1887

Abstract

A Gram-stain-positive staining, motile, endospore forming and moderately halophilic bacterium, designated as strain AS8, was isolated from a microbial mat deposited at thermal discharges of Manikaran hot spring (with surface water temperature ~95 °C) located in Himachal Pradesh, India. 16S rRNA gene sequence based phylogenetic analysis revealed that strain AS8 belonged to the genus with the highest sequence similarity to DSM 23009 (99.9 %) and Ca7(99.9 %), followed by V2-BIII-A2 (99.1 %) and Con a/3(97.4 %). The polar lipids fraction consisted of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The cell-wall peptidoglycan was of the type A1γ based on directly cross-linked -diaminopimelic acid. The DNA G+C content of strain AS8 was found to be 46.9 mol%. The quinone system of strain AS8consisted of MK-7 predominantly, and the polyamine pattern primarily contained spermidine and spermine. The major cellular fatty acids in strain AS8were iso-C, anteiso-C and iso-C. The strain showed DNA–DNA relatedness of 52.7 % with DSM 23009, 50.7 % with Ca7, 34.8 % with V2-BIII-A2 and 38.0 % with Con a/3. In spite of the high 16S rRNA gene sequence similarities, the DNA–DNA hybridization and gene sequencing results (≤87 %) supported by physiological and biochemical tests demonstrated that strain AS8is a representative of a novel species, for which the name sp. nov. is proposed. The type strain is AS8(=MCC 2765=DSM 100124=KCTC 33758).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001051
2016-06-10
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/66/6/2409.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001051&mimeType=html&fmt=ahah

References

  1. Altenburger P., Kämpfer P., Akimov V. N., Lubitz W., Busse H.-J. 1997; Polyamine distribution in actinomycetes with group B peptidoglycan and species of the genera Brevibacterium, Corynebacterium, and Tsukamurella . Int J Syst Bacteriol 47:270–277 [View Article]
    [Google Scholar]
  2. Arden Jones M. P., McCarthy A. J., Cross T. 1979; Taxonomic and serologic studies on Micropolyspora faeni and Micropolyspora strains from soil bearing the specific epithet rectivirgula. J Gen Microbiol 115:343–354 [View Article][PubMed]
    [Google Scholar]
  3. Ash C., Farrow A. E., Wallbanks S., Collins M. D. 1991; Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small-subunit-ribosomal RNA sequences. Lett Appl Microbiol 13:202–206 [View Article]
    [Google Scholar]
  4. Baik K. S., Lim C. H., Park S. C., Kim E. M., Rhee M. S., Seong C. N. 2010; Bacillus rigui sp. nov., isolated from wetland fresh water. Int J Syst Evol Microbiol 60:2204–2209 [View Article][PubMed]
    [Google Scholar]
  5. Busse J., Auling G. 1988; Polyamine pattern as a chemotaxonomic marker within the Proteobacteria . Syst Appl Microbiol 11:1–8 [View Article]
    [Google Scholar]
  6. Chen Y. G., Zhang L., Zhang Y. Q., He J. W., Klenk H. P., Tang S. K., Zhang Y. X., Li W. J. 2011; Bacillus nanhaiensis sp. nov., isolated from an oyster. Int J Syst Evol Microbiol 61:888–893 [View Article][PubMed]
    [Google Scholar]
  7. Christensen P., Cook F. D. 1978; Lysobacter, a new genus of nonfruiting, gliding bacteria with a high base ratio. Int J Syst Bacteriol 28:367–393 [View Article]
    [Google Scholar]
  8. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and Corynebacteria . J Gen Microbiol 100:221–230 [View Article][PubMed]
    [Google Scholar]
  9. Cowan S. T., Steel K. J. 1965 Manual for the Identification of Medical Bacteria London, UK: Cambridge University Press;
    [Google Scholar]
  10. Dastager S. G., Mawlankar R., Srinivasan K., Tang S. K., Lee J. C., Ramana V. V., Shouche Y. S. 2014; Fictibacillus enclensis sp. nov., isolated from marine sediment. Antonie Van Leeuwenhoek 105:461–469 [View Article][PubMed]
    [Google Scholar]
  11. Dwivedi V., Kumari R., Gupta S. K., Kumari K., Tripathi C., Lata P., Niharika N., Singh A. K., Kumar R. 2015; Thermus parvatiensis RLT sp. nov., isolated from a hot water spring, located atop the Himalayan ranges at Manikaran, India. Indian J Microbiol 55:357–365 [View Article]
    [Google Scholar]
  12. Dwivedi V., Sangwan N., Nigam A., Garg N., Niharika N., Khurana P., Khurana J. P., Lal R. 2012; Draft genome sequence of Thermus sp. strain RL, isolated from a hot water spring located atop the Himalayan ranges at Manikaran, India. J Bacteriol 194:3534–3535 [View Article][PubMed]
    [Google Scholar]
  13. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  14. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  15. Glaeser S. P., Dott W., Busse H.-J., Kämpfer P. 2013; Fictibacillus phosphorivorans gen. nov., sp. nov. and proposal to reclassify Bacillus arsenicus, Bacillus barbaricus, Bacillus macauensis, Bacillus nanhaiensis, Bacillus rigui, Bacillus solisalsi and Bacillus gelatini in the genus Fictibacillus . Int J Syst Microbiol 63:2934–2944 [View Article]
    [Google Scholar]
  16. Gonzalez J. M., Saiz-Jimenez C. 2002; A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 4:770–773[PubMed] [CrossRef]
    [Google Scholar]
  17. Gordon R. E., Barnett D. A., Handerran J. E., Pang C. H. N. 1974; Nocardia coeliaca, Nocardia autotrophica and the Nocardin strain . Int J Syst Evol Microbiol 24:54–63
    [Google Scholar]
  18. Kim M., Oh H. S., Park S. C., Chun J. 2014; Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 64:346–351 [View Article][PubMed]
    [Google Scholar]
  19. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. et al. 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]
  20. Kluge A. G., Farris J. S. 1969; Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32 [View Article]
    [Google Scholar]
  21. Kumar M., Verma M., Lal R. 2008; Devosia chinhatensis sp. nov., isolated from a hexachlorocyclohexane (HCH) dump site in india. Int J Syst Evol Microbiol 58:861–865 [View Article][PubMed]
    [Google Scholar]
  22. Kuykendall L. D., Roy M. A., O’Neil J. J., Devine T. E. 1988; Fatty acids, antibiotics resistance, and deoxyribonucleic acid homology groups of Bradorhizobium Japonicum . Int J Syst Bacteriol 38:358–361 [View Article]
    [Google Scholar]
  23. Lane D. J. 1991; 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics pp 115–175 Edited by Stackebrandt E., Goodfellow M. Chichester: John Wiley & Sons;
    [Google Scholar]
  24. Liu H., Zhou Y., Liu R., Zhang K. Y., Lai R. 2009; sp. nov., a halotolerant, alkaliphilic bacterium isolated from soil around a salt lake. Int J Syst Evol Microbiol 59:1460–1464 [View Article][PubMed]
    [Google Scholar]
  25. Mahato N. K., Tripathi C., Verma H., Singh N., Lal R. 2014; Draft genome sequence of Deinococcus sp. strain RL isolated from sediments of hot spring located Manikaran, India . Genome Announc 2, eA 00703:
    [Google Scholar]
  26. McCarthy A. J., Cross T. 1984; A taxonomic study of Thermomonospora and other monosporic actinomycetes. J Gen Microbiol 130:5–25 [View Article]
    [Google Scholar]
  27. Miller L. T. 1982; Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 16:584–586[PubMed]
    [Google Scholar]
  28. Prakash O., Verma M., Sharma P., Kumar M., Kumari K., Singh A., Kumari H., Jit S., Gupta S. K. 2007; Polyphasic approach of bacterial classification - An overview of recent advances. Indian J Microbiol 47:98–108 [View Article][PubMed]
    [Google Scholar]
  29. Rosselló-Mora R., Amann R. 2001; The species concept for prokaryotes. FEMS Microbiol Rev 25:39–67 [View Article][PubMed]
    [Google Scholar]
  30. 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]
  31. Sangwan N., Lambert C., Sharma A., Gupta V., Khurana P., Khurana J. P., Sockett R. E., Gilbert J. A., Lal R. 2015; Arsenic rich Himalayan hot spring metagenomics reveal genetically novel predator-prey genotypes. Environ Microbiol Rep 7:812–823 [View Article][PubMed]
    [Google Scholar]
  32. Schumann P. 2011; Peptidoglycan structure. Methods Microbiol 38:101–129 [View Article]
    [Google Scholar]
  33. Sharma A., Gilbert J. A., Lal R. 2016; (Meta)genomic insights into the pathogenome of Cellulosimicrobium cellulans. Sci Rep 6:25527 [View Article][PubMed]
    [Google Scholar]
  34. Sharma A., Hira P., Shakarad M., Lal R. 2014; Draft genome sequence of Cellulosimicrobium sp. strain MM, isolated from arsenic-rich microbial mats of a Himalayan Hot Spring. Genome Announc 5:e0102014 [View Article]
    [Google Scholar]
  35. Singh A. K., Garg N., Sangwan N., Negi V., Kumar R., Vikram S., Lal R. 2013; Pontibacter Ramchanderi sp. nov., isolated from hexachlorocyclohexane (HCH) contaminated pond sediment located in the vicinity of a lindane production unit. Int J Syst Evol Microbiol 63:2829–2834 [View Article][PubMed]
    [Google Scholar]
  36. 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]
  37. Stackebrandt E., Goebel B. M. 1994; Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846–849 [View Article]
    [Google Scholar]
  38. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. 2013; MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  39. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G. 1997; The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882 [View Article][PubMed]
    [Google Scholar]
  40. 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, 3rd edn. pp. 330–393 Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R. Washington, DC, USA: ASM Press;
    [Google Scholar]
  41. Täubel M., Kämpfer P., Buczolits S., Lubitz W., Busse H. J. 2003; Bacillus barbaricus sp. nov., isolated from an experimental wall painting. Int J Syst Evol Microbiol 53:725–730 [View Article][PubMed]
    [Google Scholar]
  42. 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. 1987; International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 37:463–464 [CrossRef]
    [Google Scholar]
  43. Yamamoto S., Harayama S. 1995; PCR amplification and direct sequencing of gyrb genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas Putida strains. Appl Environ Microbiol 61:1104–1109[PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001051
Loading
/content/journal/ijsem/10.1099/ijsem.0.001051
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF
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