1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 67, Issue 4

sp. nov., isolated from underground salt deposits Free

Abstract

Two extremely halophilic archaea, strains D90 and D93, were isolated from underground salt deposits of Yunnan salt mine, China. Both strains were pleomorphic or short rods, non-motile, Gram-negative and required 1.7 M NaCl for growth, with optimum at 3.4 M. Mg was not required for growth. Multiple copies of the 16S rRNA gene were obtained for both strains. Sequence similarity analysis of 16S rRNA genes revealed that strains D90 and D93 were closely related to MGY-184 and DSM 9297 with the sequence similarity between 96.2–98.1 %. The sequence similarity of the gene between strain D90 and JCM 9908 was 94.1 %. The DNA G+C contents of strains D90 and D93 were 65.9 and 67.6 mol%, respectively. The major polar lipids of both strains were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester and glycolipid. The DNA–DNA relatedness value between strains D90 and D93 was 90.1±0.5 %, while that between strain D90 and JCM 9908 was 30.0±0.7 %. The comparison of physiological and biochemical characteristics, including the requirements of NaCl, Mg, pH, etc., differentiated strains D90 and D93 from MGY-184 and JCM 9908. Therefore, strains D90 and D93 represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is D90 (=CGMCC 1.15501=JCM 31273).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): haloarchaea , Halobaculum and salt deposits
© 2017 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001663
2017-04-01
2024-04-16
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/4/818.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001663&mimeType=html&fmt=ahah

References

  1. McGenity TJ, Oren A. Life in saline environments. In Bell EM. (editor) Life at Extremes: Environments, Organisms, and Strategies for Survival Wallingford, UK: CABI International; 2012 pp. 402–437 [CrossRef]
     [Google Scholar]
  2. Chen S, Liu HC, Zhao D, Yang J, Zhou J et al. Halorubrum yunnanense sp. nov., isolated from a subterranean salt mine. Int J Syst Evol Microbiol 2015; 65:4526–4532 [View Article]
     [Google Scholar]
  3. Oren A. Taxonomy of the family Halobacteriaceae: a paradigm for changing concepts in prokaryote systematics. Int J Syst Evol Microbiol 2012; 62:263–271 [View Article]
     [Google Scholar]
  4. LPSN 2014; List of prokaryotic names with standing in nomenclature. www.bacterio.net/
  5. Gupta RS, Naushad S, Baker S. Phylogenomic analyses and molecular signatures for the class Halobacteria and its two major clades: a proposal for division of the class Halobacteria into an emended order Halobacteriales and two new orders, Haloferacales ord. nov. and Natrialbales ord. nov., containing the novel families Haloferacaceae fam. nov. and Natrialbaceae fam. nov. Int J Syst Evol Microbiol 2015; 65:1050–1069 [View Article]
     [Google Scholar]
  6. Chen S, Wang C, Xu JP, Yang ZL. Molecular characterization of pHRDV1, a new virus-like mobile genetic element closely related to pleomorphic viruses in haloarchaea. Extremophiles 2014; 18:195–206 [View Article]
     [Google Scholar]
  7. Chen S, Liu HC, Zhou J, Xiang H. Haloparvum sedimenti gen. nov., sp. nov., a member of the family Haloferacaceae. Int J Syst Evol Microbiol 2016; 66:2327–2334 [View Article]
     [Google Scholar]
  8. Chen S, Liu HC, Zhou J, Xiang H. Halorubrum pallidum sp. nov., an extremely halophilic archaeon isolated from a subterranean rock salt. Int J Syst Evol Microbiol 2016; 66:2980–2986 [View Article][PubMed]
     [Google Scholar]
  9. Chen S, Wang C, Xiang H. Sequence analysis and minimal replicon determination of a new haloarchaeal plasmid pHF2 isolated from Haloferax sp. strain Q22. Plasmid 2016; 83:1–7 [View Article]
     [Google Scholar]
  10. Oren A, Gurevich P, Gemmell RT, Teske A. Halobaculum gomorrense gen. nov., sp. nov., a novel extremely halophilic archaeon from the Dead Sea. Int J Syst Bacteriol 1995; 45:747–754 [View Article]
     [Google Scholar]
  11. Gupta RS, Naushad S, Fabros R, Adeolu M. A phylogenomic reappraisal of family-level divisions within the class Halobacteria: proposal to divide the order Halobacteriales into the families Halobacteriaceae, Haloarculaceae fam. nov., and Halococcaceae fam. nov., and the order Haloferacales into the families, Haloferacaceae and Halorubraceae fam nov. Antonie van Leeuwenhoek 2016; 109:565–587 [View Article]
     [Google Scholar]
  12. Oren A, Ventosa A, Grant WD. Proposed minimal standards for description of new taxa in the order Halobacteriales. Int J Syst Bacteriol 1997; 47:233–238 [View Article]
     [Google Scholar]
  13. Dussault HP. An improved technique for staining red halophilic bacteria. J Bacteriol 1955; 70:484–485
     [Google Scholar]
  14. Gonzalez C, Gutierrez C, Ramirez C. Halobacterium vallismortis sp. nov. an amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 1978; 24:710–715 [View Article]
     [Google Scholar]
  15. Han D, Cui HL. Halorubrum laminariae sp. nov., isolated from the brine of salted brown alga Laminaria. Antonie van Leeuwenhoek 2015; 107:217–223 [View Article]
     [Google Scholar]
  16. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp 607–654
     [Google Scholar]
  17. Shimoshige H, Yamada T, Minegishi H, Echigo A, Shimane Y et al. Halobaculum magnesiiphilum sp. nov., a magnesium-dependent haloarchaeon isolated from commercial salt. Int J Syst Evol Microbiol 2013; 63:861–866 [View Article]
     [Google Scholar]
  18. Cui HL, Gao X, Yang X, Xu XW. Halorussus rarus gen. nov., sp. nov., a new member of the family Halobacteriaceae isolated from a marine solar saltern. Extremophiles 2010; 14:493–499 [View Article]
     [Google Scholar]
  19. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
     [Google Scholar]
  20. Cui HL, Zhou PJ, Oren A, Liu SJ. Intraspecific polymorphism of 16S rRNA genes in two halophilic archaeal genera, Haloarcula and Halomicrobium. Extremophiles 2009; 13:31–37 [View Article]
     [Google Scholar]
  21. Boucher Y, Douady CJ, Sharma AK, Kamekura M, Doolittle WF. Intragenomic heterogeneity and intergenomic recombination among haloarchaeal rRNA genes. J Bacteriol 2004; 186:3980–3990 [View Article]
     [Google Scholar]
  22. Pei AY, Oberdorf WE, Nossa CW, Agarwal A, Chokshi P et al. Diversity of 16S rRNA genes within individual prokaryotic genomes. Appl Environ Microbiol 2010; 76:3886–3897 [View Article]
     [Google Scholar]
  23. Sun DL, Jiang X, Wu QL, Zhou NY. Intragenomic heterogeneity of 16S rRNA genes causes overestimation of prokaryotic diversity. Appl Environ Microbiol 2013; 79:5962–5969 [View Article]
     [Google Scholar]
  24. Minegishi H, Kamekura M, Itoh T, Echigo A, Usami R et al. Further refinement of the phylogeny of the Halobacteriaceae based on the full-length RNA polymerase subunit B' (rpoB′) gene. Int J Syst Evol Microbiol 2010; 60:2398–2408 [View Article]
     [Google Scholar]
  25. Hall TA. Bioedit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser 1999; 41:95–98
     [Google Scholar]
  26. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425
     [Google Scholar]
  27. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article]
     [Google Scholar]
  28. Marmur J, Doty P. Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 1962; 5:109–118 [View Article]
     [Google Scholar]
  29. De Ley J, Cattoir H, Reynaerts A. The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 1970; 12:133–142 [View Article]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001663
Loading
Halobaculum roseum sp. nov., isolated from underground salt deposits
Int J Syst Evol Microbiol 67, 818 (2017); https://doi.org/10.1099/ijsem.0.001663
/content/journal/ijsem/10.1099/ijsem.0.001663
/content/journal/ijsem/10.1099/ijsem.0.001663
Loading

Data & Media loading...

Supplements

Supplementary File 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