1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 64, Issue Pt_4

sp. nov., an endophyte of , and emended description of Free

Abstract

Bacterial strain A37T2 was isolated from the endophytic microbial community of a tree trunk and characterized. Strain A37T2 was Gram-stain-negative, formed rod-shaped cells, and grew optimally at 26–30 °C and at pH 5.5–7.5. The G+C content of the DNA was 46.6 mol%. The major respiratory quinone was menaquinone 7 (MK-7) and the major fatty acids were Cω5 and iso-C, representing 61.7 % of the total fatty acids. The polar lipids consisted of phosphatidylethanolamine, four unidentified aminophospholipids, one unidentified phospholipid, two unidentified aminolipids and three unidentified lipids. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain A37T2 belonged to the family , forming a distinct branch with JS13-10 within the genus . Strain A37T2 shared between 92.7 and 95.1 % 16S rRNA gene sequence similarity with the type strains of species of the genus . The phylogenetic, phenotypic and chemotaxonomic data presented indicate that strain A37T2 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is A37T2 ( = CIP 110584 = LMG 27458). An emended description of JS13-10 is also proposed.

  • Published Online:
Funding
This study was supported by the:
  • Instituto de Financiamento da Agricultura e Pescas (IFAP) and Autoridade Florestal Nacional (AFN)
  • Fundação para a Ciência e Tecnologia (FCT) (Award PTDC/AGR-CFL/115373/2009)
  • FCT (Award SFRH/BD/61311/2009)
© 2014 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.053454-0
2014-04-01
2023-03-24
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/4/1237.html?itemId=/content/journal/ijsem/10.1099/ijs.0.053454-0&mimeType=html&fmt=ahah

References

  1. Bernardet J.-F., Nakagawa Y., Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 2002 ). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52, 1049–1070. [View Article] [PubMed]
    [Google Scholar]
  2. Chung E. J., Park T. S., Jeon C. O., Chung Y. R. ( 2012 ). Chitinophaga oryziterrae sp. nov., isolated from the rhizosphere soil of rice (Oryza sativa L.). . Int J Syst Evol Microbiol 62, 3030–3035. [View Article] [PubMed]
    [Google Scholar]
  3. da Costa M. S., Nobre M. F., Wait R. ( 2006 ). Analysis of lipids from extremophilic bacteria. . In Methods in Microbiology, vol. 35, pp. 127–159. Edited by Rainey F. A., Oren A. . Amsterdam:: Elsevier;.
     [Google Scholar]
  4. da Costa M. S., Albuquerque L., Nobre M. F., Wait R. ( 2011a ). The extraction and identification of respiratory lipoquinones of Prokaryotes and their use in taxonomy. . In Methods in Microbiology (Taxonomy of Prokaryotes), vol. 38, pp. 197–206. Edited by Rainey F. A., Oren A. . Amsterdam:: Elsevier;.
     [Google Scholar]
  5. da Costa M. S., Albuquerque L., Nobre M. F., Wait R. ( 2011b ). The identification of fatty acids in Bacteria. . In Methods in Microbiology (Taxonomy of Prokaryotes), vol. 38, pp. 183–196. Edited by Rainey F. A., Oren A. . Amsterdam:: Elsevier;.
     [Google Scholar]
  6. Fautz E., Reichenbach H. ( 1980 ). A simple test for flexirubin-type pigments. . FEMS Microbiol Lett 8, 87–91. [View Article]
    [Google Scholar]
  7. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  8. Freeman D. J., Falkiner F. R., Keane C. T. ( 1989 ). New method for detecting slime production by coagulase negative staphylococci. . J Clin Pathol 42, 872–874. [View Article] [PubMed]
    [Google Scholar]
  9. Jukes T. H., Cantor C. R. ( 1969 ). Evolution of protein molecules. . In Mammalian Protein Metabolism, pp. 21–132. Edited by Munro H. N. . New York:: Academic Press;. [View Article]
    [Google Scholar]
  10. Kämpfer P., Young C.-C., Sridhar K. R., Arun A. B., Lai W. A., Shen F. T., Rekha P. D. ( 2006 ). Transfer of [Flexibacter] sancti, [Flexibacter] filiformis, [Flexibacter] japonensis and [Cytophaga] arvensicola to the genus Chitinophaga and description of Chitinophaga skermanii sp. nov.. Int J Syst Evol Microbiol 56, 2223–2228. [View Article] [PubMed]
    [Google Scholar]
  11. Kim M. K., Jung H.-Y. ( 2007 ). Chitinophaga terrae sp. nov., isolated from soil. . Int J Syst Evol Microbiol 57, 1721–1724. [View Article] [PubMed]
    [Google Scholar]
  12. Kim O.-S., Cho Y.-J., Lee K., Yoon S.-H., Kim M., Na H., Park S.-C., Jeon Y. S., Lee J.-H. & other authors ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716–721. [View Article] [PubMed]
    [Google Scholar]
  13. Lee H.-G., An D.-S., Im W.-T., Liu Q.-M., Na J.-R., Cho D. H., Jin C. W., Lee S.-T., Yang D.-C. ( 2007 ). Chitinophaga ginsengisegetis sp. nov. and Chitinophaga ginsengisoli sp. nov., isolated from soil of a ginseng field in South Korea. . Int J Syst Evol Microbiol 57, 1396–1401. [View Article] [PubMed]
    [Google Scholar]
  14. Lee D. W., Lee J.-E., Lee S. D. ( 2009 ). Chitinophaga rupis sp. nov., isolated from soil. . Int J Syst Evol Microbiol 59, 2830–2833. [View Article] [PubMed]
    [Google Scholar]
  15. Li L., Sun L., Shi N., Liu L., Guo H., Xu A., Zhang X., Yao N. ( 2013 ). Chitinophaga cymbidii sp. nov., isolated from Cymbidium goeringii roots. . Int J Syst Evol Microbiol 63, 1800–1804. [View Article] [PubMed]
    [Google Scholar]
  16. Ludwig W., Strunk O., Westram R., Richter L., Meier H., Yadhukumar, Buchner A., Lai T., Steppi S. & other authors ( 2004 ). arb: a software environment for sequence data. . Nucleic Acids Res 32, 1363–1371. [View Article] [PubMed]
    [Google Scholar]
  17. Mesbah M., Premachandran U., Whitman W. B. ( 1989 ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. . Int J Syst Bacteriol 39, 159–167. [View Article]
    [Google Scholar]
  18. Morais P. V., Francisco R., Branco R., Chung A. P., da Costa M. S. ( 2004 ). Leucobacter chromiireducens sp. nov, and Leucobacter aridicollis sp. nov., two new species isolated from a chromium contaminated environment. . Syst Appl Microbiol 27, 646–652. [View Article] [PubMed]
    [Google Scholar]
  19. Olsen G. J., Matsuda H., Hagstrom R., Overbeek R. ( 1994 ). fastDNAmL: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood. . Comput Appl Biosci 10, 41–48.[PubMed]
    [Google Scholar]
  20. Pruesse E., Peplies J., Glöckner F. O. ( 2012 ). sina: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. . Bioinformatics 28, 1823–1829. [View Article] [PubMed]
    [Google Scholar]
  21. 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]
  22. Sangkhobol V., Skerman V. B. D. ( 1981 ). Chitinophaga, a new genus of chitinolytic myxobacteria. . Int J Syst Bacteriol 31, 285–293. [View Article]
    [Google Scholar]
  23. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  24. Tindall J. B., Sikorski J., Smibert A. R., Krieg R. N. ( 2007 ). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology, , 3rd edn., pp. 330–393. Edited by Reddy C. A., Beveridge J. T., Breznak J. A., Marzluf G. A., Schmidt T. M., Snyder L. R. . Washington, DC:: American Society for Microbiology;.
     [Google Scholar]
  25. Weon H.-Y., Yoo S.-H., Kim Y.-J., Son J.-A., Kim B.-Y., Kwon S.-W., Koo B.-S. ( 2009 ). Chitinophaga niabensis sp. nov. and Chitinophaga niastensis sp. nov., isolated from soil. . Int J Syst Evol Microbiol 59, 1267–1271. [View Article] [PubMed]
    [Google Scholar]
  26. Yasir M., Chung E. J., Song G. C., Bibi F., Jeon C. O., Chung Y. R. ( 2011 ). Chitinophaga eiseniae sp. nov., isolated from vermicompost. . Int J Syst Evol Microbiol 61, 2373–2378. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.053454-0
Loading
Chitinophaga costaii sp. nov., an endophyte of Pinus pinaster, and emended description of Chitinophaga niabensis
Int J Syst Evol Microbiol 64, 1237 (2014); https://doi.org/10.1099/ijs.0.053454-0
/content/journal/ijsem/10.1099/ijs.0.053454-0
/content/journal/ijsem/10.1099/ijs.0.053454-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited this month Most Cited RSS feed

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