diego.

Itoh, T., Yoshikawa, N., and Takashina, T. 2005. Diversity of thermophilic archaeal isolates from hot springs in Japan, In: Astrobiology and Planetary Missions, The Intenational Society for Optical Engineering, San Diego.

Itoh, T. 2005. Isolation and preservation of thermophiles and halophiles, In: Microbial Wonders in Special Environments, pp. 5-10, The Philippine Network of Microbial Culture Collections, Quezon.

Bloom, M. L., Monsalud, R. G., and Itoh, T. 2005. Culture preservation techniques, In: Microbial Wonders in Special Environments, pp. 18-24, The Philippine Network of Microbial Culture Collections, Quezon.

 

 

2004

Thawai, C., Tanasupawat, S., Itoh, T., Suwanborirux, K., and Kudo, T. 2004. Micromonospora aurantionigra sp. nov., isolated from a peat swamp forest in Thailand. Actinomycetologica 18: 8-14. DOI: 10.3209/saj.18_8.

Saito, Y., Sakamoto, M., Takizawa, S., and Benno, Y. 2004. Monitoring the cell number and viability of Lactobacillus helveticus GCL1001 in human feces by PCR methods. FEMS Microbiol. Lett. 231: 125-130. PMID: 14769476.

Kibe, R., Sakamoto, M., Hayashi, H., Yokota, H., and Benno, Y. 2004. Maturation of the murine cecal microbiota as revealed by terminal restriction fragment length polymorphism and 16S rRNA gene clone libraries. FEMS Microbiol. Lett. 235: 139-146. PMID: 15158273.

Matsumoto, M., Ohishi, H., and Benno, Y. 2004. H+-ATPase activity in Bifidobacterium with special reference to acid tolerance. Int. J. Food Microbiol. 93: 109-113. PMID: 15135587.

Sakamoto, M., Suzuki, M., Huang, Y., Umeda, M., Ishikawa, I., and Benno, Y. 2004. Prevotella shahii sp. nov. and Prevotella salivae sp. nov., isolated from the human oral cavity. Int. J. Syst. Evol. Microbiol. 54: 877-883. PMID: 15143039.

Wang, Q.-M., Bai, F.-Y., Lu, H.-Z., Jia, J.-H., and Takashima, M. 2004. Bullera cylindrica sp. nov., Bullera hubeiensis sp. nov. and Bullera nakasei sp. nov., ballistoconidium-forming yeast species from plant leaves. Int. J. Syst. Evol. Microbiol. 54: 1877-1882. PMID: 15388757.

Shibazaki, M., Tanaka, K., Nagai, K., Watanabe, M., Fujita, S., Suzuki, K., Okada, G., and Yamamoto, T. 2004. YM-92447 (spinosulfate A), a neuraminidase inhibitor produced by an unidentified pycnidial fungus. J. Antibiotics 57: 812-815. PMID: 15745117.

Minamida, K., Sujaya, N., Tamura, A., Shigematsu, N., Sone, T., Yokota, A., Asano, K., Benno, Y., and Tomita, F. 2004. The effects of di-D-fructofuranose-1,2′:2,3′-dianhydride (DFA III) administration on human intestinal microbiota. J. Biosci. Bioeng. 98: 244-250. PMID: 16233700.

Seearunruangchai, A., Tanasupawat, S., Keeratipibul, S., Thawai, C., Itoh, T., and Yamada, Y. 2004. Identification of acetic acid bacteria isolated from fruits collected in Thailand. J. Gen. Appl. Microbiol. 50: 47-53. PMID: 15057711.

Tanasupawat, S., Thawai, C., Yukphan, P., Moonmangmee, D., Itoh, T., Adachi, O., and Yamada, Y. 2004. Gluconobacter thailandicus sp. nov., an acetic acid bacterium in the α-Proteobacteria. J. Gen. Appl. Microbiol. 50: 159-167. PMID: 15486825.

Hosoya, R., Hamana, K., Niitsu, M., and Itoh, T. 2004. Polyamine analysis for chemotaxonomy of thermophilic eubacteria: polyamine distribution profiles within the orders Aquificales, Thermotogales, Thermodesulfobacteriales, Thermales, Thermoanaerobacteriales, Clostridiales and Bacillales. J. Gen. Appl. Microbiol. 50: 271-287. PMID: 15747232.

Sakamoto, M., Huang, Y., Ohnishi, M., Umeda, M., Ishikawa, I., and Benno, Y. 2004. Changes in oral microbial profiles after periodontal treatment as determined by molecular analysis of 16S rRNA genes. J. Med. Microbiol. 53: 563-571. PMID: 15150339.

Kageyama, A., Yazawa, K., Kudo, T., Taniguchi, H., Nishimura, K., and Mikami, Y. 2004. First isolates of Nocardia abscessus from humans and soil in Japan. Nippon Ishinkin Gakkai Zasshi (Jpn. J. Med. Mycol.) 45: 17-21. PMID: 14765097.

Matsumoto, M., Ohishi, H., Kakizoe, K., and Benno, Y. 2004. Faecal microbiota and secretory immunogloblin A levels in adult patients with atopic dermatitis. Microb. Ecol. Health Dis. 16: 13-17. DOI: 10.1080/08910600310026167.

Hayashi, H., Sakamoto, M., and Benno, Y. 2004. Evaluation of three different forward primers by terminal restriction fragment length polymorphism analysis for determination of fecal Bifidobacterium spp. in healthy subjects. Microbiol. Immunol. 48: 1-6. PMID: 14734852.

Kitahara, M., Sakata, S., Sakamoto, M., and Benno, Y. 2004. Comparison among fecal secondary bile acid levels, fecal microbiota and Clostridium scindens cell numbers in Japanese. Microbiol. Immunol. 48: 367-375. PMID: 15215624.

Sugita, T., Tajima, M., Takashima, M., Amaya, M., Saito, M. Tsuboi, R., and Nishikawa, A. 2004. A new yeast, Malassezia yamatoensis, isolated from a patient with seborrheic dermatitis, and its distribution in patients and healthy subjects. Microbiol. Immunol. 48: 579-583. PMID: 15322337.

Sugita, T., Takeo, K., Ohkusu, M., Virtudazo, E., Takashima, M., Asako, E., Ohshima, F., Harada, S., Yanaka, C., Nishikawa, A., Majoros, L., and Sipiczki, M. 2004. Fluconazole-resistant pathogens Candida inconspicua and C. norvegensis: DNA sequence diversity of the rRNA intergenic spacer region, antifungal drug susceptibility, and extracellular enzymer production. Microbiol. Immunol. 48: 761-766. PMID: 15502409.

Lan, P. T. N., Sakamoto, M., and Benno, Y. 2004. Effects of two probiotic Lactobacillus strains on jejunal and cecal microbiota of broiler chicken under acute heat stress condition as revealed by molecular analysis of 16S rRNA genes. Microbiol. Immunol. 48: 917-929. PMID: 15611608.

Matsumoto, M. and Benno, Y. 2004. Consumption of Bifidobacterium lactis LKM512 yogurt reduces gut mutagenicity by increasing gut polyamine contents in healthy adult subjects. Mutat. Res. 568: 147-153. PMID: 15542102.

Nakase, T., Tsuzuki, S., Lee, F.-L., Jindamorakot, S., Jan-ngam, H., Potacharoen, W., Tanticharoen, M., Kudo, T., and Takashima, M. 2004. Bullera begoniae sp. nov. and Bullera setariae sp. nov., two new species of ballistoconidium-forming yeasts in the Bullera variabillis (Bulleribasidium) cluster isolated from plants in Taiwan. Mycoscience 45: 287-294. DOI: 10.1007/S10267-004-0185-9.

Nakase, T., Jan-ngam., H., Tsuzuki, S., Lee, F.-L., Jindamorakot, S., Potacharoen, W., Tanticharoen, M., and Takashima, M. 2004. Two new ballistoconidium-forming yeast species, Bullera melastomae and Bullera formosana, found in Taiwan. Syst. Appl. Microbiol. 27: 558-564. PMID: 15490557.

Matsumoto, M. and Benno, Y. 2004. Anti-inflammatory and antimutagenic activity of polyamines produced by Bifidobacterium lactis LKM512. Curr. Top. Neutr. Res. 2: 219-226.

Hayashi, H., Ohara, H., Sakamoto, M., and Benno, Y. 2004. Cloning, sequencing, and expression of 1,4-β-xylanase from human fecal microbiota, In: Ohmiya, K., Sakka, K., Karita, S., Kimura, T., Sakka, M., and Onishi, Y. (eds.), Biotechnology of Lignocellulose Degradation and Biomass Utilization, pp. 412-417, UNI Publishers Co., Ltd., Tokyo.

Itoh, T. 2004. Diversity of thermophilic archaea isolated from hot springs in Japan, In: Watanabe, M. M., Suzuki, K.-I., and Seki, T. (eds.), Innovative Roles of Biological Resource Centers, pp. 137-140, JSCC & WFCC, Tsukuba.

Itoh, T. 2004. Diversity and evolutionary implication of archaea, the third domain of life, In: Sugisaka, M. and Tanaka, H. (eds.), Proc. of the Ninth Int. Symp. on Artifical Life and Robotics (AROB 9th ’04), pp. 437-439, Organizing Committee of Int. Symp. on Artificial Life and Robotics, Oita.

 

 

2003

Bai, F.-Y., Takashima, M., Zhao, J.-H., Jia, J.-H., and Nakase, T. 2003. Bullera anomala sp. nov. and Bullera pseudovariabilis sp. nov., two new ballistoconidium-forming yeast species from Yunnan, China. Antonie van Leeuwenhoek 83: 257-263. PMID: 12776921.

Tominaga, T., Okuzawa, Y., Kato, S., and Suzuki, M. 2003. The first isolation of two types of trifluoroleucine resistant mutants of Saccharomyces servazzii. Biotechnol. Lett. 25: 1735-1738. PMID: 14626417.

Itoh, T., Nomura, N., and Sako, Y. 2003. Distribution of 16S rRNA introns among the family Thermoproteaceae and their evolutionary implications. Extremophiles 7: 229-233. PMID: 12768454.

Ueno, R., Urano, N., and Suzuki, M. 2003. Phylogeny of the non-photosynthetic green micro-algal genus Prototheca (Trebouxiophyceae, Chlorophyta) and related taxa inferred from SSU and LSU ribosomal DNA partial sequence data. FEMS Microbiol. Lett. 223: 275-280. PMID: 12829298.

Laine, R., Salminen, S., Benno, Y., and Ouwehand, A. C. 2003. Performance of bifidobacteria in oat-based media. Int. J. Food Microbiol. 83: 105-109. PMID: 12672596.

Nagahama, T., Hamamoto, M., Nakase, T., and Horikoshi, K. 2003. Rhodotorula benthica sp. nov. and Rhodotorula calyptogenae sp. nov., novel yeast species from animals collected from the deep-sea floor, and Rhodotorula lysiniphila sp. nov., which is related phylogenetically. Int. J. Syst. Evol. Microbiol. 53: 897-903. PMID: 12807219.

Itoh, T., Suzuki, K., Sanchez, P. C., and Nakase, T. 2003. Caldisphaera lagunensis gen. nov., sp. nov., a novel thermoacidophilic crenarchaeote isolated from a hot spring at Mt. Maquiling, Philippines. Int. J. Syst. Evol. Microbiol. 53: 1149-1154. PMID: 12892143.

Takashima, M., Sugita, T., Shinoda, T., and Nakase, T. 2003. Three new combinations from the Cryptococcus laurentii complex: Cryptococcus aureus, Cryptococcus carnescens and Cryptococcus peneaus. Int. J. Syst. Evol. Microbiol. 53: 1187-1194. PMID: 12892148.

Matsuyama, H., Yumoto, I., Kudo, T., and Shida, O. 2003. Rhodococcus tukisamuensis sp. nov., isolated from soil. Int. J. Syst. Evol. Microbiol. 53: 1333-1337. PMID: 13130015.

Kurosawa, N., Itoh, Y. H., and Itoh, T. 2003. Reclassification of Sulfolobus hakonensis Takayanagi et al. 1996 as Metallosphaera hakonensis comb. nov. based on phylogenetic evidence and DNA G+C content. Int. J. Syst. Evol. Microbiol. 53: 1607-1608. PMID: 13130056.

Sugita, T., Takashima, M., Kodama, M., Tsuboi, R., and Nishikawa, A. 2003. Description of a new yeast species, Malassezia japonica, and its detection in patients with atopic dermatitis and healthy subjects. J. Clin. Microbiol. 41: 4695-4699. PMID: 14532205.

Nakajima, Y., Ho, C. C., and Kudo, T. 2003. Microtetraspora malaysiensis sp. nov., isolated from Malaysian primary dipterocarp forest soil. J. Gen. Appl. Microbiol. 49: 181-189. PMID: 12949699.

Hamana, K., Tanaka, T., Hosoya, R., Niitsu, M., and Itoh, T. 2003. Cellular polyamines of the acidophilic, thermophilic and thermoacidophilic archaebacteria, Acidilobus, Ferroplasma, Pyrobaculum, Pyrococcus, Staphylothermus, Thermococcus, Thermodiscus and Vulcanisaeta. J. Gen. Appl. Microbiol. 49: 287-293. PMID: 14673752.

Nakase, T., Tsuzuki, S., Lee, F.-L, Sugita, T., Jindamorakot, S., Jan-ngam, H., Potacharoen, W., Tanticharoen, M., Kudo, T., and Takashima, M. 2003. Sporobolomyces magnisporus sp. nov., a new yeast species in the Erythrobasidium cluster isolated from plants in Taiwan. J. Gen. Appl. Microbiol. 49: 337-344. PMID: 14747975.

Sakamoto, M., Takeuchi, Y., Umeda, M., Ishikawa, I., and Benno, Y. 2003. Application of terminal RFLP analysis to characterize oral bacterial flora in saliva of healthy subjects and patients with periodontitis. J. Med. Microbiol. 52: 79-89. PMID: 12488570.

Fungsin, B., Takashima, M., Bai, F.-Y., Artjariyasripong, S., and Nakase, T. 2003. Bullera panici sp. nov. and Bullera siamensis sp. nov., two new yeasts in the Bullera variabilis cluster isolated in Thailand. Microbiol. Cult. Collect. 19: 23-32. PDF.

Fungsin, B., Takashima, M., Artjariyasripong, S., Potacharoen, W., and Nakase, T. 2003. Bullera sakaeratica sp. nov., a new species of ballistoconidium-forming yeast found in Thailand. Microbiol. Cult. Collect. 19: 33-39. PDF.

Sakamoto, M., Hayashi, H., and Benno, Y. 2003. Terminal restriction fragment length polymorphism analysis for human fecal microbiota and its application for analysis of complex bifidobacterial communities. Microbiol. Immunol. 47: 133-142. PMID: 12680716.

Sugita, T., Takashima, M., Poonwan, N., Mekha, N., Malaithao, K., Thungmuthasawat, B., Prasarn, S., Luangsook, P., and Kudo, T. 2003. The first isolation of ustilaginomycetous anamorphic yeasts, Pseudozyma species, from patients’ blood and a description of two new species: P. parantarctica and P. thailandica. Microbiol. Immunol. 47: 183-190. PMID: 12725287.

Hayashi, H., Sakamoto, M., Kitahara, M., and Benno, Y. 2003. Molecular analysis of fecal microbiota in elderly individuals using 16S rDNA library and T-RFLP. Microbiol. Immunol. 47: 557-570. PMID: 14524616.

Itoh, T. 2003. Taxonomy of nonmethanogenic hyperthermophilic and related thermophilic archaea. J. Biosci. Bioeng. 96: 203-212. PMID: 16233511.

 

 

2002

Tanaka, T., Hamana, K., and Itoh, T. 2002. Polyamine analysis of extremely halophilic archaebacteria and methanogenic archaebacteris. Ann. Gunma Health Sci. 23: 137-143.

Ueno, R., Urano, N., Suzuki, M., and Kimura, S. 2002. Isolation, characterization, and fermentative pattern of a novel thermotolerant Prototheca zopfii var. hydrocarbonea strain producing ethanol and CO2 from glucose at 40°C. Arch. Microbiol. 177: 244-250. PMID: 11907680.

Saitoh, S., Noda, S., Aiba, Y., Takagi, A., Sakamoto, M., Benno, Y., and Koga, Y. 2002. Bacteroides ovatus as the predominant commensal intestinal microbe causing a systemic antibody response in inflammatory bowel disease. Clin. Diagn. Lab. Immunol. 9: 54-59. PMID: 11777829.

Matsumoto, M., Tani, H., Ono, H., Ohishi, H., and Benno, Y. 2002. Adhesive property of Bifidobacterium lactis LKM512 and predominant bacteria of intestinal microflora to human intesitnal mucin. Curr. Microbiol. 44: 212-215. PMID: 11821930.

Saito, Y., Hamanaka, Y., Saito, K., Takizawa, S., and Benno, Y. 2002. Stability of species composition of fecal bifidobacteria in human subjects during fermented milk administration. Curr. Microbiol. 44: 368-373. PMID: 11927989.

Hamamoto, M., Nagahama, T., and Tamura, M. 2002. Systematic study of basidiomycetous yeasts – evaluation of the ITS regions of rDNA to delimit species of the genus Rhodosporidium. FEMS Yeast Res. 2: 409-413. PMID: 12702292.

Sakamoto, M., Huang, Y., Umeda, M., Ishikawa, I., and Benno, Y. 2002. Detection of novel oral phylotypes associated with periodontitis. FEMS Microbiol. Lett. 217: 65-69. PMID: 12445647.

Fungsin, B., Hamamoto, M., Arunpairojana, V., Sukhumavasi, J., Atthasampunna, P., and Nakase, T. 2002. Kockovaella barringtoniae sp. nov., a new basidiomycetous yeast species isolated from a plant leaf collected in a tropical rain forest in Thailand. Int. J. Syst. Evol. Microbiol. 52: 281-284. PMID: 11837313.

Sakamoto, M., Suzuki, M., Umeda, M., Ishikawa, I., and Benno, Y. 2002. Reclassification of Bacteroides forsythus (Tanner et al. 1986) as Tannerella forsythensis corrig., gen. nov., comb. nov. Int. J. Syst. Evol. Microbiol. 52: 841-849. PMID: 12054248.

Hamamoto, M., Thanh, V. N., and Nakase, T. 2002. Bannoa hahajimensis gen. nov., sp. nov., and three related anamorphs, Sporobolomyces bischofiae sp. nov., Sporobolomyces ogasawarensis sp. nov. and Sporobolomyces syzygii sp. nov., yeasts isolated from plants in Japan. Int. J. Syst. Evol. Microbiol. 52: 1023-1032. PMID: 12054219.

Itoh, T., Suzuki, K., and Nakase, T. 2002. Vulcanisaeta distributa gen. nov., sp. nov., and Vulcanisaeta souniana sp. nov., novel hyperthermophilic, rod-shaped crenarchaeotes isoltaed from hot springs in Japan. Int. J. Syst. Evol. Microbiol. 52: 1097-1104. PMID: 12148613.

Behrendt, U., Ulrich, A., Schumann, P., Naumann, D., and Suzuki, K. 2002. Diversity of grass-associated Microbacteriaceae isolated from the phyllosphere and litter layer after mulching the sward; polyphasic characterization of Subtercola pratensis sp. nov., Curtobacterium herbarum sp. nov. and Plantibacter flavus gen. nov., sp. nov. Int. J. Syst. Evol. Microbiol. 52: 1441-1454. PMID: 12361245.

Yabuuchi, E., Kosako, Y., Fujiwara, N., Naka, T., Matsunaga, I. Ogura, H., and Kobayashi, K. 2002. Emendation of the genus Sphingomonas Yabuuchi et al. 1990 and junior objective synonymy of the species of three genera, Sphingobium, Novosphingobium and Sphingopyxis, in conjunction with Blastomonas ursincola. Int. J. Syst. Evol. Microbiol. 52: 1485-1496. PMID: 12361250.

Niwata, Y., Takashima, M., Tornai-Lehoczki, J., Deak, T., and Nakase, T. 2002. Udeniomyces pannonicus sp. nov., a ballistoconidium-forming yeast isolated from leaves of plants in Hungary. Int. J. Syst. Evol. Microbiol. 52: 1887-1892. PMID: 12361301.

Sakata, S., Kitahara, M., Sakamoto, M., Hayashi, H., Fukuyama, M., and Benno, Y. 2002. Unification of Bifidobacterium infantis and Bifidobacterium suis as Bifidobacterium longum. Int. J. Syst. Evol. Microbiol. 52: 1945-1951. PMID: 12508852.

Buonaurio, R., Stravato, V. M., Kosako, Y., Fujiwara, N., Naka, T., Kobayashi, K., Cappelli, C., and Yabuuchi, E. 2002. Sphingomonas melonis sp. nov., a novel pathogen that causes brown spots on yellow Spanish melon fruits. Int. J. Syst. Evol. Microbiol. 52: 2081-2087. PMID: 12508872.

Bai, F.-Y., Zhao, J.-H., Takashima, M., Jia, J.-H., Boekhout, T., and Nakase, T. 2002. Reclassification of the Sporobolomyces roseus and Sporidiobolus pararoseus complexes, with the description of Sporobolomyces phaffii sp. nov. Int. J. Syst. Evol. Microbiol. 52: 2309-2314. PMID: 12508902.

He, F., Morita, H., Hashimoto, H., Hosoda, M., Kurisaki, J.-I., Ouwehand, A. C., Isolauri, E., and Benno, Y. 2002. Intestinal Bifidobacterium species induce varying cytokine production. J. Allergy Clin. Immunol. 109: 1035-1036. PMID: 12063538.

Sugita, T., Takashima, M., Shinoda, T., Suto, H., Unno, T., Tsuboi, R., Ogawa, H., and Nishikawa, A. 2002. New yeast species, Malassezia dermatis, isolated from patients with atopic dermatitis. J. Clin. Microbiol. 40: 1363-1367. PMID: 11923357.

Bai, F.-Y., Takashima, M., Jia, J.-H., and Nakase, T. 2002. Dioszegia zsoltii sp. nov., a new ballistoconidium-forming yeast species with two varieties. J. Gen. Appl. Microbiol. 48: 17-23. PMID: 12469312.

Suzuki, M. and Nakase, T. 2002. A phylogenetic study of ubiquinone-7 species of the genus Candida based on 18S ribosomal DNA sequence divergence. J. Gen. Appl. Microbiol. 48: 55-65. PMID: 12469316.

Sugita, T., Takashima, M., Nakase, T., Ichikawa, T., Shinoda, T., and Nishikawa, A. 2002. A basidiomycetous anamorphic yeast, Trichosporon terricola sp. nov., isolated from soil. J. Gen. Appl. Microbiol. 48: 293-297. PMID: 12501440.

Nakase, T., Tsuzuki, S., and Takashima, M. 2002. Bullera taiwanensis sp. nov. and Bullera formosensis sp. nov., two new ballistoconidium-forming yeast species isolated from plant leaves in Taiwan. J. Gen. Appl. Microbiol. 48: 345-355. PMID: 12682873.

Fungsin, B., Takashima, M., Artjariyasripong, S., Arunpairojana, V., Hamamoto, M, and Nakase, T. 2002. Bullera arundinariae sp. nov., a new species of ballistoconidium-forming yeast, isolated from a plant in Thailand. Microbiol. Cult. Collect. 18: 83-90. PDF.

Lan, P. T. N., Hayashi, H., Sakamoto, M., and Benno, Y. 2002. Phylogenetic analysis of cecal microbiota in chicken by the use of 16S rDNA clone libraries. Microbiol. Immunol. 46: 371-382. PMID: 12153114.

Nakamura, J., Kubota, Y., Miyaoka, M., Saitoh, T., Mizuno, F., and Benno, Y. 2002. Comparison of four microbial enzymes in clostridia and bacteroides isolated from human feces. Microbiol. Immunol. 46: 487-490. PMID: 12222935.

Hayashi, H., Sakamoto, M., and Benno, Y. 2002. Phylogenetic analysis of the human gut microbiota using 16S rDNA clone libraries and strictly anaerobic culture-based methods. Microbiol. Immunol. 46: 535-548. PMID: 12597356.

Hayashi, H., Sakamoto, M., and Benno, Y. 2002. Fecal microbial diversity in a strict vegetarian as determined by molecular analysis and cultivation. Microbiol. Immunol. 46: 819-831. PMID: 12363017.

Park, J.-Y., Okada, G., Takahashi, M., and Oyaizu, H. 2002. Screening of fungal antagonists against yellows of cabbage caused by Fusarium oxysporum f. sp. conglutinans. Mycoscience 43: 447-451. DOI: 10.1007/S102670200064.

Morishita, Y., Oowada, T., Ozaki, A., and Mizutani, T. 2002. Galactooligosaccharide in combination with Bifidobacterium and Bacteroides affects the population of Clostridium perfringens in the intestine of gnotobiotic mice. Nutr. Res. 22: 1333-1341. DOI: 10.1016/S0271-5317(02)00455-4.

He, F., Isolauri, E., Morita, H., Hosoda, M., Hashimoto, H., Fuse, T., Mizumachi, K., Kurisaki, J. Benno, Y., Salminen, S., and Ouwehand, A. C. 2002. Bifidobacteria isolated from allergic and healthy infants: differences in taxonomy, mucus adhesion and immune modulatory effects. Microecol. Ther. 29: 103-108.

Benno, Y. 2002. Bifidobacteria dairy products-market opportunities in Japan. Nutr. Health 375: 20-21.

Belloch, C., Hamamoto, M., Eliskases-Lechner, F., and Prillinger, H. 2002. Kluyveromyces spp., In: Roginsky, H., Fuquay, J. W., and Fox, P. F. (eds.), Encyclopedia of Dairy Sciences, pp. 1417-1428, Academic Press., London. DOI: 10.1016/B0-12-227235-8/00228-5.

 

 

2001

Sorimachi, K., Itoh, T., Kawarabayashi, Y., Okayasu, T., Akimoto, K., and Niwa, A. 2001. Conservation of the basic pattern of cellular amino acid composition of archaeobacteria during biological evolution and the putative amino acid composition of primitive life forms. Amino Acids 21: 393-399. PMID: 11858698.

Matsui, H., Ogata, K., Tajima, K., Nagamine, T., Nakamura, M., Aminov, R. I., and Benno, Y. 2001. Cloning, expression, and characterization of a cellulase gene from Prevotella ruminicola. Anim. Sci. J. 72: 421-426. DOI: 10.2508/chikusan.72.421.

Takashima, M. and Nakase, T. 2001. Tilletiopsis derxii, Tilletiopsis oryzicola and Tilletiopsis penniseti, three new species of the ustilagionomycetous anamorphic genus Tilletiopsis isolated from leaves in Thailand. Antonie van Leeuwenhoek 80: 43-56. PMID: 11761366.

Nagahama, T., Hamamoto, M., Nakase, T., Takami, H., and Horikoshi, K. 2001. Distribution and identification of red yeasts in deep-sea environments around the northwest Pacific Ocean. Antonie van Leeuwenhoek 80: 101-110. PMID: 11759043.

Nagahama, T., Hamamoto, M., Nakase, T., and Horikoshi, K. 2001. Rhodotorula lamellibrachii sp. nov., a new yeast species from a tubeworm collected at the deep-sea floor in Sagami Bay and its phylogenetic analysis. Antonie van Leeuwenhoek 80: 317-323. PMID: 11827218.

Tajima, K., Aminov, R. I., Nagamine, T., Matsui, H., Nakamura, M., and Benno, Y. 2001. Diet-dependent shifts in the bacterial population of the rumen revealed with real-time PCR. Appl. Environ. Microbiol. 67: 2766-2774. PMID: 11375193.

He, F., Ouwehand, A. C., Isolauri, E., Hosoda, M., Benno, Y., and Salminen, S. 2001. Differences in composition and mucosal adhesion of bifidobacteria isolated from healthy adults and healthy seniors. Curr. Microbiol. 43: 351-354. PMID: 11688800.

Itoh, Y. H., Kurosawa, N., Uda, I., Sugai, A., Tanoue, S., Itoh, T., Horiuchi, T., and Itoh, T. 2001. Metallosphaera sedula TA-2, a calditoglycerocaldarchaeol deletion strain of a thermoacidophilic archaeon. Extremophiles 5: 241-245. PMID: 11523893.

He, F., Ouwehand, A. C., Isolauri, E., Hashimoto, H., Benno, Y., and Salminen, S. 2001. Comparison of mucosal adhesion and species identification of bifidobacteria isolated from healthy and allergic infants. FEMS Immunol. Med. Microbiol. 30: 43-47. PMID: 11172990.

Matsumoto, M., Ohishi, H., and Benno, Y. 2001. Impact of LKM512 yogurt on improvement of intestinal environment of the elderly. FEMS Immunol. Med. Microbiol. 31: 181-186. PMID: 11720813.

Bai, F.-Y., Takashima, M., and Nakase, T. 2001. Description of Bullera kunmingenis sp. nov., and clarification of the taxonomic status of Bullera sinensis and its synonyms based on molecular phylogenetic analysis. FEMS Yeast Res. 1: 103-109. PMID: 12702355.

Kitahara, M., Takamine, F., Imamura, T., and Benno, Y. 2001. Clostridium hiranonis sp. nov., a human intestinal bacterium with bile acid 7α-dehydroxylating activity. Int. J. Syst. Evol. Microbiol. 51: 39-44. PMID: 11211270.

Bai, F.-Y., Takashima, M., Hamamoto, M., and Nakase, T. 2001. Sporobolomyces yunnanensis sp. nov., a Q-10(H2)-containing yeast species with a close phylogenetic relationship to Erythrobasidium hasegawianum. Int. J. Syst. Evol. Microbiol. 51: 231-235. PMID: 11211263.

Yabuuchi, E., Yamamoto, H., Terakubo, S., Okamura, N., Naka, T., Fujiwara, N., Kobayashi, K., Kosako, Y., and Hiraishi, A. 2001. Proposal of Sphingomonas wittichii sp. nov. for strain RW1T, known as a dibenzo-p-dioxin metabolizer. Int. J. Syst. Evol. Microbiol. 51: 281-292. PMID: 11321072.

Zhang, Z., Kudo, T., Nakajima, Y., and Wang, Y. 2001. Clarification of the relationship between the members of the family Thermomonosporaceae on the basis of 16S rDNA, 16S-23S rRNA internal transcribed spacer and 23S rDNA sequences and chemotaxonomic analyses. Int. J. Syst. Evol. Microbiol. 51: 373-383. PMID: 11321082.

Fungsin, B., Hamamoto, M., Arunpairojana, V., Sukhumavasi, J., Atthasampunna, P., and Nakase, T. 2001. Bensingtonia thailandica sp. nov., a novel basidiomycetous yeast species isolated from plant leaves in Thailand. Int. J. Syst. Evol. Microbiol. 51: 1209-1213. PMID: 11411689.

Sugita, T., Takashima, M., Nakase, T., Ichikawa, T., Ikeda, R., and Shinoda, T. 2001. Two new yeasts, Trichosporon debeurmannianum sp. nov. and Trichosporon dermatis sp. nov., transferred from the Cryptococcus humicola complex. Int. J. Syst. Evol. Microbiol. 51: 1221-1228. PMID: 11411691.

Xin, H., Itoh, T., Zhou, P., Suzuki, K.-I., and Nakase, T. 2001. Natronobacterium nitratireducens sp. nov., a haloalkaliphilic archaeon isolated from a soda lake in China. Int. J. Syst. Evol. Microbiol. 51: 1825-1829. PMID: 11594615.

Euzéby, J. P. and Kudo, T. 2001. Corrigenda to the Validation Lists. Int. J. Syst. Evol. Microbiol. 51: 1933-1938. PMID: 11594628.

Bai, F.-Y., Takashima, M., and Nakase, T. 2001. Phylogenetic analysis of strains originally assigned to Bullera variabilis: descriptions of Bullera pseudohuiaensis sp. nov., Bullera komagatae sp. nov. and Bullera pseudoschimicola sp. nov. Int. J. Syst. Evol. Microbiol. 51: 2177-2187. PMID: 11760961.

Takashima, M., Sugita, T., Shinoda, T., and Nakase, T. 2001. Reclassification of the Cryptococcus humicola complex. Int. J. Syst. Evol. Microbiol. 51: 2199-2210. PMID: 11760963.

Ouwehand, A. C., Isolauri, E., He, F., Hashimoto, H., Benno, Y., and Salminen, S. 2001. Differences in Bifidobacterium flora composition in allergic and healthy infants. J. Allergy Clin. Immunol. 108: 144-145. PMID: 11447399.

Honda, Y., Ueki, M., Okada, G., Onose, R., Usami, R., Horikoshi, K., and Osada, H. 2001. Isolation, and biological properties of a new cell cycle inhibitor, curvularol, isolated from Curvularia sp. RK97-F166. J. Antibiot. 54: 10-16. PMID: 11269706.

Muroi, M., Sano, K., Okada, G., Koshino, H., Oku, T., and Takatsuki, A. 2001. F13459, a new derivative of mycophenolic acid. I. Taxonomy, isolation, and biological properties. J. Antibiot. 54: 489-493. PMID: 11513037.

Kakeya, H., Kageyama, S.-I., Nie, L., Onose, R., Okada, G., Beppu, T., Norbury, C. J., and Osada, H. 2001. Lucilactaene, a new cell cycle inhibitor in p53-transfected cancer cells, produced by a Fusarium sp. J. Antibiot. 54: 850-854. PMID: 11776444.

Sugita, T., Ichikawa, T., Matsukura, M., Sueda, M., Takashima, M., Ikeda, R., Nishikawa, A., and Shinoda, T. 2001. Genetic diversity and biochemical characteristics of Trichosporon asahii isolated from clinical specimens, houses of patients with summer-type-hypersensitivity pneumonitis, and environmental materials. J. Clin. Microbiol. 39: 2405-2411. PMID: 11427546.

Luong, T. D., Takashima, M., Ty, V. P., Dung, L. N., and Nakase, T. 2001. Four new species of Kockovaella isolated from plant leaves collected in Vietnam. J. Gen. Appl. Microbiol. 46: 297-310. PMID: 12483571.

Takashima, M., Deak, T., and Nakase, T. 2001. Emendation of Dioszegia with redescription of Dioszegia hungarica and two new combinations, Dioszegia aurantiaca and Dioszegia crocea. J. Gen. Appl. Microbiol. 47: 75-84. PMID: 12483559.

Takeuchi, Y., Umeda, M., Sakamoto, M., Benno, Y., Huang, Y., and Ishikawa, I. 2001. Treponema socranskii, Treponema denticola, and Porphyromonas gingivalis are associated with severity of periodontal tissue destruction. J. Periodontol. 72: 1354-1363. PMID: 11699477.

Nakase, T., Takashima, M., Itoh, M., Fungsin, B., Potacharoen, W., Atthasampunna, P., and Komagata, K. 2001. Ballistoconidium-forming yeasts found in the phyllosphere of Thailand. Microbiol. Cult. Collect. 17: 23-33. PDF.

Sakamoto, M., Takeuchi, Y., Umeda, M., Ishikawa, I., and Benno, Y. 2001. Rapid detection and quantification of five periodontopathic bacteria by real-time PCR. Microbiol. Immunol. 45: 39-44. PMID: 11270605.

He, F., Ouwehand, A. C., Hashimoto, H., Isolauri, E., Benno, Y., and Salminen, S. 2001. Adhesion of Bifidobacterium spp. to human intestinal mucus. Microbiol. Immunol. 45: 259-262. PMID: 11345536.

Kitahara, M., Sakamoto, M., and Benno, Y. 2001. PCR detection method of Clostridium scindens and C. hiranonis in human fecal samples. Microbiol. Immunol. 45: 263-266. PMID: 11345537.

Ryu, C. S., Czajka, J. W., Sakamoto, M., and Benno, Y. 2001. Characterization of the Lactobacillus casei group and the Lactobacillus acidophilus group by automated ribotyping. Microbiol. Immunol. 45: 271-275. PMID: 11386416.

Sugita, T., Takashima, M., Ikeda, R., Nakase, T., and Shinoda, T. 2001. Intraspecies diversity of Cryptococcus albidus isolated from humans as revealed by sequences of the internal transcribed spacer regions. Microbiol. Immunol. 45: 291-297. PMID: 11386419.

Kageyama, A. and Benno, Y. 2001. Rapid detection of human fecal Eubacterium species and related genera by nested PCR method. Microbiol. Immunol. 45: 315-318. PMID: 11386422.

Hamana, K. and Itoh, T. 2001. Polyamines of the hyperthermophilic archaebacteria belonging to the genera Thermococcus and Methanothermus and two new genera Caldivirga and Palaeococcus. Microbios 104: 105-114. PMID: 11297011.

Hamana, K., Niitsu, M., Samejima, K., and Itoh, T. 2001. Polyamines of the thermophilic eubacteria belonging to the genera Thermosipho, Thermaerobacter and Caldicellulosiruptor. Microbios 104: 177-185. PMID: 11327112.

Tanaka, K., Plattner, R. D., Yamagishi, R., Minamisawa, M., Manabe, M., Kawasugi, S., Gareis, M., and Okada, G. 2001. 8-Deoxy-trichothecin production by Spicellum roseum isolated from a cultivated mushroom in Japan. Mycotoxins 51: 71-77. DOI: 10.2520/myco.51.71.

Itoh, T., Suzuki, K.-I., Sanchez, P. C., and Nakase, T. 2001. Genus II. Caldivirga Itoh, Suzuki, Sanchez and Nakase 1999, 1162VP, In: Boone, D. R. and Castenholz, R. W. (eds.), Bergey’s Manual of Systematic Bacteriology, 2nd ed., vol. 1, The Archaea and the Deeply Branching and Phototrophic Bacteria, pp. 173-174, Springer, New York.

Suzuki, K.-I., Tapay, L. M., and Rahayu, E. S. 2001. Culture collection networks in Asia: a role of Asian network on microbial researches (ANMR) project, In: Nga, B. H., Tan, H. M., and Suzuki, K.-I. (eds.), Microbial Diversity in Asia. Technology and Prospects, pp. 71-89, World Scientific Publishing, Singapore.

Ho, C. C., Tan, G. Y. A., Seow, I., Ajam, N., Tan, E. L., Goodfellow, M., Ward, A. C., Brown, R., Wong, N. K., Lo, C. W., Cheah, H. Y., Lai, N. S., and Suzuki, K.-I. 2001. Isolation, characterisation and biological activities of actinomycetes isolated from dipterocarp rain forest soils in Malaysia, In: Nga, B. H., Tan, H. M., and Suzuki, K.-I. (eds.), Microbial Diversity in Asia. Technology and Prospects, pp. 209-228, World Scientific Publishing, Singapore. DOI: 10.1142/9789812811820_0012.

Sugita, T., Ikeda, R., Takashima, M., Nakase, T., Nishikawa, A., and Shinoda, T. 2001. Genetic diversity of the opportunistic yeast pathogen, Cryptococcus species, In: Benedik, M. (ed.), Research Advance in Microbiology, vol. 2, pp. 27-46, Global Research Network, Kerala.

 

 

2000

Tajima, K., Arai, S., Ogata, K., Nagamine, T., Matsui, H., Nakamura, M., Aminov, R. I., and Benno, Y. 2000. Rumen bacterial community transition during adaptation to high-grain diet. Anaerobe 6: 273-284. DOI: 10.1006/anae.2000.0353.

Matsumoto, A., Takahashi, Y., Kudo, T., Seino, A., Iwai, Y., and Omura, S. 2000. Actinoplanes capillaceus sp. nov., a new species of the genus Actinoplanes. Antonie van Leeuwenhoek 78: 107-115. PMID: 11204762.

Nakamura, M., Ogata, K., Nagamine, T., Tajima, K., Matsui, H., and Benno, Y. 2000. Characterization of the cryptic plasmid pSBO2 isolated from Streptococcus bovis JB1 and construction of a new shuttle vector. Curr. Microbiol. 41: 27-32. PMID: 10919395.

Matsui, H., Ogata, K., Tajima, K., Nakamura, M., Nagamine, T., and Benno, Y. 2000. Phenotypic characterization of polysaccharidases produced by four Prevotella type strains. Curr. Microbiol. 41: 45-49. PMID: 10919398.

Inoue, K., Sugiyama, K., Kosako, Y., Sakazaki, R., and Yami, S. 2000. Enterobacter cowanii sp. nov., a new species of the family Enterobacteriaceae. Curr. Microbiol. 41: 417-420. PMID: 11080391.

Furumoto, H., Taguchi, A., Itoh, T., Morinaga, T., and Itoh, T. 2000. 5S rRNA binding proteins from the hyperthermophilic archaeon, Pyrococcus furiosus. FEBS Lett. 486: 195-199. PMID: 11119702.

Kageyama, A., Sakamoto, M., and Benno, Y. 2000. Rapid identification and quantification of Collinsella aerofaciens using PCR. FEMS Microbiol. Lett. 183: 43-47. PMID: 10650200.

Hamamoto, M., Tamura, M., and Nakase, T. 2000. Emended descriptions of Tilletiopsis washingtonensis, Tilletiopsis cremea and Tilletiopsis lilacina. Int. J. Syst. Evol. Microbiol. 50: 925-930. PMID: 10758905.

Kitahara, M., Takamine, F., Imamura, T., and Benno, Y. 2000. Assignment of Eubacterium sp. VPI 12708 and related strains with high bile acid 7α-dehydroxylating activity to Clostridium scindens and proposal of Clostridium hylemonae sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 50: 971-978. PMID: 10843034.

Xin, H., Itoh, T., Zhou, P., Suzuki, K., Kamekura, M., and Nakase, T. 2000. Natrinema versiforme sp. nov., an extremely halophilic archaeon from Aibi salt lake, Xinjiang, China. Int. J. Syst. Evol. Microbiol. 50: 1297-1303. PMID: 10843075.

Hamamoto, M. and Nakase, T. 2000. Phylogenetic analysis of the ballistoconidium-forming yeast genus Sporobolomyces based on 18S rDNA sequences. Int. J. Syst. Evol. Microbiol. 50: 1373-1380. PMID: 10843083.

Uchino, M., Kosako, Y., Uchimura, T., and Komagata, K. 2000. Emendation of Pseudomonas straminea Iizuka and Komagata 1963. Int. J. Syst. Evol. Microbiol. 50: 1513-1619. PMID: 10939658.

Kageyama, A. and Benno, Y. 2000. Catenibacterium mitsuokai gen. nov., sp. nov., a Gram-positive anaerobic bacterium isolated from human faeces. Int. J. Syst. Evol. Microbiol. 50: 1595-1599. PMID: 10939666.

Kageyama, A. and Benno, Y. 2000. Emendation of genus Collinsella and proposal of Collinsella stercoris sp. nov. and Collinsella intestinalis sp. nov. Int. J. Syst. Evol. Microbiol. 50: 1767-1774. PMID: 11034485.

Sugita, T., Takashima, M., Ikeda, R., Nakase, T., and Shinoda, T. 2000. Intraspecies diversity of Cryptococcus laurentii as revealed by sequences of internal transcribed spacer regions and 28S rRNA gene and the taxonomic position of C. laurentii clinical isolates. J. Clin. Microbiol. 38: 1468-1471. PMID: 10747127.

Nakase, T. 2000. Expanding world of ballistosporous yeasts: distribution in the phyllosphere, systematics and phylogeny. J. Gen. Appl. Microbiol. 46: 189-216. PMID: 12483579.

Matsumoto, M., Tadenuma, T., Nakamura, K., Kume, H., Imai, T., Kihara, R., Watanabe, M., and Benno, Y. 2000. Effect of Bifidobacterium lactis LKM 512 yogurt on fecal microflora in middle to old aged persons. Microb. Ecol. Health Dis. 12: 77-80. DOI: 10.1080/089106000435455.

Hasegawa, H. and Benno, Y. 2000. Anticarcinogenesis in mice by ginseng-hydrolyzing colonic bacteria. Microb. Ecol. Health Dis. 12: 85-91. DOI: 10.1080/089106000435473.

Kageyama, A. and Benno, Y. 2000. Coprobacillus catenaformis gen. nov., sp. nov., a new genus and species isolated from human feces. Microbiol. Immunol. 44: 23-28. PMID: 10711596.

Kageyama, A. and Benno, Y. 2000. Phylogenic and phenotypic characterization of some Eubacterium-like isolates from human feces: description of Solobacterium moorei gen. nov., sp. nov. Microbiol. Immunol. 44: 223-227. PMID: 10832964.

Sugita, T., Takashima, M., Ikeda, R., Nakase, T., and Shinoda, T. 2000. Phylogenetic and taxonomic heterogeneity of Cryptococcus humicolus by analysis of the sequences of the internal transcribed spacer regions and 18S rDNA, and the phylogenetic relationships of C. humicolus, C. curvatus, and the genus Trichosporon. Microbiol. Immunol. 44: 455-461. PMID: 10941928.

Kosako, Y., Yabuuchi, E., Naka, T., Fujiwara, N., and Kobayashi, K. 2000. Proposal of Sphingomonadaceae fam. nov., consisting of Sphingomonas Yabuuchi et al. 1990, Erythrobacter Shiba and Shimidu 1982, Erythromicrobium Yurkov et al. 1994, Porphyrobacter Fuerst et al. 1993, Zymomonas Kluyver and van Niel 1936, and Sandaracinobacter Yurkov et al. 1997, with the type genus Sphingomonas Yabuuchi et al. 1990. Microbiol. Immunol. 44: 563-575. PMID: 10981829.

Sakamoto, M., Umeda, M., Ishikawa, I., and Benno, Y. 2000. Comparison of the oral bacterial flora in saliva from a healthy subject and two periodontitis patients by sequence analysis of 16S rDNA libraries. Microbiol. Immunol. 44: 643-652. PMID: 11021394.

Cai, Y., Matsumoto, M., and Benno, Y. 2000. Bifidobacterium lactis Meile et al. 1997 is a subjective synonym of Bifidobacterium animalis (Mitsuoka 1969) Scardovi and Trovatelli 1974. Microbiol. Immunol. 44: 815-820. PMID: 11128064.

Takashima, M. and Nakase, T. 2000. Four new species of the genus Sporobolomyces isolated from leaves in Thailand. Mycoscience 41: 357-369. DOI: 10.1007/BF02463949.

Okada, G., Jacobs, K., Kirisits, T., Louis-Seize, G. W., Seifert, K. A., Sugita, T., Takematsu, A., and Wingfield, M. J. 2000. Epitypification of Graphium penicillioides Corda, with comments on the phylogeny and taxonomy of graphium-like synnematous fungi. Stud. Mycol. 45: 169-186.

Takashima, M., Hamamoto, M., and Nakase, T. 2000. Taxonomic significance of fucose in the class Urediniomycetes: distribution of fucose in cell wall and phylogeny of urediniomycetous yeasts. Syst. Appl. Microbiol. 23: 63-70. PMID: 10879980.

Hamamoto, M. and Nakase, T. 2000. Phylogenetic relationships among fungi inferred from small subunit ribosomal RNA gene sequences, In: Priest, F. G. and Goodfellow, M. (eds.), Applied Microbial Systematics, pp. 57-71, Kluwer Academic Publishers, Dordrecht. DOI: 10.1007/978-94-011-4020-1_3.

 

 

1999

Cai, Y., Kumai, S., Zhang, J., and Benno, Y. 1999. Comparative studies of lactobacilli and enterococci associated with forage crops as silage inoculants. Anim. Sci. J. 70: 188-194. DOI: 10.2508/chikusan.70.188.

Ogawara, H., Kawamura, N., Kudo, T., Suzuki, K., and Nakase, T. 1999. Distribution of β-lactamases in actinomycetes. Antimicrob. Agents Chemother. 43: 3014-3017. PMID: 10582901.

Cai, Y., Kumai, S., Ogawa, M., Benno, Y., and Nakase, T. 1999. Characterization and identification of Pediococcus species isolated from forage crops and their application for silage preparation. Appl. Environ. Microbiol. 65: 2901-2906. PMID: 10388681.

Nakamura, M., Nagamine, T., Ogata, K., Tajima, K., Matsui, H., Aminov, R. I., and Benno, Y. 1999. Sequence analysis of small cryptic plasmids isolated from Selenomonas ruminantium S20. Curr. Microbiol. 38: 107-112. PMID: 9871109.

Tajima, K., Aminov, R. I., Nagamine, T., Ogata, K., Nakamura, M., Matsui, H., and Benno, Y. 1999. Rumen bacterial diversity as determined by sequence analysis of 16S rDNA libraries. FEMS Microbiol. Ecol. 29: 159-169. DOI: 10.1111/j.1574-6941.1999.tb00607.x.

Ogata, K., Sekizaki, T., Aminov, R. I., Tajima, K., Nakamura, M., Nagamine, T., Matsui, H., and Benno, Y. 1999. A small cryptic plasmid from Ruminobacter amylophilus NIAH-3 possesses functional mobilization properties. FEMS Microbiol. Lett. 181: 41-48. PMID: 10564787.

Kageyama, A., Benno, Y., and Nakase, T. 1999. Phylogenetic and phenotypic evidence of Eubacterium aerofaciens to the genus Collinsella as Collinsella aerofaciens gen. nov., comb. nov. Int. J. Syst. Bacteriol. 49: 557-565. PMID: 10319476.

Yoon, J.-H., Cho, Y.-G, Lee, S. T., Suzuki, K., Nakase, T., and Park, Y.-H. 1999. Nocardioides nitrophenolicus sp. nov., a p-nitrophenol-degrading bacterium. Int. J. Syst. Bacteriol. 49: 675-680. PMID: 10319490.

Park, Y.-H., Yoon, J.-H., Shin, Y. K., Suzuki, K., Kudo, T., Seino, A., Kim, H.-J., Lee, J.-S., and Lee, S. T. 1999. Classification of ‘Nocardioides fulvus‘ IFO 14399 and Nocardioides sp. ATCC 39419 in Kribbella gen. nov., as Kribbella flavida sp. nov. and Kribbella sandramycini sp. nov. Int. J. Syst. Bacteriol. 49: 743-752. PMID: 10319498.

Itoh, T., Suzuki, K., Sanchez, P. C., and Nakase, T. 1999. Caldivirga maquilingensis gen. nov., sp. nov., a new genus of rod-shaped crenarchaeote isolated from a hot spring in the Philippines. Int. J. Syst. Bacteriol. 49: 1157-1163. PMID: 10425774.

Cai, Y., Okada, H., Mori, H., Benno, Y., and Nakase, T. 1999. Lactobacillus paralimentarius sp. nov., isolated from sourdough. Int. J. Syst. Bacteriol. 49: 1451-1455. PMID: 10555326.

Kageyama, A., Benno, Y., and Nakase, T. 1999. Phylogenetic evidence for the transfer of Eubacterium lentum to the genus Eggerthella as Eggerthella lenta gen. nov., comb. nov. Int. J. Syst. Bacteriol. 49: 1725-1732. PMID: 10555354.

Nakajima, Y., Kitpreechavanich, V., Suzuki, K., and Kudo, T. 1999. Microbispora corallina sp. nov., a new species of the genus Microbispora isolated from Thai soil. Int. J. Syst. Bacteriol. 49: 1761-1767. PMID: 10555358.

Kudo, T., Nakajima, Y., and Suzuki, K. 1999. Catenuloplanes crispus (Petrolini et al. 1993) comb. nov.: incorporation of the genus Planopolyspora Petrolini 1993 into the genus Catenuloplanes Yokota et al. 1993 with an amended description of the genus Catenuloplanes. Int. J. Syst. Bacteriol. 49: 1853-1860. PMID: 10555369.

Nagahama, T., Hamamoto, M., Nakase, T., and Horikoshi, K. 1999. Kluyveromyces nonfermentans sp. nov., a new yeast species isolated from the deep sea. Int. J. Syst. Bacteriol. 49: 1899-1905. PMID: 10555374.

Ueda, K., Seki, T., Kudo, T., Yoshida, T., and Kataoka, M. 1999. Two distinct mechanisms cause heterogeneity of 16S rRNA. J. Bacteriol. 181: 78-82. PMID: 9864315.

Ogata, K., Aminov, R. I., Tajima, K., Nakamura, M., Matsui, H., Nagamine, T., and Benno, Y. 1999. Construction of Prevotella ruminicola-Escherichia coli shuttle vector pRAM45 and transformation of P. ruminicola strains by electroporation. J. Biosci. Bioeng. 88: 316-318. PMID: 16232618.

Cai, Y., Benno, Y., Ogawa, M., and Kumai, S. 1999. Effect of applying lactic acid bacteria isolated from forage crops on fermentation characteristics and aerobic deterioration of silage. J. Dairy Sci. 82: 520-526. PMID: 10194670.

Uchida, K., Kudo, T., Suzuki, K., and Nakase, T. 1999. A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram. J. Gen. Appl. Microbiol. 45: 49-56. PMID: 12501387.

Tamura, M., Hamamoto, M., Cañete-Gibas, C. F, Sugiyama, J., and Nakase, T. 1999. Genetic relatedness among species in Aspergillus section Clavati as measured by electrophoretic comparison of enzymes, DNA base composition, and DNA-DNA hybridization. J. Gen. Appl. Microbiol. 45: 77-83. PMID: 12501391.

Cai, Y., Suyanandana, P., Saman, P., and Benno, Y. 1999. Classification and characterization of lactic acid bacteria isolated from the intestines of common carp and freshwater prawns. J. Gen. Appl. Microbiol. 45: 177-184. PMID: 12501375.

Sugita, T. and Nakase, T. 1999. Nonuniversal usage of the leucine CUG codon in yeasts: investigation of basidiomycetous yeast. J. Gen. Appl. Microbiol. 45: 193-197. PMID: 12501377.

Suzuki, M., Suh, S, -O., Sugita, T., and Nakase, T. 1999. A phylogenetic study on galactose-containing Candida species based on 18S ribosomal DNA sequences. J. Gen. Appl. Microbiol. 45: 229-238. PMID: 12501365.

Suzuki, M. and Nakase, T. 1999. A phylogenetic study of ubiquinone Q-8 species of the genera Candida, Pichia, and Citeromyces based on 18S ribosomal DNA sequence divergence. J. Gen. Appl. Microbiol. 45: 239-246. PMID: 12501366.

Suzuki, K., Suzuki, M., Sasaki, J., Park, Y.-H., and Komagata, K. 1999. Leifsonia gen. nov., a genus for 2,4-diaminobutyric acid-containing actinomycetes to accommodate "Corynebacterium aquaticum" Leifson 1962 and Clavibacter xyli subsp. cynodontis Davis et al. 1984. J. Gen. Appl. Microbiol. 45: 253-262. PMID: 12501368.

Kageyama, A., Zama, M., Sugama, S., Yamasato, K., and Benno, Y. 1999. Assignment of the six solvent-producing Clostridium spp. to Clostridium beijerinckii based on DNA-DNA reassociation. J. Gen. Appl. Microbiol. 45: 263-267. PMID: 12501369.

Isogai, H., Kosako, Y., Benno, Y., and Isogai, E. 1999. Ecology of genus Porphyromonas in canine periodontal disease. Zentralbl. Veterinarmed. B 46: 467-473. PMID: 10528543.

Sugita, T., Kagaya, K., Takashima, M., Suzuki, M., Fukazawa, Y., and Nakase, T. 1999. A clinical isolate of Candida palmioleophila formerly identified as Torulopsis candida. Nippon Ishinkin Gakkai Zasshi (Jpn. J. Med. Mycol.) 40: 21-25. PMID: 9929578.

Takashima, M. and Nakase, T. 1999. Molecular phylogeny of the genus Cryptococcus and related species based on the sequences of 18S rDNA and internal transcribed spacer regions. Microbiol. Cult. Collect. 15: 35-47. PDF.

Mikata, K., Ueda-Nishimura, K., Goto, S., Kurtzman, C. P., Suzuki, M., Yarrow, D., and Nakase, T. 1999. Reidentification of yeast strains deposited as Candida agrestis, with a description of Candida kofuensis sp. nov. Microbiol. Cult. Collect. 15: 49-57. PDF.

Yabuuchi, E., Kosako, Y., Naka, T., Suzuki, S., and Yano, I. 1999. Proposal of Sphingomonas suberifaciens (van Bruggen, Jochimsen and Brown 1990) comb. nov., Sphingomonas natatoria (Sly 1985) comb. nov., Sphingomonas ursincola (Yurkov et al. 1997) comb. nov., and emendation of the genus Sphingomonas. Microbiol. Immunol. 43: 339-349. PMID: 10385200.

Kageyama, A., Benno, Y., and Nakase, T. 1999. Phylogenic and phenotypic evidence for the transfer of Eubacterium fossor to the genus Atopobium as Atopobium fossor comb. nov. Microbiol. Immunol. 43: 389-395. PMID: 10449244.

Sakamoto, M., Takeuchi, Y., Umeda, M., Ishikawa, I., Benno, Y., and Nakase, T. 1999. Detection of Treponema socranskii associated with human periodontitis by PCR. Microbiol. Immunol. 43: 485-490. PMID: 10449255.

Sakamoto, M., Koseki, T., Umeda, M., Ishikawa, I., Benno, Y., and Nakase, T. 1999. Phylogenetic analysis of saccharolytic oral treponemes isolated from human subgingival plaque. Microbiol. Immunol. 43: 711-716. PMID: 10529113.

Hamana, K., Hamana, H., Shinozawa, T., Niitsu, M., Samejima, K., and Itoh, T. 1999. Polyamines of the thermophilic eubacteria belonging to the genera Aquifex, Thermodesulfobacterium, Thermus and Meiothermus, and the thermophilic archaebacteria belonging to the genera Sulfurisphaera, Sulfophobococcus, Stetteria, Thermocladium, Pyrococcus, Thermococcus, Methanopyrus and Methanothermus. Microbios 97: 117-130.

Nakase, T., Suzuki, M., Sugita, T., Suh, S.-O., and Komagata, K. 1999. Three new species of anamorphic yeasts phenotypically and phylogenetically related to Candida mesenterica: the description of Candida fungicola sp. nov., Candida sagamina sp. nov., and Candida fukazawae sp. nov. isolated from fruit bodies of mushrooms. Mycoscience 40: 465-476. DOI: 10.1007/BF02461023.

Sugita, T., Cañete-Gibas, C. F., Takashima, M., and Nakase, T. 1999. Three new species of Bullera isolated from leaves in the Ogasawara Islands. Mycoscience 40: 491-501. DOI: 10.1007/BF02461026.

Bai, F.-Y., Takashima, M., and Nakase, T. 1999. Molecular phylogenetic studies on the Bensingtonia strain isolated from Yunnan, China. Mycosystema 18: 254-258.

Hoshino, T., Tojo, M., Okada, G., Kanda, H., Ohgiya, S., and Ishizaki, K. 1999. A filamentous fungus, Pythium ultimum Trow var. ultimum, isolated from moribund moss colonies from Svalbard, northern islands of Norway. Polar Biosci. 12: 68-75.

Sugita, T. and Nakase, T. 1999. Non-universal usage of the leucine CUG codon and the molecular phylogeny of the genus Candida. Syst. Appl. Microbiol. 22: 79-86. PMID: 10188281.

Benno, Y. 1999. Probiotic lactic acid bacteria for functional food. Bioind. News 12: 7-10.

Arie, T., Kobayashi, Y., Kono, Y., Okada, G., and Yamaguchi, I. 1999. Control of clubroot of crucifers by Phoma glomerata and its product epoxydon. Pestic Sci. 55: 602-604. DOI: 10.1002/(SICI)1096-9063(199905)55:5<602::AID-PS964>3.0.CO;2-C.

Salminen, S., Ouwehand, A., Benno, Y., and Lee, Y. K. 1999. Probiotics: how should they be defined? Trends Food Sci. Technol. 10: 107-110. DOI: 10.1016/S0924-2244(99)00027-8.

Benno, Y. 1999. The concept of functional foods, In: International Dairy Foundation (ed.), Milk and Health, pp. 114-119, International Dairy Books, Denmark.

Bai, F.-Y., Takashima, M., and Nakase, T. 1999. The discovery of new ballistoconidia-forming yeast taxa from Yunnan, China, and its implication in yeast species diversity, In: Proceedings of the Second International Symposium on the Geoenvironmental Changes and Biodiversity in Northeast Asia, pp. 66-68, Tongji University, Shanghai.

 

 

1998

Hamana, K., Hamana, H., and Itoh, T. 1998. Polyamine analysis of extremely halophilic archaebacteria. Ann. Gunma Health Sci. 19: 1-4.

Nishihara, H., Yaguchi, T., Chung, S. Y., Suzuki, K., Yanagi, M., Yamasato, K., Kodama, T., and Igarashi, Y. 1998. Phylogenetic position of an obligately chemoautotrophic, marine hydrogen-oxidizing bacterium, Hydrogenovibrio marinus, on the basis of 16S rRNA gene sequences and two form I RuBisCO gene sequences. Arch. Microbiol. 169: 364-368. PMID: 9531639.

Itoh, T., Suzuki, K., and Nakase, T. 1998. Occurrence of introns in the 16S rRNA genes of members of the genus Thermoproteus. Arch. Microbiol. 170: 155-161. PMID: 9683654.

Tomita, S., Shirasaki, N., Hayashizaki, H., Matsuyama, J., Benno, Y., and Kiyosawa, I. 1998. Binding characteristics of bovine lactoferrin to the cell surface of Clostridium species and identification of the lactoferrin-binding protein. Biosci. Biotechnol. Biochem. 62: 1476-1482. PMID: 9757551.

Okada, G., Seifert, K. A., Takematsu, A., Yamaoka, Y., Miyazaki, S., and Tubaki, K. 1998. A molecular phylogenetic reappraisal of the Graphium complex based on 18S rDNA sequences. Can. J. Bot. 76: 1495-1506. DOI: 10.1139/b98-089.

Goris, J., Suzuki, K., De Vos, P., Nakase, T., and Kersters, K. 1998. Evaluation of a microplate DNA-DNA hybridization method compared with the initial renaturation method. Can. J. Microbiol. 44: 1148-1153. DOI: 10.1139/w98-118.

Aminov, R. I., Tajima, K., Ogata, K., Nagamine, T., Sugiura, M., and Benno, Y. 1998. Transcriptional regulation of the Prevotella ruminicola recA gene. Curr. Microbiol. 36: 259-265. PMID: 9541560.

Cai, Y., Benno, Y., Ogawa., M., Ohmomo, S., Kumai, S., and Nakase, T. 1998. Influence of Lactobacillus spp. from an inoculant and of Weissella and Leuconostoc spp. from forage crops on silage fermentation. Environ. Appl. Microbiol. 64: 2982-2987. PMID: 9687461.

Tsuruta, S., Takaya, N., Zhang, L., Shoun, H., Kimura, K., Hamamoto, M., and Nakase, T. 1998. Denitrification by yeasts and occurrence of cytochrome P450nor in Trichosporon cutaneum. FEMS Microbiol. Lett. 168: 105-110. PMID: 9812370.

Cai, Y. and Ogawa, M. 1998. Effect of ammonium tetraformate on the aerobic deterioration of corn silage. Grassland Sci. 44: 90-92.

Hamamoto, M., Kuroyanagi, T., and Nakase, T. 1998. Fellomyces ogasawarensis sp. nov. and Fellomyces distylii sp. nov., yeasts isolated from a plant in Japan. Int. J. Syst. Bacteriol. 48: 287-293. PMID: 9542099.

Sasaki, J., Chijimatsu, M., and Suzuki, K. 1998. Taxonomic significance of 2,4-diaminobutyric acid isomers in the cell wall peptidoglycan of actinomycetes and reclassification of Clavibacter toxicus as Rathayibacter toxicus comb. nov. Int. J. Syst. Bacteriol. 48: 403-410. PMID: 9731278.

Itoh, T., Suzuki, K., and Nakase, T. 1998. Thermocladium modestius gen. nov., sp. nov., a new genus of rod-shaped, extremely thermophilic crenarchaeote. Int. J. Syst. Bacteriol. 48: 879-887. PMID: 9734041.

Takashima, M. and Nakase, T. 1998. Bullera penniseticola sp. nov. and Kockovaella sacchari sp. nov., two new yeast species isolated from plants in Thailand. Int. J. Syst. Bacteriol. 48: 1025-1030. PMID: 9734059.

Kudo, T., Matsushima, K., Itoh, T., Sasaki, J., and Suzuki, K. 1998. Description of four new species of the genus Kineosporia: Kineosporia succinea sp. nov., Kineosporia rhizophila sp. nov., Kineosporia mikuniensis sp. nov. and Kineosporia rhamnosa sp. nov., isolated from plant samples, and amended description of the genus Kineosporia. Int. J. Syst. Bacteriol. 48: 1245-1255. PMID: 9828426.

Sugita, T. and Nakase, T. 1998. Trichosporon japonicum sp. nov. isolated from the air. Int. J. Syst. Bacteriol. 48: 1425-1429. PMID: 9828446.

Sakamoto, M., Tano, Y., Uchimura, T., and Komagata, K. 1998. Aerobic growth of some lactic acid bacteria enable by the external addition of peroxidase (horseradish) to the culture medium. J. Ferment. Bioeng. 85: 627-629. DOI: 10.1016/S0922-338X(98)80017-2.

Kawasaki, S., Nakagawa, T., Nishiyama, Y., Benno, Y., Uchimura, T., Komagata, K., Kozaki, M., and Niimura, Y. 1998. Effect of oxygen on the growth of Clostridium butyricum (type species of the genus Clostridium), and the distribution of enzymes for oxygen and for active oxygen species in clostridia. J. Ferment. Bioeng. 86: 368-372. DOI: 10.1016/S0922-338X(99)89006-0.

Cañete-Gibas, C. F., Takashima, M., Sugita, T., and Nakase, T. 1998. Three new species of Kockovaella isolated from plants collected in the Ogasawara Islands. J. Gen. Appl. Microbiol. 44: 11-18. PMID: 12501288.

Cai, Y., Benno, Y., Takeda, A., Yoshida, T., Itaya, T., and Nakase, T. 1998. Characterization of Leuconostoc species isolated from vacuum-packaged ham. J. Gen. Appl. Microbiol. 44: 153-159. PMID: 12501283.

Cai, Y., Benno, Y., Nakase, T., and Oh, T. K. 1998. Specific probiotic characterization of Weissella hellenica DS-12 isolated from flounder intestine. J. Gen. Appl. Microbiol. 44: 311-316. PMID: 12501410.

Suzuki, M. and Nakase, T. 1998. Cellular neutral sugar compositions and ubiquinone systems of the genus Candida. Microbiol. Cult. Collect. 14: 49-62. PDF.

Yabuuchi, E., Kawamura, Y., Kosako, Y., and Ezaki, T. 1998. Emendation of genus Achromobacter and Achromobacter xylosoxidans (Yabuuchi and Yano) and proposal of Achromobacter ruhlandii (Packer and Vishniac) comb. nov., Achromobacter piechaudii (Kiredjian et al.) comb. nov., and Achromobacter xylosoxidans subsp. denitrificans (Rüger and Tan) comb. nov. Microbiol. Immunol. 42: 429-438. PMID: 9688077.

Hamana, K., Niitsu, M., Samejima, K., Itoh, T., Hamana, H., and Shinozawa, T. 1998. Polyamines of the thermophilic eubacteria belonging to the genera Thermotoga, Thermodesulfovibrio, Thermoleophilum, Thermus, Rhodothermus and Meiothermus, and the thermophilic archaebacteria belonging to the genera Aeropyrum, Picrophilus, Methanobacterium and Methanococcus. Microbios 94: 7-21.

Sugita, T. and Nakase, T. 1998. Molecular phylogenetic study of the basidiomycetous anamorphic yeast genus Trichosporon and related taxa based on small subunit ribosomal DNA sequences. Mycoscience 39: 7-13. DOI: 10.1007/BF02461572.

Okada, G., Takematsu, A., Gandjar, I., and Nakase, T. 1998. Morphology and molecular phylogeny of Tretopileus sphaerophorus, a synnematous hyphomycete with basidiomycetous affinities. Mycoscience 39: 21-30. DOI: 10.1007/BF02461574.

Nagai, K., Suzuki, K., and Okada, G. 1998. Studies on the distribution of alkalophilic and alkali-tolerant soil fungi II: fungal flora in two limestone caves in Japan. Mycoscience 39: 293-298. DOI: 10.1007/BF02464011.

Arie, T., Kobayashi, Y., Okada. G., Kono, Y., and Yamaguchi, I. 1998. Control of soilborne clubroot disease of cruciferous plants by epoxydon from Phoma glomerata. Plant Pathol. 47: 743-748. DOI: 10.1046/j.1365-3059.1998.00298.x.

Takizawa, S., Kojima, S., Tamura, S., Fujinaga, S., Benno, Y., and Nakase, T. 1998. The composition of the Lactobacillus flora in kefir grains. Syst. Appl. Microbiol. 21: 121-127. DOI: 10.1016/S0723-2020(98)80015-5.

Ogata, K., Aminov, R. I., Nagamine, T., Tajima, K., Nakamura, M., Matsui, H., and Benno, Y. 1998. Genomic plasticity of Prevotella ruminicola strains is caused by variable location of cellulase genes, In: Genetics, Biochemistry and Ecology of Cellulose Degradation, pp. 785-789, Uni Publishers Co., Ltd., Tokyo.

Salminen, S., Deighton, M., Benno, Y., and Gorbach, S. 1998. Lactic acid bacteria in health and disease, In: Salminen, S. and von Wright (eds.), Lactic Acid Bacteria, pp. 211-154, Maecel Dekker, New York.

Roeijmans, H., Prillinger, H., Umile, C., Sugiyama, J., Nakase, T., and Boekhout, T. 1998. Analysis of carbohydrate composition of cell walls and extracellular carbohydrates, In: Kurtzman, C. P. and Fell, J. W. (eds.), The Yeasts, a Taxonomic Study (4th ed.), pp. 103-105, Elsevier, Amsterdam. DOI: 10.1016/B978-044481312-1/50016-2.

Nakase, T., Suzuki, M., Phaff, H. J., and Kurtzman, C. P. 1998. Debaryomyces Lodder & Kreger-van Rij nom. cons, In: Kurtzman, C. P. and Fell, J. W. (eds.), The Yeasts, a Taxonomic Study (4th ed.), pp. 157-173, Elsevier, Amsterdam. DOI: 10.1016/B978-044481312-1/50030-7.

Sugiyama, J. and Hamamoto, M. 1998. Erythrobasidium Hamamoto, Sugiyama & Komagata, In: Kurtzman, C. P. and Fell, J. W. (eds.), The Yeasts, a Taxonomic Study (4th ed.), pp. 654-655, Elsevier, Amsterdam. DOI: 10.1016/B978-044481312-1/50086-1.

Boekhout, T. and Nakase, T. 1998. Bensingtonia Ingold emend. Nakase & Boekhout, In: Kurtzman, C. P. and Fell, J. W. (eds.), The Yeasts, a Taxonomic Study (4th ed.), pp. 723-730, Elsevier, Amsterdam. DOI: 10.1016/B978-044481312-1/50097-6.

Boekhout, T. and Nakase, T. 1998. Bullera Derx, In: Kurtzman, C. P. and Fell, J. W. (eds.), The Yeasts, a Taxonomic Study (4th ed.), pp. 731-741, Elsevier, Amsterdam. DOI: 10.1016/B978-044481312-1/50098-8.

Nakase, T. and Banno, I. 1998. Kockovaella Nakase, Banno & Y. Yamada, In: Kurtzman, C. P. and Fell, J. W. (eds.), The Yeasts, a Taxonomic Study (4th ed.), pp. 777-779, Elsevier, Amsterdam. DOI: 10.1016/B978-044481312-1/50103-9.

Boekhout, T. and Nakase, T. 1998. Sporobolomyces Kluyver & van Niel, In: Kurtzman, C. P. and Fell, J. W. (eds.), The Yeasts, a Taxonomic Study (4th ed.), pp. 828-843, Elsevier, Amsterdam. DOI: 10.1016/B978-044481312-1/50111-8.

Benno, Y. 1998. Probiotic lactic acid bacteria for functional food, In: Probiotic Researches on Lactic Acid Bacteria, pp. 14-16, The Korean Society for Applied Microbiology, Seoul.

Benno, Y. 1998. The concept of functional food, In: Proceedings of the 25th International Dairy Congress, pp. 15-16, International Dairy Books, Arhus.

 

 

1997

Nagamine, T., Aminov, R. I., Sugiura, K., Ogata, K., Tajima, K., and Benno, Y. 1997. Method for preparation of RNA from Ruminococcus albus. BioTechniques 22: 406-407. PMID: 9067009.

Isogai, E., Isogai, H., Hirose, K., Mimura, H., Kimura, K., Hayashi, S., Hayashi, M., Fujii, N., and Benno, Y. 1997. Platelet responses after stimulation with lipopolysaccharide from Porphyromonas gingivalis. Biosci. Microflora 16: 79-82. DOI: 10.12938/bifidus1996.16.79.

Ogata, K., Aminov, R. I., Nagamine, T., Sugiura, M., Tajima, K., Mitumori, M., Sekizaki, T., Minato, H., and Benno, Y. 1997. Construction of a Fibrobacter succinogenes genomic map and demonstration of diversity at the genomic level. Curr. Microbiol. 35: 22-27. PMID: 9175555.

Golubev, W. and Nakase, T. 1997. Mycocinogeny in the genus Bullera: taxonomic specificity of sensitivity to the mycocin produced by Bullera sinensis. FEMS Microbiol. Lett. 146: 59-64. PMID: 8997707.

Kataoka, M., Ueda, K., Kudo, T., Seki, T., and Yoshida, T. 1997. Application of the variable region in 16S rDNA to create an index for rapid species identification in the genus Streptomyces. FEMS Microbiol. Lett. 151: 249-255. PMID: 9244758.

Takashima, M. and Nakase, T. 1997. A phylogenetic analysis of three group I introns found in the nuclear small subunit ribosomal RNA gene of the ballistoconidiogenous anamorphic yeast-like fungus Tilletiopsis flava. Genes Genet. Syst. 72: 205-214. PMID: 9418260.

Suzuki, K., Sasaki, J., Uramoto, M., Nakase, T., and Komagata, K. 1997. Cryobacterium psychrophilum gen. nov., sp. nov., nom. rev., comb. nov., an obligately psychrophilic actinomycete to accommodate "Curtobacterium psychrophilum" Inoue and Komagata 1976. Int. J. Syst. Bacteriol. 47: 474-478. PMID: 9103638.

Yanagida, F., Suzuki, K., Kozaki, M., and Komagata, K. 1997. Proposal of Sporolactobacillus nakayamae subsp. nakayamae sp. nov., subsp. nov., Sporolactobacillus nakayamae subsp. racemicus subsp. nov., Sporolactobacillus terrae sp. nov., Sporolactobacillus kofuensis sp. nov., and Sporolactobacillus lactosus sp. nov. Int. J. Syst. Bacteriol. 47: 499-504. DOI: 10.1099/00207713-47-2-499.

Kakeya, H., Zhang, H., Kobinata, K., Onose, R., Onozawa, C., Kudo, T., and Osada, H. 1997. Cytotrienin A, a novel apoptosis inducer in human leikemia HL-60 cells. J. Antibiot. 50: 370-372. PMID: 9186568.

Sugawara, T., Tanaka, A., Nagai, K., Suzuki, K., and Okada, G. 1997. New members of the trichothecene family. J. Antibiot. 50: 778-780. PMID: 9360625.

Cai, Y., Ohmomo, S., Ogawa, M., and Kumai, S. 1997. Effect of NaCl-tolerant lactic acid bacteria and NaCl on the fermentation characteristics and aerobic stability of silage. J. Appl. Microbiol. 83: 307-313. PMID: 9351210.

Sugita, T., Takashima, M., Hamamoto, M., Budhaka, P., and Nakase, T. 1997. Bensingtonia sakaguchii sp. nov. isolated from a leaf of Bischofia javanica in the Ogasawara Islands. J. Gen. Appl. Microbiol. 43: 231-235. PMID: 12501324.

Byun, J. W., Park, S. C., Benno, Y., and Oh, T. K. 1997. Probiotic effect of Lactobacillus sp. DS-12 in flounder (Paralichthys olivaceus). J. Gen. Appl. Microbiol. 43: 305-308. PMID: 12501318.

Harada, H., Oyaizu, H., Kosako, Y., and Ishikawa, H. 1997. Erwinia aphidicola, a new species isolated from pea aphid, Acyrthosiphon pisum. J. Gen. Appl. Microbiol. 43: 349-354. PMID: 12501306.

Mikata, K. and Nakase, T. 1997. Surface structure of ascospores of genus Nadsonia Sydow. Microbiol. Cult. Collect. 13: 97-102. PDF.

Imai, T., Yazawa, K., Tanaka, Y., Mikami, Y., Kudo, T., Suzuki., K., Ando., A., Nagata, Y., and Graefe, U. 1997. Productivity of antimicrobial substances in pathogenic actinomycetes Nocardia brasiliensis. Microbiol. Cult. Collect. 13: 103-108. PDF.

Nakase, T. and Suzuki, M. 1997. Candida gotoi, new species of anamorphic yeast isolated from insect frass in bark of Japanese maple. Microbiol. Cult. Collect. 13: 109-112. PDF.

Golubev, W. I., Ikeda, R., Shinoda, T., and Nakase, T. 1997. Antifungal activity of Bullera alba (Hanna) Derx. Mycoscience 38: 25-29. DOI: 10.1007/BF02464965.

Okada, G., Takematsu, A., and Takamura, Y. 1997. Phylogenetic relationships of the hyphomycete genera Chaetopsina and Kionochaeta based on 18S rDNA sequences. Mycoscience 38: 409-420. DOI: 10.1007/BF02461681.

Pulici, M., Sugawara, F., Koshino, H., Okada, G., Esumi, Y., Uzawa, J., and Yoshida, S. 1997. Metabolites of Pestalotiopsis spp., endophytic fungi of Taxus brevifolia. Phytochemistry 46: 313-319. DOI: 10.1016/S0031-9422(97)00285-9.

Hasegawa, H., Sung, J.-H., and Benno, Y. 1997. Role of human intestinal Prevotella oris in hydrolyzing Ginseng saponins. Planta Med. 63: 436-440. PMID: 9342949.

Benno, Y. 1997. Changes in intestinal flora, In: Mitsuoka, T. (ed.), Intestinal Flora and Immunity, pp. 23-34, Yakult Co. Ltd., Tokyo.

Nagamine, T., Aminov, R. I., Ogata, K., Sugiura, M., Tajima, K., and Benno, Y. 1997. Cloning of xylanase genes from Ruminococcus albus and chromosome mapping of Fibrobacter succinogenes, In: Onodera, R., Itabashi, H., Ushida, K., Yano, H., and Sasaki, Y. (eds.), Rumen Microbes and Digestive Physiology in Ruminants, pp. 59-67, Japan Scientific Societies Press, Tokyo.

Nagamine, T., Ogata, K., Tajima, K., Sugiura, M., and Benno, Y. 1997. Nucleotide sequence of a xylanase gene of Fibrobacter succinogenes S85, In: Present and Future of Rumen Research: Proceeding of Joint Rumen Symposium ’97, p. 36, Japanese Society of Rumen Metabolisms and Physiology, Tokyo.

Ogata, K., Tajima, K., Aminov, R. I., Nagamine, T., Sugiura, M., and Benno, Y. 1997. Phenotypic, genotypic and genomic diversity of Prevotella ruminicola isolates, In: Present and Future of Rumen Research: Proceeding of Joint Rumen Symposium ’97, p. 39, Japanese Society of Rumen Metabolisms and Physiology, Tokyo.

Sugiyama, J., Inamura, T., Okada, G., Sjamsuridzal, W., Kawasaki, H., and Hirata, A. 1997. Divergence and molecular evolution among basidiomycetous yeasts in the tropical and subtropical genus Graphiola, In: Martins, M. T., Sato, M. I. Z., Tiedje, J. M., Hagler, L. C. N., Doebereiner, J., and Sanchez, P. S. (eds.), Progress in Microbial Ecology: Proceedings of 7th International Symposium on Microbial Ecology, pp. 173-180, Brazilian Society for Microbiology, Sao Paulo.

 

 

1996

Hamamoto, M. and Nakase, T. 1996. Ballistosporous yeasts found on the surface of plant materials collected in New Zealand. The genera Bensingtonia and Bullera with descriptions of five new species. Antonie van Leeuwenhoek 69: 279-291. PMID: 8740911.

Wang, J. Y., Suzuki, K., Miyazawa, T., Ueki, T., and Kouyama, T. 1996. Fluorescence polarization study on the dynamics and location of peroxidized fluorescent phospholipids in liposomes. Arch. Biochem. Biophys. 330: 387-394. PMID: 8660669.

Yamada, R., Ujiie, H., Kera, Y., Nakase, T., Kitagawa, K., Imamura, T., Arimoto, K., Takahashi, M., and Matsumura, Y. 1996. Purification and properties of D-aspartate oxidase from Cryptococcus humicolus UJ1. Biochim. Biophys. Acta 1294: 153-158. PMID: 8645733.

Fujita, T., Okamoto, M., Kosako, Y., and Okuhara, M. 1996. Flexibacter japonensis sp. nov., a new species that produces a novel inhibitor of human leukocyte elastase isolated from soil. Curr. Microbiol. 33: 89-93. PMID: 8662178.

Kosako, Y., Tamura, K., Sakazaki, R., and Miki, K. 1996. Enterobacter kobei sp. nov., a new species of the family Enterobacteriaceae resembling Enterobacter cloacae. Curr. Microbiol. 33: 261-265. PMID: 8824173.

Aminov, R. I., Nagamine, T., Ogata, K., Sugiura, M., Tajima, K., and Benno, Y. 1996. Cloning, sequencing and complementation analysis of the recA gene from Prevotella ruminicola. FEMS Microbiol. Lett. 144: 53-59. PMID: 8870252.

Suzuki, K., Sasaki, J., Uramoto, M., Nakase, T., and Komagata, K. 1996. Agromyces mediolanus sp. nov., nom. rev., comb. nov., a species for "Corynebacterium mediolanum" Mamoli 1939 and for some aniline-assimilating bacteria which contain 2,4-diaminobutyric acid in the cell wall peptidoglycan. Int. J. Syst. Bacteriol. 46: 88-93. PMID: 8573525.

Cui, C.-B., Kakeya, H., Okada, G., Onose, R., and Osada, H. 1996. Novel mammalian cell cycle inhibitors, tryprostatins A, B and other diketopiperazines produced by Aspergillus fumigatus. I. Taxonomy, fermentation, isolation and biological properties. J. Antibiot. 49: 527-533. PMID: 8698634.

Ubukata, M., Morita, T., Kakeya, H., Kobinata, K., Kudo, T., and Osada, H. 1996. Sparoxomycins A1 and A2, new inducers of the flat reversion of NRK cells transformed by temperature sensitive Rous sarcoma virus. I. Taxonomy of the producing organism, fermentation and biological activity. J. Antibiot. 49: 1096-1110. PMID: 8982337.

Cui, C.-B., Ubukata, M., Kakeya, H., Onose, R., Okada, G., Takahashi, I., Isono, K., and Osada, H. 1996. Acetophthalidin, a novel inhibitor of mammalian cell cycle, produced by a fungus isolated from a sea sediment. J. Antibiotics 49: 216-219. PMID: 8621365.

Suh, S.-O., Takashima, M., and Nakase, T. 1996. Phylogenetic study of the basidiomycetous anamorphic yeasts Rhodotorula lactosa and R. minuta, and related taxa based on 18S rDNA sequence. J. Gen. Appl. Microbiol. 42: 1-6. DOI: 10.2323/jgam.42.1.

Nakase, T., Suzuki, M., Hamamoto, M., Takashima, M., Hatano, T., and Fukui, S. 1996. A taxonomic study on cellulolytic yeasts and yeast-like microorganisms isolated in Japan. II. The genus Cryptococcus. J. Gen. Appl. Microbiol. 42: 7-15. DOI: 10.2323/jgam.42.7.

Takashima, M., Suh, S.-O., and Nakase, T. 1996. Group I introns found in nuclear small subunit ribosomal RNA genes of the ballistoconidiogenous anamorphic yeast Bensingtonia ciliata and Bensingtonia yamatoana. J. Gen. Appl. Microbiol. 42: 189-200. DOI: 10.2323/jgam.42.189.

Takashima, M. and Nakase, T. 1996. A phylogenetic study of the genus Tilletiopsis, Tilletiaria anomala and related taxa based on the small subunit ribosomal DNA sequences. J. Gen. Appl. Microbiol. 42: 421-429. DOI: 10.2323/jgam.42.421.

Golubev, W., Ikeda, R., Shinoda, T., and Nakase, T. 1996. Mycocinogeny in the genus Bullera: anti-tremellaceous yeast activity of killer toxin produced by Bullera hannae. J. Gen. Appl. Microbiol. 42: 471-479. DOI: 10.2323/jgam.42.471.

Suh, S.-O., Takashima, M., Hamamoto, M., and Nakase, T. 1996. Molecular phylogeny of the ballistoconidium-forming anamorphic yeast genus Bullera and related taxa based on small subunit ribosomal DNA sequences. J. Gen. Appl. Microbiol. 42: 501-509. DOI: 10.2323/jgam.42.501.

Hashimoto, S., Igimi, H., Uchida, K., Satoh, T., Benno, Y., and Takeuchi, N. 1996. Effects of β-lactam antibiotics on intestinal microflora and bile acid metabolism in rats. Lipids 31: 601-609. PMID: 8784740.

Tanaka, Y., Yazawa, K., Mikami, Y., Kudo, T., Suzuki, K., Komaki, H., Tojo, T., and Kadowaki, K. 1996. Changes in menaquinone composition associated with growth phase and medium composition in Amycolatopsis species. Microbiol. Cult. Collect. 12: 11-16. PDF.

Okada, G. 1996. Conidiogenesis of a didymosporous synnematous hyphomycete, Stachycoremium parvulum. Microbiol. Cult. Collect. 12: 17-24. PDF.

Suh, S.-O., Takematsu, A., Takashima, M., and Nakase, T. 1996. Molecular phylogenetic study on stalked conidium-forming yeasts and related basidiomycetous yeast taxa based on 18S rDNA sequences. Microbiol. Cult. Collect. 12: 79-86. PDF.

Hamana, K., Hamana, H., Niitsu, M., Samejima, K., and Itoh, T. 1996. Distribution of long linear and branched polyamines in thermophilic eubacteria and hyper thermophilic archaebacteria. Microbios 85: 19-33.

Hamana, K., Hamana, H., Niitsu, M., Samejima, K., and Itoh, T. 1996. Polyamines of hyperthermophilic archaebacteria, Archaeoglobus, Thermococcus, Pyrobaculum and Sulfolobus. Microbios 87: 69-76.

Benno, Y., He, F., Hosoda, M., Hashimoto, H., Kojima, T., Yamazaki, K., Uno, H., Mykkanen, H., and Salminen, S. 1996. Effects of Lactobacillus GG yogurt on human intestinal microecology in Japanese subjects. Nutr. Today 31: 9S-11S.

Koseki, T., Ishikawa, I., Boutsi, E., He, T., and Benno, Y. 1996. Nutritional analysis and an enriched medium for fermentative treponemes isolated from subgingival plaque. Oral Microbiol. Immunol. 11: 166-171. PMID: 8941771.

Koseki, T., Benno, Y., Zhang-Koseki, Y. J., Umeda, M., and Ishikawa, I. 1996. Detection frequencies and the colony-forming unit recovery of oral treponemes by different cultivation methods. Oral Microbiol. Immunol. 11: 203-208. PMID: 8941777.

Ogata, K., Aminov, R. I., Nagamine, T., Benno, Y., Sekizaki, T., Mitsumori, M., Minato, H., and Itabashi, H. 1996. Structural organization of pRAM4, a cryptic plasmid from Prevotella ruminicola. Plasmid 35: 91-97. PMID: 8700970.

Prillinger, H., Messner, R., König, H., Bauer, R., Lopandic, K., Molnar, O., Dangel, P., Weigang, F., Kirisits, T., Nakase, T., and Sigler, L. 1996. Yeasts associated with termites: a phenotypic and genotypic characterization and use of coevolution for dating evolutionary radiations in asco- and basidiomycetes. Syst. Appl. Microbiol. 19: 265-283. DOI: 10.1016/S0723-2020(96)80053-1.

Benno, Y. 1996. A semi-automatic system for bacterial identification. RIKEN Rev. 12: 57-58.

Benno, Y., Inoue, H., Tajima, K., Nagamine, T., Ogata, K., Sugiura, M., and Aminov, R. I. 1996. Isolation and identification of rumen anaerobic bacteria, In: The 8th Animal Science Congress of the Asian-Australasian Association of Animal Production Societies: Proceedings, vol. 2, pp. 654-655, Japanese Society of Zootechnical Science, Tokyo.

Tajima, K., Aminov, R. I., Nagamine, T., Ogata, K., Sugiura, M., and Benno, Y. 1996. Genetic diversity of rumen bacteria based on direct retrieval and analysis of 16S rDNA sequences, In: The 8th Animal Science Congress of the Asian-Australasian Association of Animal Production Societies: Proceedings, vol. 2, pp. 656-657, Japanese Society of Zootechnical Science, Tokyo.

Nagamine, T., Takenaka, A., Aminov, R. I., Ogata, K., Sugiura, M., Tajima, K., Benno, Y., and Itabashi, H. 1996. Cloning, molecular analysis and expression of xylanase gene from Ruminococcus albus 7, In: The 8th Animal Science Congress of the Asian-Australasian Association of Animal Production Societies: Proceedings, vol. 2, pp. 660-661, Japanese Society of Zootechnical Science, Tokyo.

Ogata, K., Aminov, R. I., Nagamine, T., Sugiura, M., Tajima, K., Mitsumori, M., Sekizaki, T., Minato, H., and Benno, Y. 1996. Construction of AscI restriction map of Fibrobacter succinogenes S85 by pulse-field gel electrophoresis, In: The 8th Animal Science Congress of the Asian-Australasian Association of Animal Production Societies: Proceedings, vol. 2, pp. 664-665, Japanese Society of Zootechnical Science, Tokyo.

Cai, Y., Ogawa, M., Benno, Y., and Nakase, T. 1996. Effect of physical properties of yeasts on the aerobic deterioration in dairy farm silage, In: The 8th Animal Science Congress of the Asian-Australasian Association of Animal Production Societies: Proceedings, vol. 2, pp. 891-892, Japanese Society of Zootechnical Science, Tokyo.

 

 

1995

Itoh, T., Kudo, T., Oyaizu, H., and Seino, A. 1995. Two new species in the genus Actinomadura; A. glomerata sp. nov., and A. longicatena sp. nov. Actinomycetologica 9: 164-177. DOI: 10.3209/saj.9_164.

Hamamoto, M. and Nakase, T. 1995. Ballistosporous yeasts found on the surface of plant materials collected in New Zealand. I. Six new species in the genus Sporobolomyces. Antonie van Leeuwenhoek 67: 151-171. PMID: 7771763.

Sakurai, I., Kosako, Y., Kawamura, Y., Ueki, T., Inoue, Y., and Nakase, T. 1995. Bacterially associated corrosion of aluminum surface in the air. Biotechnol. Lett. 17: 1131-1132. DOI: 10.1007/BF00143116.

Hiraishi, A., Kishimoto, N., Kosako, Y., Wakao, N., and Tano, T. 1995. Phylogenetic position of the menaquinone-containing acidophilic chemo-organotroph Acidobacterium capsulatum. FEMS Microbiol. Lett. 132: 91-94. PMID: 7590170.

Urakami, T., Sasaki, J., Suzuki, K., and Komagata, K. 1995. Characterization and description of Hyphomicrobium denitrificans sp. nov. Int. J. Syst. Bacteriol. 45: 528-532. DOI: 10.1099/00207713-45-3-528.

Kakeya, H., Takahashi, I., Okada, G., Isono, K., and Osada, H. 1995. Epolactaene, a novel neuritogenic compound in human neuroblastoma cells, produced by a marine fungus. J. Antibiotics 48: 733-735. PMID: 7649877.

Cui, C.-B., Kakeya, H., Okada, G., Onose, R., Ubukata, M., Takahashi, I., Isono, K., and Osada, H. 1995. Tryprostatins A and B, novel mammalian cell cycle inhibitors produced by Aspergillus fumigatus. J. Antibiotics 48: 1382-1384. PMID: 8557590.

Naito, S., Hayashidani, H., Kaneko, K., Ogawa, M., and Benno, Y. 1995. Development of intestinal lactobacilli in normal piglets. J. Appl. Bacteriol. 79: 230-236. PMID: 7592119.

Takashima, M., Suh, S.-O., and Nakase, T. 1995. Phylogenetic relationships among species of the genus Bensingtonia and related taxa based on the small subunit ribosomal DNA sequences. J. Gen. Appl. Microbiol. 41: 131-141. DOI: 10.2323/jgam.41.131.

Takashima, M., Suh, S.-O., and Nakase, T. 1995. Bensingtonia musae sp. nov. isolated from a dead leaf of Musa paradisiaca and its phylogenetic relationship among basidiomycetous yeasts. J. Gen. Appl. Microbiol. 41: 143-151. DOI: 10.2323/jgam.41.143.

Hamana, K., Hamana, H., and Itoh, T. 1995. Ubiquitous occurrence of agmatine as the major polyamine within extremely halophilic archaebacteria. J. Gen. Appl. Microbiol. 41: 153-158. DOI: 10.2323/jgam.41.153.

Suh, S.-O. and Nakase, T. 1995. Phylogenetic analysis of the ballistosporous anamorphic genera Udeniomyces and Bullera, and related basidiomycetous yeasts based on 18S rDNA sequences. Microbiology 141: 901-906. PMID: 7773393.

Hamana, K., Hamana, H., and Itoh, T. 1995. Polyamines in the hydrogen-oxidizing eubacteria, Hydrogenobacter, Calderobacterium and Hydrogenovibrio and the sulphur-reducing archaebacteria Stygiolobus and Desulfurolobus. Microbios 81: 223-229.

Okada, G., Sakai, N., and Yamagishi, M. 1995. Acremonium-like submerged conidiation in Paecilomyces nostocoides and P. lilacinus. Mycoscience 36: 345-351. DOI: 10.1007/BF02268611.

Nagai, K., Sakai, T., Rantiatmodjo, R. M., Suzuki, K., Gams, W., and Okada, G. 1995. Studies on the distribution of alkalophilic and alkali-tolerant soil fungi I. Mycoscience 36: 247-256. DOI: 10.1007/BF02268598.

Koseki, T., Ishikawa, I., Umeda, M., and Benno, Y. 1995. Characterization of oral treponemes isolated from human periodontal pockets. Oral Microbiol. Immunol. 10: 271-277. PMID: 8596668.

Kishimoto, N., Kosako, Y., Wakao, N., Tano, T., and Hiraishi, A. 1995. Transfer of Acidiphilium facilis and Acidiphilium aminolytica to the genus Acidocella gen. nov., and emendation of the genus Acidiphilium. Syst. Appl. Microbiol. 18: 85-91. DOI: 10.1016/S0723-2020(11)80453-4.

Kudo, T. 1995. Establishment of the genus Herbidospora and some new taxa of actinomycetes. Actinomycetologica 9: 66-74. DOI: 10.3209/saj.9_66.

Nakase, T., Suh, S.-O., and Takashima, M. 1995. Significance of cellular xylose in the systematics of basidiomycetous yeasts. RIKEN Rev. 8: 47-48.

Benno, Y. 1995. Oligosaccharides and human fecal bifidobacteria. RIKEN Rev. 8: 57-58.

Nakase, T., Suh, S.-O., and Hamamoto, M. 1995. Molecular systematics of ballistoconidium-forming yeasts, In: Boekhout, T. and Samson, R. A. (eds.), Studies in Mycology No. 38, pp. 163-173, Centraalbureau voor Schimmelcultures, Baarn and Delft.

 

 

1994

Ochi, K., Inatsu, Y., Okamoto, S., Penyige, A., Kudo, T., and Hotta, K. 1994. Characterization of various Streptomyces griseus strains as to aerial mycelium- and submerged spore-formation. Actinomycetologica 8: 79-84. DOI: 10.3209/saj.8_79.

Hara-Kudo, Y., Benno, Y., Hayashidani, H., Kaneko, K. I., and Ogawa, M. 1994. Improved media for isolation of fecal bacteria in koalas. Bifidobacteria Microflora 13: 9-16. DOI: 10.12938/bifidus1982.13.1_9.

Ishii, M., Ono, T., Suzuki, K., Igarashi, Y., and Kodama, T. 1994. Electron transport system in Pseudomonas hydrogenothermophila strain TH-1, a thermophilic hydrogen-oxidizing bacterium. Biosci. Biotechnol. Biochem. 58: 1-4. PMID: 27315696.

Shimada, T., Arakawa, E., Itoh, K., Kosako, Y., Inoue, K., Zhengshi, Y., and Aldova, E. 1994. New O and H antigens of Plesiomonas shigelloides and their O antigenic relationships to Shigella boydii. Curr. Microbiol. 28: 351-354. DOI: 10.1007/BF01570200.

Urakami, T., Ito-Yoshida, C., Araki, H., Kojima, T., Suzuki, K., and Komagata, K. 1994. Transfer of Pseudomonas plantarii and Pseudomonas glumae to Burkholderia as Burkholderia spp. and description of Burkholderia vandii sp. nov. Int. J. Syst. Bacteriol. 44: 235-245. DOI: 10.1099/00207713-44-2-235.

Takizawa, S., Kojima, S., Tamura, S., Fujinaga, S., Benno, Y., and Nakase, T. 1994. Lactobacillus kefirgranum sp. nov. and Lactobacillus parakefir sp. nov., two new species from kefir grains. Int. J. Syst. Bacteriol. 44: 435-439. DOI: 10.1099/00207713-44-3-435.

Nakase, T., Takashima, M., and Hamamoto, M. 1994. Sporobolomyces linderae, a new ballistosporous anamorphic yeast found on a dead leaf of Lindera obtusiloba collected at Mt. Fuji. J. Gen. Appl. Microbiol. 40: 95-101. DOI: 10.2323/jgam.40.95.

Suzuki, M., Nakase, T., and Komagata, K. 1994. Candida stellimalicola, a new species of anamorphic yeast isolated from star apple in Thailand. J. Gen. Appl. Microbiol. 40: 115-121. DOI: 10.2323/jgam.40.115.

Nakase, T., Suzuki, M., Takashima, M., Miyakawa, Y., Kagaya, K., Fukazawa, Y., and Komagata, K. 1994. Candida sojae, a new species of yeast isolated from an extraction process of water-soluble substances of defatted soybean flakes. J. Gen. Appl. Microbiol. 40: 161-169. DOI: 10.2323/jgam.40.161.

van der Walt, J. P., Nakase, T., Suzuki, M., Takashima, M., and Yamada, Y. 1994. Debaryomyces polymorphus var. africanus, a new variety of ascosporogenous yeast found in South Africa. J. Gen. Appl. Microbiol. 40: 331-337. DOI: 10.2323/jgam.40.331.

Nakase, T., Suzuki, M., Takashima, M., Hamamoto, M., Hatano, T., and Fukui, S. 1994. A taxonomic study on cellulolytic yeasts and yeast-like microorganisms isolated in Japan. I. Ascomycetous yeast genera Candida and Williopsis, and a yeast-like genus Prototheca. J. Gen. Appl. Microbiol. 40: 519-531. DOI: 10.2323/jgam.40.519.

Nakase, T., Suzuki, M., Takashima, M., Rosadi, D., Hermosillo, A. M., and Komagata, K. 1994. Candida akabanensis, a new species of yeast isolated from insect frass in bark of a grape-vine. Microbiol. Cult. Collect. 10: 35-43.

Lee, W.-K., Benno, Y., Fujisawa, T., Itoh, K., and Mitsuoka, T. 1994. Isolation and characterization of fecal clostridia from humans and animals. Microbiol. Cult. Collect. 10: 89-96.

Takashima, M., Suzuki, M., and Nakase, T. 1994. Isolation of pyridoxine-requiring strains of Candida intermedia from insect frass of a fig-tree. Microbiol. Cult. Collect. 10: 97-101.

 

 

1993

Nakase, T., Takematsu, A., Hamamoto, M., and Takashima, M. 1993. The expanding realm of ballistosporous yeasts. Antonie van Leeuwenhoek 63: 191-200. PMID: 8259835.

Park, Y.-H., Suzuki, K., Yim, D.-G., Lee, K.-C., Kim, E., Yoon, J., Kim, S., Kho, Y. H., Goodfellow, M., and Komagata, K. 1993. Suprageneric classification of peptidoglycan group B actinomycetes by nucleotide sequencing of 5S ribosomal RNA. Antonie van Leeuwenhoek 64: 307-313. PMID: 8085792.

Taguchi, S., Kikuchi, H., Kojima, S., Kumagai, I., Nakase, T., Miura, K., and Momose, H. 1993. High frequency of SSI-like protease inhibitors among Streptomyces. Biosci. Biotechnol. Biochem. 57: 522-524. PMID: 7763545.

Kojima, S., Takizawa, S., Tamura, S., Fujinaga, S., Benno, Y., and Nakase, T. 1993. An improved medium for the isolation of lactobacilli from kefir grains. Biosci. Biotechnol. Biochem. 57: 119-120. PMID: 27316884.

Suzuki, M. and Nakase, T. 1993. A taxonomic study on Candida glaebosa and phenotypically related species Candida saitoana, with a description of a new species Candida pseudoglaebosa. Bull. JFCC 9: 120-134.

Kishimoto, N., Kosako, Y., and Tano, T. 1993. Acidiphilium aminolytica sp. nov.: an acidophilic chemoorganotrophic bacterium isolated from acidic mineral environment. Curr. Microbiol. 27: 131-136. DOI: 10.1007/BF01576009.

Kudo, T., Itoh, T., Miyadoh, S., Shomura, T., and Seino, A. 1993. Herbidospora gen. nov., a new genus of the family Streptosporangiaceae Goodfellow et al. 1990. Int. J. Syst. Bacteriol. 43: 319-328. PMID: 7684242.

Urakami, T., Araki, H., Suzuki, K., and Komagata, K. 1993. Further studies of the genus Methylobacterium and description of Methylobacterium aminovorans sp. nov. Int. J. Syst. Bacteriol. 43: 504-513. DOI: 10.1099/00207713-43-3-504.

Shima, S. and Suzuki, K. 1993. Hydrogenobacter acidophilus sp. nov., a thermoacidophilic, aerobic, hydrogen-oxidizing bacterium requiring elemental sulfur for growth. Int. J. Syst. Bacteriol. 43: 703-708. DOI: 10.1099/00207713-43-4-703.

Ubukata, M., Osada, H., Kudo, T., and Isono, K. 1993. Respinomycins A1, A2, B, C and D, a novel group of anthracycline antibiotics. I. Taxonomy, fermentation, isolation and biological activities. J. Antibiot. 46: 936-941. PMID: 8344875.

Kobinata, K., Koshino, H., Kudo, T., Isono, K., and Osada, H. 1993. RK-397, a new oxo pentaene antibiotic. J. Antibiot. 46: 1616-1618. PMID: 8244892.

Nakase, T., Takematsu, A., and Yamada, Y. 1993. Molecular approaches to the taxonomy of ballistosporous yeasts based on the partial nucleotide sequences of 18S ribosomal ribonucleic acid. J. Gen. Appl. Microbiol. 39: 107-134. DOI: 10.2323/jgam.39.107.

Masuda, S., Seki, K., Sumi, T., Kobayashi, K., Sakurada, J., Murai, M., Usui, A., Jitsukawa, H., Ishii, M., Yoshiba, S., and Kosako, Y. 1993. Isolation procedure and preliminary characterization of toxin-producing bacteria from Japanese land leech, Haemadipsa zeylanica japonica and medicinal leech, Hirudo medicinalis. Jpn. J. Sanit. Zool. 44: 279-285. DOI: 10.7601/mez.44.279.

Ohama, T., Suzuki, T., Mori, M., Osawa, S., Ueda, T., Watanabe, K., and Nakase, T. 1993. Non-universal decoding of the leucine codon CUG in several Candida species. Nucleic Acids Res. 21: 4039-4045. PMID: 8371978.

Okada, G., Niimura, Y., Sakata, T., Uchimura, T., Ohara, N., Suzuki, H., and Kozaki, M. 1993. Acremonium alcalophilum, a new alkalophilic cellulolytic hyphomycete. Trans. Mycol. Soc. Japan 34: 171-185.

Kosako, Y. and Kishimoto, N. 1993. Acidobacterium capsulatum; a new genus and species isolated from acidic environment. RIKEN Rev. 3: 5-6.

Sakurai, I., Kosako, Y., Kawamura, Y., Ueki, T., Inoue, Y., and Nakase, T. 1993. On bacteria with particles of metallic compounds in the cell. RIKEN Rev. 3: 11-12.

Benno, Y. and Koseki, T. 1993. Treponemes in human periodontal disease. RIKEN Rev. 3: 25-26.

Nakase, T. and Takashima, M. 1993. A simple procedure for the high frequency of new taxa of ballistosporous yeasts living on the surfaces of plants. RIKEN Rev. 3: 33-34.

Seifert, K. A. and Okada, G. 1993. Graphium anamorphs of Ophiostoma species and similar anamorphs of other ascomycetes, In: Wingfield, M. J., Seifert, K. A., and Webber, J. F. (eds.), Ceratocystis and Ophiostoma: Taxonomy, ecology and pathogenicity, pp. 27-41, APS Press, St. Paul.

Suzuki, K., Goodfellow, M., and O’Donnell, A. G. 1993. Cell envelopes and classification, In: Goodfellow, M. and O’Donnell, A. G. (eds.), Handbook of new bacterial systematics, pp. 195-250, Academic Press, London.



 

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