Halogranum salarium sp. nov., a halophilic archaeon isolated from sea salt

Systematic and Applied Microbiology

Volumn 34, Issue 8, 2011, Pages 576-580

  Kim, Kwang Kyu ^a   Lee, Keun Chul ^a   Lee, Jung Sook ^a  

^a Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

Author keywords

Halogranum salarium sp. nov.; Halophilic archaea; RpoB' gene

Indexed keywords

GLYCOLIPID; LIPID; PHOSPHATIDYLGLYCEROL; PHOSPHATIDYLGLYCEROL PHOSPHATE METHYL ESTER; RNA 16S; RNA POLYMERASE BETA SUBUNIT; SODIUM CHLORIDE; UNCLASSIFIED DRUG;

ARCHAEBACTERIUM; ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM COLONY; BACTERIUM ISOLATE; BACTERIUM ISOLATION; CLADISTICS; DNA DNA HYBRIDIZATION; GENE SEQUENCE; GENOTYPE PHENOTYPE CORRELATION; GENUS; HALOGRANUM AMYLOLYTICUM; HALOGRANUM GELATINILYTICUM; HALOGRANUM RUBRUM; HALOGRANUM SALARIUM; HALOPHILIC BACTERIUM; LIPID ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; RPOB GENE; SEA; SEQUENCE HOMOLOGY;

BASE COMPOSITION; DNA, ARCHAEAL; DNA, RIBOSOMAL; DNA-DIRECTED RNA POLYMERASES; GENES, RRNA; GENOTYPE; HALOBACTERIACEAE; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PHENOTYPE; PHYLOGENY; REPUBLIC OF KOREA; RNA, RIBOSOMAL, 16S; SEAWATER; SEQUENCE ANALYSIS, DNA; SODIUM CHLORIDE; SPECIES SPECIFICITY;

ARCHAEA;

EID: 83155180639     PISSN: 07232020     EISSN: 16180984     Source Type: Journal    
DOI: 10.1016/j.syapm.2011.03.007     Document Type: Article

References (33)

1. Baker G.C., Smith J.J., Cowan D.A. Review and re-analysis of domain-specific 16S primers. J. Microbiol. Methods 2003, 55:541-555.
2. Bauer A.W., Kirby W.M., Sherris J.C., Turck M. Antibiotic susceptibility testing by a standardized single disk method. Am. J. Clin. Pathol. 1966, 45:493-496.
3. Bruns A., Rohde M., Berthe-Corti L. Muricauda ruestringensis gen. nov., sp. nov., a facultatively anaerobic, appendaged bacterium from German North Sea intertidal sediment. Int. J. Syst. Evol. Microbiol. 2001, 51:1997-2006.
4. Cui H.L., Gao X., Sun F.F., Dong Y., Xu X.W., Zhou Y.G., Liu H.C., Oren A., Zhou P.J. Halogranum rubrum gen. nov., sp. nov., a halophilic archaeon isolated from a marine solar saltern. Int. J. Syst. Evol. Microbiol. 2010, 60:1366-1371.
5. Cui H.L., Yang X., Gao X., Xu X.W. Halogranum gelatinilyticum sp. nov. and Halogranum amylolyticum sp. nov., isolated from a marine solar saltern, and emended description of the genus Halogranum. Int. J. Syst. Evol. Microbiol. 2011, 61:911-915.
6. Cui H.L., Yang X., Gao X., Li X.Y., Xu X.W., Zhou Y.G., Liu H.C., Zhou P.J. Halogeometricum rufum sp. nov., a halophilic archaeon from a marine solar saltern, and emended description of the genus Halogeometricum. Int. J. Syst. Evol. Microbiol. 2010, 60:2613-2617.
7. Enache M., Itoh T., Fukushima T., Usami R., Dumitru L., Kamekura M. Phylogenetic relationships within the family Halobacteriaceae inferred from rpoB' gene and protein sequences. Int. J. Syst. Evol. Microbiol. 2007, 57:2289-2295.
8. Euzéby J.P. List of Prokaryotic Names with Standing in Nomenclature 2011, http://www.bacterio.cict.fr/.
9. Ezaki T., Hashimoto Y., Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int. J. Syst. Bacteriol. 1989, 39:224-229.
10. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 1981, 17:368-376.
11. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985, 39:783-791.
12. Felsenstein J. PHYLIP (Phylogenetic Inference Package), Version 3.69 2009, Department of Genome Sciences, University of Washington, Seattle, USA.
13. Fitch W.M. Toward defining the course of evolution: minimum change for a specific tree topology. Syst. Zool. 1971, 20:406-416.
14. Fukushima T., Usami R., Kamekura M. A traditional Japanese-style salt field is a niche for haloarchaeal strains that can survive in 0.5% salt solution. Saline Syst. 2007, 3:2.
15. Gibbons N.E., Family V. Halobacteriaceae fam. nov. Bergey's Manual of Determinative Bacteriology 1974, 269-273. Williams and Wilkins Co., Baltimore. 8th ed. R.E. Buchanan, N.E. Gibbons (Eds.).
16. Hall T.A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl. Acids Symp. Ser. 1999, 41:95-98.
17. Jukes T.H., Cantor C.R. Evolution of protein molecules. Mammalian Protein Metabolism 1969, 21-132. Academic Press, New York. H.N. Munro (Ed.).
18. Kamekura M. Lipids of extreme halophiles. The Biology of Halophilic Bacteria 1993, 135-161. CRC Press, Boca Raton, FL. R.H. Vreeland, L.I. Hochstein (Eds.).
19. Klenk H.P., Zillig W. DNA-dependent RNA polymerase subunit B as a tool for phylogenetic reconstructions: branching topology of the archaeal domain. J. Mol. Evol. 1994, 38:420-432.
20. Minegishi H., Kamekura M., Itoh T., Echigo A., Usami R., Hashimoto T. Further refinement of Halobacteriaceae phylogeny based on the full-length RNA polymerase subunit B' (rpoB') gene. Int. J. Syst. Evol. Microbiol. 2010, 60:2398-2408.
21. Oren A. Diversity of halophiles. Extremophiles Handbook 2011, 309-325. Springer, Japan. K. Horikoshi (Ed.).
22. Oren A., Arahal D.R., Ventosa A. Emended descriptions of genera of the family Halobacteriaceae. Int. J. Syst. Evol. Microbiol. 2009, 59:637-642.
23. Oren A., Ventosa A., Grant W.D. Proposed minimal standards for description of new taxa in the order Halobacteriales. Int. J. Syst. Bacteriol. 1997, 47:233-238.
24. Saitou N., Nei M. The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4:406-425.
25. Savage K.N., Krumholz L.R., Oren A., Elshahed M.S. Haladaptatus paucihalophilus gen. nov., sp. nov., a halophilic archaeon isolated from a low-salt, sulfide-rich spring. Int. J. Syst. Evol. Microbiol. 2007, 57:19-24.
26. Savage K.N., Krumholz L.R., Oren A., Elshahed M.S. Halosarcina pallida gen. nov., sp. nov., a halophilic archaeon from a low-salt, sulfide-rich spring. Int. J. Syst. Evol. Microbiol. 2008, 58:856-860.
27. Tamaoka J., Komagata K. Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol. Lett. 1984, 25:125-128.
28. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., Higgins D.G. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 1997, 25:4876-4882.
29. Torreblanca M., Rodriguez-Valera F., Juez G., Ventosa A., Kamekura M., Kates M. Classification of non-alkaliphilic halobacteria based on numerical taxonomy and polar lipid composition, and description of Haloarcula gen. nov. and Haloferax gen. nov. Syst. Appl. Microbiol. 1986, 8:89-99.
30. Walsh D.A., Bapteste E., Kamekura M., Doolittle W.F. Evolution of the RNA polymerase B' subunit gene (rpoB') in Halobacteriales: a complementary molecular marker to the SSU rRNA gene. Mol. Biol. Evol. 2004, 21:2340-2351.
31. Wayne L.G., Brenner D.J., Colwell R.R., Grimoxt P.A.D., Kaniiler O., Krichevsky M.I., Moore L.H., Moore W.E.C., Murray R.G.E., Stackebrandt E., Starr M.P., Trüper H.G. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int. J. Syst. Bacteriol. 1987, 37:463-464.
32. Wu Y.H., Xu X.W., Huo Y.Y., Zhou P., Zhu X.F., Zhang H.B., Wu M. Halomonas caseinilytica sp. nov., a halophilic bacterium isolated from a saline lake on the Qinghai-Tibet Plateau, China. Int. J. Syst. Evol. Microbiol. 2008, 58:1259-1262.
33. Xin H., Itoh T., Zhou P., Suzuki K., Kamekura M., Nakase T. Natrinema versiforme sp. nov., an extremely halophilic archaeon from Aibi salt lake, Xinjiang, China. Int. J. Syst. Evol. Microbiol. 2000, 50:1297-1303.