Skip to content
1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo International Journal of Systematic and Evolutionary Microbiology

Volume 64, Issue Pt_1

Taxonomic study of the genus : transfer of to the genus as comb. nov., emended description of the genus and description of sp. nov., isolated from a terrestrial hot spring Free

Abstract

Comparative phenotypic, chemotaxonomic and genetic analysis revealed significant similarities among strains of the genera and . Analysis of 16S rRNA gene sequences and DNA–DNA relatedness of the type strains N2-214 and 4BON showed sequence similarity of 98.9 % and less than 40 % relatedness, indicating that these strains represent different species of same genus. Both strains had phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine and diphosphatidylglycerol as major polar lipids. Their fatty acid profiles were almost identical, with the predominant fatty acids C, C cyclo and C cyclo ω8. In view of this, we propose to transfer the member of the genus to the genus as comb. nov. and to emend the description of the genus . Further, a novel bacterium, strain JHK30, was isolated from a terrestrial hot spring located at Jharkhand, India, and was identified following a polyphasic approach. Cells were non-sporulating, aerobic, Gram-stain-negative rods and motile by a single polar flagellum. Optimum temperature for growth was 50–55 °C at pH 6.5–7.0. 16S rRNA gene sequence analysis revealed 99.71 % similarity with 4BON ( = DSM 15512) and 98.71 % with N2-214 ( = DSM 15129). However, DNA–DNA relatedness of strain JHK30 with these two type strains was well below 70 %. The DNA G+C base composition was 66.1 mol%. Strain JHK30 represents a novel species of the genus for which the name sp. nov. is proposed. The type strain is JHK30 ( = JCM 19170 = LMG 27587= DSM 27220).

  • Published Online:
Funding
This study was supported by the:
  • Council of Scientific and Industrial Research (CSIR), Government of India (Award 37(1510)/11/EMR-11)
  • Department of Biotechnology, Government of India
© 2014 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.056424-0
2014-01-01
2025-01-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/1/228.html?itemId=/content/journal/ijsem/10.1099/ijs.0.056424-0&mimeType=html&fmt=ahah

References

  1. Altschul S. F., Madden T. L., Schäffer A. A., Zhang J., Zhang Z., Miller W., Lipman D. J. ( 1997 ). Gapped blast and psi-blast: a new generation of protein database search programs. . Nucleic Acids Res 25, 3389–3402. [View Article] [PubMed]
    [Google Scholar]
  2. Bandyopadhyay S., Schumann P., Das S. K. ( 2013 ). Pannonibacter indica sp. nov., a highly arsenate-tolerant bacterium isolated from a hot spring in India. . Arch Microbiol 195, 1–8. [View Article] [PubMed]
    [Google Scholar]
  3. Bligh E. G., Dyer W. J. ( 1959 ). A rapid method of total lipid extraction and purification. . Can J Biochem Physiol 37, 911–917. [View Article] [PubMed]
    [Google Scholar]
  4. Chen C., Zhao S., Ben K. ( 2003 ). Phylogenetic analysis of the family Thermaceae with an emphasis on signature position and secondary structure of 16S rRNA. . FEMS Microbiol Lett 221, 293–298. [View Article] [PubMed]
    [Google Scholar]
  5. Das S. K., Mishra A. K., Tindall B. J., Rainey F. A., Stackebrandt E. ( 1996 ). Oxidation of thiosulfate by a new bacterium, Bosea thiooxidans (strain BI-42) gen. nov., sp. nov.: analysis of phylogeny based on chemotaxonomy and 16S ribosomal DNA sequencing. . Int J Syst Bacteriol 46, 981–987. [View Article] [PubMed]
    [Google Scholar]
  6. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
    [Google Scholar]
  7. Gardner D. P., Xu W., Miranker D. P., Ozer S., Cannone J. J., Gutell R. R. ( 2012 ). An accurate scalable template-based alignment algorithm. . In Proceedings of 2012 IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2012), Philadelphia, PA, October 4–7, 2012, pp. 237–243. Washington, DC:: IEEE Computer Society;.
     [Google Scholar]
  8. Hall T. ( 2007 ). BioEdit. Biological Sequence Alignment Editor for Win95/98/NT/2K/XP. Carlsbad, CA:: Ibis Biosciences;. http://www.mbio.ncsu.edu/BioEdit/bioedit.html
    [Google Scholar]
  9. Jung Y. T., Oh T. K., Yoon J. H. ( 2012 ). Marinomonas hwangdonensis sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 62, 2062–2067. [View Article] [PubMed]
    [Google Scholar]
  10. 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]
  11. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111–120. [View Article] [PubMed]
    [Google Scholar]
  12. Kumari P., Bandyopadhyay S., Das S. K. ( 2013 ). Microbacterium oryzae sp. nov., an actinobacterium isolated from rice field soil. . Int J Syst Evol Microbiol 63, 2442–2449. [View Article] [PubMed]
    [Google Scholar]
  13. 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]
  14. Maly P., Brimacombe R. ( 1983 ). Refined secondary structure models for the 16S and 23S ribosomal RNA of Escherichia coli. . Nucleic Acids Res 11, 7263–7286. [View Article] [PubMed]
    [Google Scholar]
  15. Manaia C. M., Nogales B., Nunes O. C. ( 2003 ). Tepidiphilus margaritifer gen. nov., sp. nov., isolated from a thermophilic aerobic digester. . Int J Syst Evol Microbiol 53, 1405–1410. [View Article] [PubMed]
    [Google Scholar]
  16. 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]
  17. Minnikin D. E., Collins M. D., Goodfellow M. ( 1979 ). Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. . J Appl Microbiol 47, 87–95. [View Article]
    [Google Scholar]
  18. Panday D., Das S. K. ( 2010 ). Chelatococcus sambhunathii sp. nov., a moderately thermophilic alphaproteobacterium isolated from hot spring sediment. . Int J Syst Evol Microbiol 60, 861–865. [View Article] [PubMed]
    [Google Scholar]
  19. Panday D., Schumann P., Das S. K. ( 2011 ). Rhizobium pusense sp. nov., isolated from the rhizosphere of chickpea (Cicer arietinum L.). . Int J Syst Evol Microbiol 61, 2632–2639. [View Article] [PubMed]
    [Google Scholar]
  20. Pikuta E., Cleland D., Tang J. ( 2003 ). Aerobic growth of Anoxybacillus pushchinoensis K1T: emended descriptions of A. pushchinoensis and the genus Anoxybacillus . . Int J Syst Evol Microbiol 53, 1561–1562. [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. Salinas M. B., Fardeau M. L., Cayol J. L., Casalot L., Patel B. K. C., Thomas P., Garcia J. L., Ollivier B. ( 2004 ). Petrobacter succinatimandens gen. nov., sp. nov., a moderately thermophilic, nitrate-reducing bacterium isolated from an Australian oil well. . Int J Syst Evol Microbiol 54, 645–649. [View Article] [PubMed]
    [Google Scholar]
  23. Sambrook J., Russell D. W. ( 2001 ). Molecular Cloning: a Laboratory Manual, , 3rd edn.. Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory;.
     [Google Scholar]
  24. Staneck J. L., Roberts G. D. ( 1974 ). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. . Appl Microbiol 28, 226–231.[PubMed]
    [Google Scholar]
  25. 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. [View Article] [PubMed]
    [Google Scholar]
  26. Tindall B. J., Rosselló-Móra R., Busse H. J., Ludwig W., Kämpfer P. ( 2010 ). Notes on the characterization of prokaryote strains for taxonomic purposes. . Int J Syst Evol Microbiol 60, 249–266. [View Article] [PubMed]
    [Google Scholar]
  27. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E. & other authors ( 1987 ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37, 463–464. [View Article]
    [Google Scholar]
/content/journal/ijsem/10.1099/ijs.0.056424-0
Loading
Taxonomic study of the genus Tepidiphilus: transfer of Petrobacter succinatimandens to the genus Tepidiphilus as Tepidiphilus succinatimandens comb. nov., emended description of the genus Tepidiphilus and description of Tepidiphilus thermophilus sp. nov., isolated from a terrestrial hot spring
Int J Syst Evol Microbiol 64, 228 (2014); https://doi.org/10.1099/ijs.0.056424-0
/content/journal/ijsem/10.1099/ijs.0.056424-0
/content/journal/ijsem/10.1099/ijs.0.056424-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited 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