1887

Abstract

A single strain, NR06, was isolated from the intestine of a TNF mouse. Based on phylogenetic analysis of partial 16S rRNA gene sequences, strain NR06 belongs in the family within the . The most closely related species with validly published names are members of the genera , and (<96 % sequence similarity). Strain NR06 was characterized by a high prevalence of monomethylmenaquinone-6 (MMK-6; 76 %) and the presence of -diaminopimelic acid in the cell wall. One of the major cellular fatty acids of strain NR06 was C ISO. Glucose was detected as a whole cell sugar. Strain NR06 was resistant to the antibiotic colistin and was positive for arginine and leucine arylamidase activity. Based on these characteristics, strain NR06 differed from related described bacteria. Therefore, the name gen. nov., sp. nov. is proposed to accommodate the novel bacterium. The type strain of the type species is NR06 ( = DSM 22242 = CCUG 57646).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.045344-0
2013-07-01
2019-09-21
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/63/7/2642.html?itemId=/content/journal/ijsem/10.1099/ijs.0.045344-0&mimeType=html&fmt=ahah

References

  1. Alain K. , Querellou J. . ( 2009; ). Cultivating the uncultured: limits, advances and future challenges. . Extremophiles 13:, 583–594. [CrossRef] [PubMed]
    [Google Scholar]
  2. Altschul S. F. , Gish W. , Miller W. , Myers E. W. , Lipman D. J. . ( 1990; ). Basic local alignment search tool. . J Mol Biol 215:, 403–410.[PubMed] [CrossRef]
    [Google Scholar]
  3. Attebery H. R. , Finegold S. M. . ( 1969; ). Combined screw-cap and rubber-stopper closure for Hungate tubes (pre-reduced anaerobically sterilized roll tubes and liquid media). . Appl Microbiol 18:, 558–561.[PubMed]
    [Google Scholar]
  4. Bäckhed F. , Ley R. E. , Sonnenburg J. L. , Peterson D. A. , Gordon J. I. . ( 2005; ). Host-bacterial mutualism in the human intestine. . Science 307:, 1915–1920. [CrossRef] [PubMed]
    [Google Scholar]
  5. Benson A. K. , Kelly S. A. , Legge R. , Ma F. , Low S. J. , Kim J. , Zhang M. , Oh P. L. , Nehrenberg D. . & other authors ( 2010; ). Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors. . Proc Natl Acad Sci U S A 107:, 18933–18938. [CrossRef] [PubMed]
    [Google Scholar]
  6. Bligh E. G. , Dyer W. J. . ( 1959; ). A rapid method of total lipid extraction and purification. . Can J Biochem Physiol 37:, 911–917. [CrossRef] [PubMed]
    [Google Scholar]
  7. Cashion P. , Holder-Franklin M. A. , McCully J. , Franklin M. . ( 1977; ). A rapid method for the base ratio determination of bacterial DNA. . Anal Biochem 81:, 461–466. [CrossRef] [PubMed]
    [Google Scholar]
  8. Claus S. P. , Ellero S. L. , Berger B. , Krause L. , Bruttin A. , Molina J. , Paris A. , Want E. J. , de Waziers I. . & other authors ( 2011; ). Colonization-induced host-gut microbial metabolic interaction. . mBio 2:, e00271-10. [CrossRef] [PubMed]
    [Google Scholar]
  9. Clavel T. , Lippman R. , Gavini F. , Doré J. , Blaut M. . ( 2007; ). Clostridium saccharogumia sp. nov. and Lactonifactor longoviformis gen. nov., sp. nov., two novel human faecal bacteria involved in the conversion of the dietary phytoestrogen secoisolariciresinol diglucoside. . Syst Appl Microbiol 30:, 16–26. [CrossRef] [PubMed]
    [Google Scholar]
  10. Clavel T. , Charrier C. , Braune A. , Wenning M. , Blaut M. , Haller D. . ( 2009; ). Isolation of bacteria from the ileal mucosa of TNFdeltaARE mice and description of Enterorhabdus mucosicola gen. nov., sp. nov. . Int J Syst Evol Microbiol 59:, 1805–1812. [CrossRef] [PubMed]
    [Google Scholar]
  11. Clavel T. , Duck W. , Charrier C. , Wenning M. , Elson C. , Haller D. . ( 2010; ). Enterorhabdus caecimuris sp. nov., a member of the family Coriobacteriaceae isolated from a mouse model of spontaneous colitis, and emended description of the genus Enterorhabdus Clavel et al. 2009. . Int J Syst Evol Microbiol 60:, 1527–1531. [CrossRef] [PubMed]
    [Google Scholar]
  12. DeSantis T. Z. , Hugenholtz P. , Larsen N. , Rojas M. , Brodie E. L. , Keller K. , Huber T. , Dalevi D. , Hu P. , Andersen G. L. . ( 2006a; ). Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with arb . . Appl Environ Microbiol 72:, 5069–5072. [CrossRef] [PubMed]
    [Google Scholar]
  13. DeSantis T. Z. Jr , Hugenholtz P. , Keller K. , Brodie E. L. , Larsen N. , Piceno Y. M. , Phan R. , Andersen G. L. . ( 2006b; ). nast: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. . Nucleic Acids Res 34: (Web Server issue), W394–W399. [CrossRef] [PubMed]
    [Google Scholar]
  14. Goodman A. L. , Kallstrom G. , Faith J. J. , Reyes A. , Moore A. , Dantas G. , Gordon J. I. . ( 2011; ). Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. . Proc Natl Acad Sci U S A 108:, 6252–6257. [CrossRef] [PubMed]
    [Google Scholar]
  15. Hall T. A. . ( 1999; ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. . Nucleic Acids Symp Ser 41:, 95–98.
    [Google Scholar]
  16. Kageyama A. , Benno Y. , 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. [CrossRef] [PubMed]
    [Google Scholar]
  17. Kassinen A. , Krogius-Kurikka L. , Mäkivuokko H. , Rinttilä T. , Paulin L. , Corander J. , Malinen E. , Apajalahti J. , Palva A. . ( 2007; ). The fecal microbiota of irritable bowel syndrome patients differs significantly from that of healthy subjects. . Gastroenterology 133:, 24–33. [CrossRef] [PubMed]
    [Google Scholar]
  18. Lau S. K. , Woo P. C. , Woo G. K. , Fung A. M. , Wong M. K. , Chan K. M. , Tam D. M. , Yuen K. Y. . ( 2004; ). Eggerthella hongkongensis sp. nov. and Eggerthella sinensis sp. nov., two novel Eggerthella species, account for half of the cases of Eggerthella bacteremia. . Diagn Microbiol Infect Dis 49:, 255–263. [CrossRef] [PubMed]
    [Google Scholar]
  19. Lepage P. , Leclerc M. C. , Joossens M. , Mondot S. , Blottiere H. M. , Raes J. , Ehrlich D. , Dore J. . ( 2013; ). A metagenomic insight into our gut's microbiome. . Gut 62:, 146–158. [CrossRef] [PubMed]
    [Google Scholar]
  20. Maruo T. , Sakamoto M. , Ito C. , Toda T. , 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. [CrossRef] [PubMed]
    [Google Scholar]
  21. Matthies A. , Loh G. , Blaut M. , Braune A. . ( 2012; ). Daidzein and genistein are converted to equol and 5-hydroxy-equol by human intestinal Slackia isoflavoniconvertens in gnotobiotic rats. . J Nutr 142:, 40–46. [CrossRef] [PubMed]
    [Google Scholar]
  22. Mesbah M. , Premachandran U. , Whitman W. . ( 1989; ). Precise measurement of the G+C content of deoxyribonucleic acid by high performance liquid chromatography. . Int J Syst Bacteriol 39:, 159–167. [CrossRef]
    [Google Scholar]
  23. Minamida K. , Ota K. , Nishimukai M. , Tanaka M. , Abe A. , Sone T. , Tomita F. , Hara H. , Asano K. . ( 2008; ). Asaccharobacter celatus gen. nov., sp. nov., isolated from rat caecum. . Int J Syst Evol Microbiol 58:, 1238–1240. [CrossRef] [PubMed]
    [Google Scholar]
  24. Qin J. , Li R. , Raes J. , Arumugam M. , Burgdorf K. S. , Manichanh C. , Nielsen T. , Pons N. , Levenez F. . & other authors ( 2010; ). A human gut microbial gene catalogue established by metagenomic sequencing. . Nature 464:, 59–65. [CrossRef] [PubMed]
    [Google Scholar]
  25. Ridlon J. M. , Kang D. J. , Hylemon P. B. . ( 2006; ). Bile salt biotransformations by human intestinal bacteria. . J Lipid Res 47:, 241–259. [CrossRef] [PubMed]
    [Google Scholar]
  26. Ritz K. . ( 2007; ). The plate debate: cultivable communities have no utility in contemporary environmental microbial ecology. . FEMS Microbiol Ecol 60:, 358–362. [CrossRef] [PubMed]
    [Google Scholar]
  27. Rosselló-Mora R. , Amann R. . ( 2001; ). The species concept for prokaryotes. . FEMS Microbiol Rev 25:, 39–67. [CrossRef] [PubMed]
    [Google Scholar]
  28. Saitou N. , Nei M. . ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4:, 406–425.[PubMed]
    [Google Scholar]
  29. Santos S. R. , Ochman H. . ( 2004; ). Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins. . Environ Microbiol 6:, 754–759. [CrossRef] [PubMed]
    [Google Scholar]
  30. Tamaoka J. , Komagata K. . ( 1984; ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. . FEMS Microbiol Lett 25:, 125–128. [CrossRef]
    [Google Scholar]
  31. Tamura K. , Peterson D. , Peterson N. , Stecher G. , Nei M. , Kumar S. . ( 2011; ). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28:, 2731–2739. [CrossRef] [PubMed]
    [Google Scholar]
  32. Tindall B. J. , Sikorski J. , Smibert R. M. , Krieg N. R. . ( 2007; ). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology, pp. 330–393. Edited by Reddy C. A. , Beveridge T. J. , Breznak J. A. , Marzluf G. , Schmidt T. M. , Snyder L. R. . . Washington D.C.:: American Society for Microbiology;.
    [Google Scholar]
  33. Turnbaugh P. J. , Ley R. E. , Mahowald M. A. , Magrini V. , Mardis E. R. , Gordon J. I. . ( 2006; ). An obesity-associated gut microbiome with increased capacity for energy harvest. . Nature 444:, 1027–1031. [CrossRef] [PubMed]
    [Google Scholar]
  34. Wenning M. , Scherer S. , Naumann D. . ( 2008; ). Infrared spectroscopy in the identification of microorganisms. . In Vibrational spectroscopy for medical diagnosis, pp. 71–96. Edited by Diem M. , Griffith P. R. , Chalmers J. M. . . Chichester:: John Wiley & Sons, Ltd;.
    [Google Scholar]
  35. Werner T. , Wagner S. J. , Martínez I. , Walter J. , Chang J. S. , Clavel T. , Kisling S. , Schuemann K. , Haller D. . ( 2011; ). Depletion of luminal iron alters the gut microbiota and prevents Crohn’s disease-like ileitis. . Gut 60:, 325–333. [CrossRef] [PubMed]
    [Google Scholar]
  36. Würdemann D. , Tindall B. J. , Pukall R. , Lünsdorf H. , Strömpl C. , Namuth T. , Nahrstedt H. , Wos-Oxley M. , Ott S. . & other authors ( 2009; ). Gordonibacter pamelaeae gen. nov., sp. nov., a new member of the Coriobacteriaceae isolated from a patient with Crohn’s disease, and reclassification of Eggerthella hongkongensis Lau et al. 2006 as Paraeggerthella hongkongensis gen. nov., comb. nov. . Int J Syst Evol Microbiol 59:, 1405–1415. [CrossRef] [PubMed]
    [Google Scholar]
  37. Yarza P. , Richter M. , Peplies J. , Euzeby J. , Amann R. , Schleifer K. H. , Ludwig W. , Glöckner F. O. , Rosselló-Móra R. . ( 2008; ). The All-Species Living Tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. . Syst Appl Microbiol 31:, 241–250. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.045344-0
Loading
/content/journal/ijsem/10.1099/ijs.0.045344-0
Loading

Data & Media loading...

Supplementary material 

PDF

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error