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RIKEN BioResource Research Center - Japan Collection of Microorganisms
JCM Mail News (2024.07.25)
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RIKEN BioResource Research Center - Japan Collection of Microorganisms
(JCM) is pleased to update you with the latest information.
======= Contents =====================================================
- Special topic: Gut microbes isolated by
liquid-liquid co-culture method.
- Newly cataloged strains (2023.3.01 - 2024.06.30)
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Special topic: Gut microbes isolated by
liquid-liquid co-culture method.
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Gut microbes are relevant to human physiological functions and various
diseases, and are of critical importance in various industrial fields
including drug development; therefore, the isolation, cultivation, and
classification of difficult-to-culture microorganisms and new species
are essential for the development of new live biotherapeutic products.
Several new species and difficult-to-culture microorganisms have been
isolated by co-culturing, but there are few examples where
liquid-liquid co-culture methods using liquid medium instead of solid
medium have been used to isolate strains. Recently, a new culture
method, liquid-liquid co-culture, which is expected to promote the
growth and isolation of very small unknown bacterial species selected
by filter filtration (pore size 0.45 µm) using stool diluent as growth
support bacteria and the metabolites produced by the support bacteria,
was used to isolate Waltera intestinalis (JCM 36211) with curved
features. W. intestinalis has only been isolated from piglets so far,
and this is the first time it has been isolated from humans. In
addition to with W. intestinalis, Waltera acetigignens (JCM 36210 and
JCM 36378), the second species of the genus Waltera, was also isolated
in this study. The cell size of the isolates was found to be short and
thin in the early stages of growth and became longer and thicker with
increasing incubation time, suggesting that the isolates have the
unique characteristic of filtering out in the early stages of culture
and elongating later. The liquid-liquid co-culture method is not
limited to the isolation of gut microbes but is expected to be applied
to the isolation of microorganisms in various environments in the
future.
References
Hisatomi et al. 2024. Isolation and identification of gut microbes by
liquid-liquid co-culture method. Microb. Resour. Syst., 40: 39-45.
Sakamoto et al. 2024. Isolation and characterization of a new Waltera
species and reclassification of Brotolimicola acetigignens Hitch et al.
2022 as Waltera acetigignens comb. nov. Int. J. Syst. Evol. Microbiol.,
74: 006381.
DOI: 10.1099/ijsem.0.006381
Mitsuo Sakamoto, Ph.D.
Curator of Anaerobic Bacteria & Lactic Acid Bacteria
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Newly cataloged strains (2023.3.01 - 2024.06.30)
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Bacteria
Achromobacter seleniivolatilans JCM 36009 Type strain
Acinetobacter colistiniresistens JCM 36653 Type strain
Acinetobacter schindleri JCM 36654 Type strain
Acinetobacter ursingii JCM 36655 Type strain
Acinetobacter variabilis JCM 36656 Type strain
Actomonas aquatica JCM 34677 Type strain
Adlercreutzia aquisgranensis JCM 36500 Type strain
Aerococcus kribbianus JCM 35699 Type strain
Aerococcus kribbianus JCM 35700
"Agrobacterium oryzihabitans" JCM 32903 Proposed type strain
Agrococcus beijingensis JCM 35164 Type strain
Agrococcus terreus JCM 34467
Agromyces sp. JCM 34416
"Amycolatopsis solani" JCM 36309 Proposed type strain
Anaerolentibacter hominis JCM 36511 Type strain
Aneurinibacillus uraniidurans JCM 36228 Type strain
Arthrobacter jiangjiafuii JCM 34728 Type strain
Arthrobacter sp. JCM 33935
Arthrobacter sunyaminii JCM 34727 Type strain
Bifidobacterium apis JCM 36562 Type strain
Bosea beijingensis JCM 35118 Type strain
"Brachybacterium equifaecis" JCM 35094 Proposed type strain
Brachybacterium sacelli JCM 34468
Bradyrhizobium roseum JCM 34606 Type strain
Buttiauxella selenatireducens JCM 35850 Type strain
"Caldimonas mangrovi" JCM 34532 Proposed type strain
"Campylobacter felis" JCM 35847 Proposed type strain
"Campylobacter gastrosuis" JCM 35849 Proposed type strain
"Campylobacter ovis" JCM 35848 Proposed type strain
Cedecea sulfonylureivorans JCM 34640 Type strain
Cellulomonas dongxiuzhuiae JCM 34729 Type strain
Cellulomonas fengjieae JCM 34730 Type strain
Cellulomonas sp. JCM 34559
Cellulomonas wangleii JCM 34731 Type strain
Chitinophaga horti JCM 33215 Type strain
Chryseobacterium herbae JCM 35711 Type strain
Clostridium aquiflavi JCM 35355 Type strain
"Clostridium brassicae" JCM 35370 Proposed type strain
Coraliomargarita algicola JCM 35407 Type strain
Coralliovum pocilloporae JCM 35320 Type strain
"Corallococcus caeni" JCM 36609 Proposed type strain
"Corallococcus caeni" JCM 36610
"Desulfomicrobium aggregans" JCM 39179 Proposed type strain
Diplocloster hominis JCM 36512 Type strain
Enterobacter pseudoroggenkampii JCM 35646 Type strain
"Erwinia sorbitola" JCM 33839 Proposed type strain
Erythrobacter oryzae JCM 35529 Type strain
Erythrobacter oryzae JCM 35530
Falsiroseomonas oryzae JCM 35532 Type strain
Falsiroseomonas oryziterrae JCM 34745 Type strain
Falsiroseomonas oryziterrae JCM 34746
Ferirhizobium litorale JCM 31308 Type strain
Flavobacterium acetivorans JCM 34193 Type strain
Flavobacterium galactosidilyticum JCM 34203 Type strain
"Flexivirga meconopsidis" JCM 36020 Proposed type strain
Flintibacter muris JCM 36501 Type strain
Gluconobacter oxydans JCM 25115
Gluconobacter oxydans JCM 25117
Gluconobacter oxydans JCM 25118
Gluconobacter oxydans JCM 25119
"Granulicatella seriolae" JCM 35604 Proposed type strain
"Halomonas piscis" JCM 35927
"Halomonas piscis" JCM 35928
"Halomonas piscis" JCM 35929 Proposed type strain
Hymenobacter canadensis JCM 35843 Type strain
Hymenobacter sediminicola JCM 35801 Type strain
Janibacter limosus JCM 34464
Janibacter sp. JCM 36545
Kaistella rhinocerotis JCM 36038 Type strain
Kitasatospora cathayae JCM 36274 Type strain
Lacinutrix neustonica JCM 35710 Type strain
Lactiplantibacillus paraxiangfangensis JCM 36258 Type strain
Lactobacillus juensis JCM 36259 Type strain
Lactobacillus rizhaonensis JCM 36260 Type strain
Leucobacter edaphi JCM 34360 Type strain
"Limobrevibacterium gyesilva" JCM 35944 Proposed type strain
Litchfieldella xinjiangensis JCM 15902 Type strain
Luteolibacter rhizosphaerae JCM 34400 Type strain
Lutimonas zeaxanthinifaciens JCM 36287 Type strain
"Lysinibacillus piscis" JCM 36611 Proposed type strain
"Lysobacter changpingensis" JCM 34576 Proposed type strain
"Macromonas nakdongensis" JCM 31376 Proposed type strain
Marinomonas phaeophyticola JCM 35412 Type strain
Marinomonas rhodophyticola JCM 35591 Type strain
Methylobacterium durans JCM 33120
Methylomarinovum tepidoasis JCM 35101 Type strain
Microbacterium abyssi JCM 33956 Type strain
Microbacterium limosum JCM 33960 Type strain
Microbacterium saccharophilum JCM 34465
Micromonospora cathayae JCM 36275 Type strain
Micromonospora sp. JCM 36306
"Micromonospora thermarum" JCM 17127 Proposed type strain
Muribaculum caecicola JCM 36504 Type strain
Mycolicibacterium cyprinidarum JCM 35117 Type strain
"Natronospira bacteriovora" JCM 35397 Proposed type strain
"Natronospira elongata" JCM 35396 Proposed type strain
"Neorhizobium deserti" JCM 33732 Proposed type strain
Nesterenkonia aerolata JCM 36375 Type strain
Niabella defluvii JCM 35315 Type strain
Nocardia implantans JCM 34959 Type strain
Nocardia sp. JCM 33933
Nocardioides litoris JCM 34463
Nocardioides sp. JCM 34558
Nocardioides sp. JCM 36399
Nocardiopsis sp. JCM 36305
Ochrobactrum chromiisoli JCM 36000 Type strain
Odoribacter lunatus JCM 36505 Type strain
Oleispirillum naphthae JCM 34765 Type strain
"Ornithinimicrobium cryptoxanthini" JCM 34882 Proposed type strain
"Ornithinimicrobium faecis" JCM 34881 Proposed type strain
"Ornithinimicrobium sufpigmenti" JCM 33397 Proposed type strain
Paenibacillus aurantius JCM 34220 Type strain
Palleniella muris JCM 36503 Type strain
Pararhizobium qamdonense JCM 36247 Type strain
Paucibacter sediminis JCM 34541 Type strain
Pelosinus baikalensis JCM 39258 Type strain
Peptostreptococcus equinus JCM 35846 Type strain
Phytohabitans maris JCM 36507 Type strain
Pilosibacter fragilis JCM 36513 Type strain
Propionivibrio soli JCM 35595 Type strain
Protaetiibacter mangrovi JCM 33142 Type strain
"Pseudodesulfovibrio JCM 39269 Proposed type strain
thermohalotolerans"
Pseudomonas hefeiensis JCM 35687 Type strain
Quadrisphaera granulorum JCM 34466
"Rheinheimera faecalis" JCM 34823 Proposed type strain
Roseibium algicola JCM 34977 Type strain
Roseibium porphyridii JCM 34597 Type strain
"Roseiterribacter gracilis" JCM 34627 Proposed type strain
"Roseomonas populi" JCM 35579 Proposed type strain
Shewanella phaeophyticola JCM 35409 Type strain
"Shumkonia mesophila" JCM 34766 Proposed type strain
Sinomonas terricola JCM 35868 Type strain
Sphingobacterium oryzagri JCM 35893 Type strain
Sphingobium sp. JCM 36668
Spirillospora rubra JCM 36631 Type strain
"Sporanaerobium hydrogeniformans" JCM 32657 Proposed type strain
Streptococcus caecimuris JCM 36502 Type strain
"Streptomonospora mangrovi" JCM 34292 Proposed type strain
Streptomyces albipurpureus JCM 35391 Type strain
"Streptomyces argyrophyllae" JCM 35923 Proposed type strain
Streptomyces avermitilis JCM 36725
Streptomyces avermitilis JCM 36726
Streptomyces avermitilis JCM 36727
Streptomyces avermitilis JCM 36728
Streptomyces avermitilis JCM 36729
Streptomyces avermitilis JCM 36730
Streptomyces avermitilis JCM 36731
Streptomyces avermitilis JCM 36732
Streptomyces avermitilis JCM 36733
Streptomyces avermitilis JCM 36734
Streptomyces beigongshangae JCM 34712 Type strain
Streptomyces changanensis JCM 35800 Type strain
"Streptomyces halobius" JCM 34935 Proposed type strain
"Streptomyces himalayensis subsp. JCM 33759 Proposed type strain
aureolus"
"Streptomyces himalayensis subsp. JCM 33755 Proposed type strain
himalayensis"
Streptomyces longhuiensis JCM 34789 Type strain
Streptomyces mimosae JCM 33207
"Streptomyces niphimycinicus" JCM 34996 Proposed type strain
Streptomyces sp. JCM 33753
Streptomyces sp. JCM 33754
Streptomyces sp. JCM 33756
Streptomyces sp. JCM 33757
Streptomyces sp. JCM 33758
Streptomyces sp. JCM 34561
Streptomyces sp. JCM 36345
Streptomyces spinosirectus JCM 35007 Type strain
"Streptomyces terrae" JCM 35768 Proposed type strain
"Sulfurospirillum oryzae" JCM 35596 Proposed type strain
Sulfurovum mangrovi JCM 36294 Type strain
Telluria beijingensis JCM 35119 Type strain
Thalassovita sp. JCM 18207
Vibrio algarum JCM 35410 Type strain
Waltera acetigignens JCM 36210
Waltera acetigignens JCM 36378
Waltera intestinalis JCM 36211
Weissella fermenti JCM 35750 Type strain
Weizmannia agrestimuris JCM 36499 Type strain
Archaea
Haloarcula halobia JCM 34149 Type strain
Haloarcula halophila JCM 34479 Type strain
Haloarcula litorea JCM 34480 Type strain
Haloarcula pelagica JCM 30034 Type strain
Haloarcula rara JCM 30843 Type strain
"Halobaculum halobium" JCM 36154 Proposed type strain
"Halobaculum limi" JCM 34912 Proposed type strain
"Halobaculum lipolyticum" JCM 35417 Proposed type strain
"Halobaculum litoreum" JCM 36148 Proposed type strain
"Halobaculum marinum" JCM 36147 Proposed type strain
"Haloglomus litoreum" JCM 35606 Proposed type strain
"Halomontanus rarus" JCM 34316
"Halorussus caseinilyticus" JCM 35418 Proposed type strain
"Halorussus lipolyticus" JCM 35419 Proposed type strain
"Halosegnis marinus" JCM 35605 Proposed type strain
"Methanobacterium cahuitense" JCM 39174 Proposed type strain
Methanobacterium spitsbergense JCM 39284 Type strain
"Natronoglomus mannanivorans" JCM 34861 Proposed type strain
"Natronoglomus mannanivorans" JCM 34866
"Natronosalvus hydrolyticus" JCM 34865 Proposed type strain
Fungi
Acremonium sp. JCM 28389
Acremonium sp. JCM 28462
Acremonium sp. JCM 28478
Bannoa ellipsoidea JCM 35734
Bannoa foliicola JCM 35726
Cystofilobasidium josepaulonis JCM 35442
Danielozyma pruni JCM 35735
Erythrobasidium turpiniae JCM 35725
Itersonilia pannonica JCM 11147
Metschnikowia kenjo JCM 35862
Metschnikowia seizan JCM 35863
Metschnikowia shishimaru JCM 35864
Meyerozyma guilliermondii JCM 28203
Meyerozyma guilliermondii JCM 28204
Mrakia arctica JCM 32069
Mrakia arctica JCM 32070
Naganishia bhutanensis JCM 14228
Pichia kurtzmaniana JCM 36238
Pichia kurtzmaniana JCM 36239
Sarocladium sp. JCM 28152
Sarocladium sp. JCM 28330
Sarocladium sp. JCM 28331
Sarocladium sp. JCM 28333
Sarocladium sp. JCM 28337
Sarocladium sp. JCM 28417
Sarocladium sp. JCM 28428
Sarocladium sp. JCM 28436
Saturnispora sinensis JCM 36357
Spencermartinsiella henanensis JCM 35730
Teunia acericola JCM 35732
Teunia qingyuanensis JCM 36686
Unidentified fungus JCM 28141
Unidentified fungus JCM 28359
Unidentified fungus JCM 28385
Vishniacozyma pseudocarnescens JCM 35058
Vishniacozyma pseudocarnescens JCM 35059
Vishniacozyma pseudocarnescens JCM 35060
Wickerhamiella bidentis JCM 35540
Wickerhamiella bidentis JCM 35541
Yueomyces silvicola JCM 34883
Yueomyces silvicola JCM 34884
Yueomyces silvicola JCM 34885
Yueomyces silvicola JCM 34886
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2024.07.25
