{"id":5654,"date":"2026-06-10T18:24:26","date_gmt":"2026-06-10T09:24:26","guid":{"rendered":"http:\/\/jcm.brc.riken.jp\/en\/?page_id=5654"},"modified":"2026-06-10T18:24:26","modified_gmt":"2026-06-10T09:24:26","slug":"mn20260611","status":"publish","type":"page","link":"http:\/\/jcm.brc.riken.jp\/en\/mailnews_e\/mn20260611","title":{"rendered":"JCM Mail News (2026.06.11)"},"content":{"rendered":"
\r\n**********************************************************************\r\nRIKEN BioResource Research Center - Japan Collection of Microorganisms\r\n                      JCM Mail News (2026.06.11)\r\n**********************************************************************\r\n\r\nRIKEN BioResource Research Center - Japan Collection of Microorganisms\r\n(JCM) is pleased to update you with the latest information.\r\n\r\n======= Contents =====================================================\r\n- Special topic: Reclassification of the Genus Dysgonomonas<\/i> and\r\n                 Description of Novel Species\r\n- Revision of Distribution Fees for Bioresources in RIKEN BRC\r\n- List of 'Yeast strains with specific characteristics' updated\r\n- Newly cataloged strains (2026.04.01 - 2026.05.31)\r\n======================================================================\r\n\r\n+---------------------------------------------------------------------\r\n- Special topic: Reclassification of the Genus Dysgonomonas<\/i> and\r\n                 Description of Novel Species\r\n+---------------------------------------------------------------------\r\nThe genus Dysgonomonas<\/i> belongs to the family Dysgonomonadaceae<\/i> within\r\nthe order Bacteroidales<\/i>. It comprises facultatively anaerobic,\r\nfermentative bacteria that have been isolated from a wide range of\r\nenvironments, including human clinical specimens, sea sand, the human\r\ngut and termite hindguts. Some members of this genus have been\r\nisolated from immunocompromised patients and are therefore regarded as\r\nopportunistic pathogens. At the same time, Dysgonomonas<\/i> species and\r\nrelated bacteria have also been frequently detected in the guts of\r\ninsects such as termites and cockroaches. Because their genomes encode\r\nnumerous carbohydrate-active enzymes, they may contribute to the\r\ndegradation of plant-derived materials consumed by their host insects.\r\nIn recent years, not only cultivated isolates of Dysgonomonas<\/i> from\r\ninsect guts but also 16S rRNA gene sequences of uncultured bacteria\r\nclosely related to Dysgonomonas<\/i> have been increasingly reported. These\r\nfindings have drawn attention to the diversity of this bacterial group.\r\nHowever, since the genus Dysgonomonas<\/i> was proposed in 2000, no\r\ncomprehensive taxonomic revision of the genus has been conducted, and\r\nthe criteria defining the genus have remained unclear.\r\nIn this study, we re-examined the taxonomy of the genus Dysgonomonas<\/i>\r\nbased on both genomic information and physiological characteristics\r\n(Takahashi et al., 2026).\r\nFirst, we compared the whole genomes of previously reported\r\nDysgonomonas<\/i> species and two strains newly isolated from the gut of a\r\ntermite. Specifically, we examined how similar the shared proteins\r\nwere between bacterial genomes, using average amino acid identity,\r\nand how many proteins were shared between them, using the percentage\r\nof conserved proteins. These analyses revealed that the bacteria\r\npreviously assigned to the genus Dysgonomonas<\/i> formed several groups\r\nwith high genomic similarity within each group, separated by clear\r\ngaps between groups. These groups also corresponded well to the\r\nphylogenetic relationships inferred from genome sequences.\r\nWe further compared available physiological data and found that indole\r\nproduction differed among Dysgonomonas<\/i> species. This difference\r\nlargely corresponded to the groups identified by genome-based\r\ncomparisons.\r\nBased on these results, we concluded that the previously recognized\r\ngenus Dysgonomonas<\/i> would be more appropriately divided into multiple\r\ngenera rather than treated as a single genus. In this study, we\r\nproposed the genus Dysgonomonas<\/i> sensu stricto, including Dysgonomonas\r\ngadei<\/i>; the new genus Indolivaga<\/i>, represented by Dysgonomonas\r\ncapnocytophagoides<\/i>; and the new genus Pseudodysgonomonas<\/i>, represented\r\nby Dysgonomonas massiliensis<\/i>. In addition, among the two strains newly\r\nisolated from the termite gut, one was assigned to a novel species\r\nwithin Dysgonomonas<\/i> sensu stricto, whereas the other was considered to\r\nrepresent a novel species belonging to a new genus distinct from the\r\nexisting Dysgonomonas<\/i> lineage. For the latter, we proposed the new\r\ngenus Viscerimonas<\/i>.\r\nThis reclassification provides a taxonomic framework for organizing\r\nthe diversity of Dysgonomonas<\/i>-related bacteria that are frequently\r\nfound in insect guts. It will also provide an important basis for\r\nfuture studies on the ecological roles of these bacteria in the insect\r\ngut environment.\r\nThe newly isolated microorganisms and the names proposed in this\r\ntaxonomic revision are introduced below.\r\n\r\n- JCM 35194<\/a> Dysgonomonas reticulitermitis<\/i>\r\nThis strain was isolated from the gut of the subterranean termite\r\nReticulitermes speratus<\/i>, which is widely distributed in Japan. It\r\nproduces indole. The specific epithet reticulitermitis<\/i> is derived from\r\nReticulitermes<\/i>, the genus name of the termite from which the strain\r\nwas isolated. \r\n\r\n- JCM 35195<\/a> Viscerimonas tarda<\/i>\r\nThis strain was isolated from the gut of the subterranean termite\r\nReticulitermes speratus<\/i>. It does not produce indole. The genus name\r\nViscerimonas<\/i> means \"a monad inhabiting the intestines.\" The specific\r\nepithet tarda means \"slow\" or \"inactive\" in Latin and refers to\r\nthe slow growth of this strain. \r\n\r\n- Indolivaga<\/i>\r\nThe genus name Indolivaga<\/i> is derived from indolum<\/i>, meaning indole,\r\nand vagus<\/i>, meaning wandering, roaming or unfixed. The name implies\r\n\"an organism wandering away from indole,\" referring to the lack of\r\ninvolvement in indole production. This genus includes species\r\npreviously classified as Dysgonomonas capnocytophagoides<\/i>,\r\nDysgonomonas macrotermitis<\/i> and Dysgonomonas alginatilytica<\/i>.\r\n\r\n- Pseudodysgonomonas<\/i>\r\nThe genus name Pseudodysgonomonas<\/i> is derived from pseudo-<\/i>, meaning\r\nfalse, and Dysgonomonas<\/i>. It means \"a false Dysgonomonas<\/i>,\" indicating\r\nan organism that resembles Dysgonomonas<\/i> but does not belong to\r\nDysgonomonas sensu stricto<\/i>. This genus includes the species previously\r\nclassified as Dysgonomonas massiliensis<\/i>. \r\n\r\nReference\r\nTakahashi K, Hisatomi A, Mori K, et al. Reclassification of the genus\r\nDysgonomonas<\/i> and description of Dysgonomonas reticulitermitis<\/i> sp. nov.\r\nand Viscerimonas tarda<\/i> gen. nov., sp. nov. from the gut of the\r\nsubterranean termite Reticulitermes speratus<\/i>.\r\nInt J Syst Evol Microbiol<\/i>. 2026;76(1):007031.\r\ndoi:10.1099\/ijsem.0.007031<\/a>\r\n\r\nKazuki Takahashi Ph.D.\r\n\r\n+---------------------------------------------------------------------\r\nRevision of Distribution Fees for Bioresources in RIKEN BRC\r\n+---------------------------------------------------------------------\r\nRIKEN BioResource Research Center (BRC) is a non-profit institution\r\nand only requires users to pay the minimum costs for the actual\r\npreparation and handling of resources for distribution.\r\n\r\nDue to the rising costs of labor and raw materials, we have decided to\r\nrevise our distribution fees.\r\n\r\nThe revised distribution fees will apply to all orders for\r\nbioresources on or after Wednesday, April 1, 2026.\r\n\r\nWe deeply appreciate your understanding and cooperation, and we look\r\nforward to receiving your requests for bioresources.\r\n\r\nhttps:\/\/jcm.brc.riken.jp\/en\/fee2026_en<\/a>\r\n\r\n+---------------------------------------------------------------------\r\nList of 'Yeast strains with specific characteristics' updated\r\n+---------------------------------------------------------------------\r\nWe have updated the list of 'Yeast strains with specific characteristics'.\r\nThe database now contains 2,431 entries, up from 1,415, and you can\r\nnow sort the strains that have ability to ferment glucose and fructose,\r\nas well as by growth at 40°C and 42°C. Please take advantage of this\r\nenhanced yeast resource search for your research.\r\n\r\nYeast strains with specific characteristics.\r\nhttps:\/\/www.jcm.riken.jp\/cgi-bin\/jcm\/function?KEY=YEAST<\/a>\r\n\r\nRikiya Endoh (curator of yeasts and yeast-like algae)\r\n\r\n+---------------------------------------------------------------------\r\n- Newly cataloged strains (2026.04.01 - 2026.05.31)\r\n+---------------------------------------------------------------------\r\nBacteria\r\n\"Acinetobacter kanungonis subsp.       JCM 36322<\/a>  Proposed type strain\r\nfragariae\"\r\n\"Acinetobacter minutum\"                JCM 36321<\/a>  Proposed type strain\r\nAffinundibacterium flavidum            JCM 34286<\/a>  Type strain\r\nAlteriqipengyuania triglochinis        JCM 36262<\/a>  Type strain\r\nArthrobacter antibioticus              JCM 36082<\/a>  Type strain\r\nArthrobacter endolithicus              JCM 36079<\/a>  Type strain\r\n\"Arthrobacter rhizophilus\"             JCM 35693<\/a>  Proposed type strain\r\nDaquilactobacillus linshuiensis        JCM 38144<\/a>  Type strain\r\n\"Denitratimonas organivorans\"          JCM 36229<\/a>  Proposed type strain\r\nDesulforhopalus glucosivorans          JCM 39400<\/a>  Type strain\r\n\"Desulforudis audaxviator\"             JCM 39285<\/a>  Proposed type strain\r\n\"Desulfosceptrum tomskiensis\"          JCM 39286<\/a>  Proposed type strain\r\n\"Desulfosporosinus shakirovi\"          JCM 39189<\/a>  Proposed type strain\r\nDesulfosporosinus sp.                  JCM 32883<\/a>\r\nDokdonella aquatica                    JCM 36943<\/a>  Type strain\r\n\"Dyella stictolepturae\"                JCM 37315<\/a>  Proposed type strain\r\nEnterococcus salsurae                  JCM 37829<\/a>  Type strain\r\n\"Kamagatella elastica\"                 JCM 39611<\/a>  Proposed type strain\r\nMagnetococcus organivorans             JCM 39466<\/a>  Type strain\r\nMagnetovibrio massiliensis             JCM 39465<\/a>  Type strain\r\n\"Maridesulfovibrio caeruleilacunae\"    JCM 39061<\/a>  Proposed type strain\r\n\"Maridesulfovibrio oucae\"              JCM 39062<\/a>  Proposed type strain\r\n\"Microbacterium bengalense\"            JCM 37885<\/a>  Proposed type strain\r\n\"Microbacterium fluminis\"              JCM 38050<\/a>  Proposed type strain\r\nMicrobacterium hanjuni                 JCM 37689<\/a>  Type strain\r\nMicrobacterium shimangi                JCM 37690<\/a>  Type strain\r\nMicrobacterium songi                   JCM 37688<\/a>  Type strain\r\nMicrobacterium triticisoli             JCM 35796<\/a>  Type strain\r\nMicromonospora yongxingensis           JCM 38260<\/a>  Type strain\r\nMycolicibacterium chengduense          JCM 37531<\/a>  Type strain\r\nMycolicibacterium sichuanense          JCM 37529<\/a>  Type strain\r\n\"Niallia laureatilytica\"               JCM 36811<\/a>  Proposed type strain\r\nPaeniglutamicibacter selenitireducens  JCM 37299<\/a>  Type strain\r\n\"Paramicrobacterium salitolerans\"      JCM 36217<\/a>  Proposed type strain\r\nParvimonas oralis                      JCM 37774<\/a>  Type strain\r\nParvimonas pharyngis                   JCM 37775<\/a>  Type strain\r\nPaucilactobacillus salsurae            JCM 37828<\/a>  Type strain\r\n\"Pseudochrobactrum albidum\"            JCM 37008<\/a>  Proposed type strain\r\nQipengyuania triglochinis              JCM 36263<\/a>  Type strain\r\nRhodococcus huquni                     JCM 34841<\/a>  Type strain\r\nRhodococcus mengyinensis               JCM 36291<\/a>  Type strain\r\nRhodococcus quanlei                    JCM 34842<\/a>  Type strain\r\nRhodococcus ruitaii                    JCM 34787<\/a>  Type strain\r\nRhodococcus shunpengi                  JCM 36290<\/a>  Type strain\r\nRuegeria hyattellae                    JCM 37352<\/a>  Type strain\r\nRuegeria jejuensis                     JCM 37225<\/a>  Type strain\r\n\"Saccharothrix camelliae\"              JCM 37292<\/a>  Proposed type strain\r\nSphingomonas benefaciens               JCM 37846<\/a>  Type strain\r\nSphingomonas cellulosilytica           JCM 37845<\/a>  Type strain\r\nSphingopyxis selenitireducens          JCM 37246<\/a>  Type strain\r\nStenotrophomonas tuberculopleuritidis  JCM 36489<\/a>  Type strain\r\nStreptococcus bovismuti                JCM 37064<\/a>  Type strain\r\nStreptomyces dryopteridis              JCM 38134<\/a>  Type strain\r\n\"Streptomyces kryoterrae\"              JCM 37994<\/a>  Proposed type strain\r\n\"Streptomyces ruilongensis\"            JCM 35794<\/a>  Proposed type strain\r\n\"Streptomyces yamdrokensis\"            JCM 37995<\/a>  Proposed type strain\r\nTateyamaria algicola                   JCM 36649<\/a>  Type strain\r\nTateyamaria rhodophyticola             JCM 35962<\/a>  Type strain\r\nTerasakiella magnetica                 JCM 39464<\/a>  Type strain\r\n\r\nArchaea\r\n\"Haloarchaeobius caseinilyticus\"       JCM 37971<\/a>  Proposed type strain\r\n\"Haloarchaeobius pelagicus\"            JCM 37972<\/a>  Proposed type strain\r\nMethanobacterium sp.                   JCM 18473<\/a>\r\n\r\nFungi\r\nTschermakia inclusa                    JCM 39667<\/a>  ex-paratype strain\r\nTschermakia inclusa                    JCM 39668<\/a>  ex-holotype strain\r\n\r\nAlgae\r\nRadiococcus sp.                        JCM 39669<\/a>\r\n\r\n______________________________________________________________________\r\n*We hope you find the contents of this message of interest. However,\r\n if you would prefer to unsubscribe from future e-mails, please send\r\n an e-mail to inquiry.jcm@riken.jp<\/a>. \r\n*If you have any questions or comments, please send an e-mail to\r\n inquiry.jcm@riken.jp<\/a>. \r\n*Content is subject to change without notice. \r\n*All Rights Reserved. \r\n______________________________________________________________________\r\nMicrobe Division \/ Japan Collection of Microorganisms\r\nRIKEN BioResource Research Center \r\n3-1-1 Koyadai, Tsukuba, Ibaraki 305-0074, Japan\r\ninquiry.jcm@riken.jp<\/a>\r\nhttps:\/\/jcm.brc.riken.jp\/en\/<\/a>\r\nhttps:\/\/x.com\/RBRC_JCM_en<\/a>\r\nhttps:\/\/x.com\/RIKEN_BRC_en<\/a>\r\nhttps:\/\/bsky.app\/profile\/riken-brc-en.bsky.social<\/a>\r\n______________________________________________________________________\r\n2026.06.11\r\n<\/font><\/tt><\/pre>\n","protected":false},"excerpt":{"rendered":"
********************************************************************** RIKEN BioResource Research Center – Japan Collection of Microorganisms JCM Mail News (2026.06.11) ********************************************************************** RIKEN BioResource Research Center – Japan Collection of Microorganisms (JCM) is pleased to update you with the latest information. ======= Contents ===================================================== – Special topic: Reclassification of the Genus Dysgonomonas and Description of Novel Species – Revision of Distribution Fees for Bioresources in RIKEN BRC – List of ‘Yeast strains with specific characteristics’ updated – Newly cataloged strains (2026.04.01 – 2026.05.31) ====================================================================== +——————————————————————— – Special topic: Reclassification of the Genus Dysgonomonas and Description of Novel Species +——————————————————————— The genus Dysgonomonas belongs to the family Dysgonomonadaceae within the order Bacteroidales. It comprises facultatively anaerobic, fermentative bacteria that have been isolated from a wide range of environments, including human clinical specimens, sea sand, the human gut and termite hindguts. Some members of this genus have been isolated from immunocompromised patients and are therefore regarded as opportunistic pathogens. At the same time, Dysgonomonas species and related bacteria have also been frequently detected in the guts of insects such as termites and cockroaches. Because their genomes encode numerous carbohydrate-active enzymes, they may contribute to the degradation of plant-derived materials consumed by their host insects. In recent years, not only […]<\/p>\n","protected":false},"author":17,"featured_media":0,"parent":3314,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_seopress_titles_title":"","_seopress_titles_desc":"","_seopress_robots_index":"","_seopress_robots_follow":"","_seopress_robots_imageindex":"","_seopress_robots_snippet":"","_seopress_robots_primary_cat":"","_seopress_robots_breadcrumbs":"","_seopress_robots_freeze_modified_date":"","_seopress_robots_custom_modified_date":"","_seopress_robots_canonical":"","_seopress_social_fb_title":"","_seopress_social_fb_desc":"","_seopress_social_fb_img":"","_seopress_social_fb_img_attachment_id":0,"_seopress_social_fb_img_width":0,"_seopress_social_fb_img_height":0,"_seopress_social_twitter_title":"","_seopress_social_twitter_desc":"","_seopress_social_twitter_img":"","_seopress_social_twitter_img_attachment_id":0,"_seopress_social_twitter_img_width":0,"_seopress_social_twitter_img_height":0,"_seopress_redirections_value":"","_seopress_redirections_enabled":"","_seopress_redirections_enabled_regex":"","_seopress_redirections_logged_status":"","_seopress_redirections_param":"","_seopress_redirections_type":0,"_seopress_analysis_target_kw":"","footnotes":"","_wp_rev_ctl_limit":""},"class_list":["post-5654","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/pages\/5654","targetHints":{"allow":["GET"]}}],"collection":[{"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/users\/17"}],"replies":[{"embeddable":true,"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/comments?post=5654"}],"version-history":[{"count":1,"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/pages\/5654\/revisions"}],"predecessor-version":[{"id":5655,"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/pages\/5654\/revisions\/5655"}],"up":[{"embeddable":true,"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/pages\/3314"}],"wp:attachment":[{"href":"http:\/\/jcm.brc.riken.jp\/en\/wp-json\/wp\/v2\/media?parent=5654"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}