1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 67, Issue 5

gen. nov., sp. nov., a moderately halophilic member of the family Free

Abstract

A novel Gram-stain-negative, rod-shaped, facultatively anaerobic, oxidase-negative and catalase-positive bacterium, designated JZ3C29, was isolated from a saltern located in Feicheng, PR China. JZ3C29 was tolerant of moderately saline conditions. Optimal growth occurred at 40 °C (range 20–50 °C) and pH 7.5–8.5 (range pH 7.0–9.0) with 8–10 % (w/v) NaCl (range 2–16 %). Phylogenetic analysis based on 16S rRNA gene sequences revealed that JZ3C29 shared highest similarity with CL-CB462 (90.5 %), YIM J14 (90.5 %) and CL-KR2 (90.4 %) and less than 90.0 % similarity with other species of the phylum . The isolate formed a novel genus-level clade in the recently described family . The polar lipid profile of the novel isolate consisted of diphosphatidylglycerol, phosphatidylethanolamine, three unidentified glycolipids, four unidentified phospholipids and two unidentified lipids. The dominant cellular fatty acids (>10 %) were summed feature 3 (Cω7 and/or iso-C 2-OH) and iso-C and the sole respiratory quinone was menaquinone 7 (MK-7). The DNA G+C content of JZ3C29 was 44.4 mol%. On the basis of these phenotypic and phylogenetic data, JZ3C29 should be classified as representing a novel genus and species within the family , for which the name gen. nov., sp. nov. is proposed. The type strain is JZ3C29 (=MCCC 1H00131=KCTC 52046=JCM 31413).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): 16S rRNA , phylogenetic analysis and Rhodohalobacter halophilus gen. nov., sp. nov.
© 2017 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001806
2017-05-01
2024-04-24
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/5/1281.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001806&mimeType=html&fmt=ahah

References

  1. Xia J, Ling SK, Wang XQ, Chen GJ, du ZJ. Aliifodinibius halophilus sp. nov., a moderately halophilic member of the genus Aliifodinibius, and proposal of Balneolaceae fam. nov. Int J Syst Evol Microbiol 2016; 66:2225–2233 [View Article][PubMed]
     [Google Scholar]
  2. Liu QQ, Wang Y, Li J, du ZJ, Chen GJ. Saccharicrinis carchari sp. nov., isolated from a shark, and emended descriptions of the genus Saccharicrinis and Saccharicrinis fermentans. Int J Syst Evol Microbiol 2014; 64:2204–2209 [View Article][PubMed]
     [Google Scholar]
  3. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62:716–721 [View Article][PubMed]
     [Google Scholar]
  4. Pruesse E, Peplies J, Glöckner FO. SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 2012; 28:1823–1829 [View Article][PubMed]
     [Google Scholar]
  5. Yarza P, Richter M, Peplies J, Euzeby J, Amann R et al. The All-Species Living Tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. Syst Appl Microbiol 2008; 31:241–250 [View Article][PubMed]
     [Google Scholar]
  6. Ludwig W, Strunk O, Westram R, Richter L, Meier H et al. ARB: a software environment for sequence data. Nucleic Acids Res 2004; 32:1363–1371 [View Article][PubMed]
     [Google Scholar]
  7. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
     [Google Scholar]
  8. Jukes TH, Cantor CR. Evolution of the protein molecules. In Munro HN. (editor) Mammalian Protein Metabolism New York: Academic Press; 1969 pp. 21–132 [CrossRef]
     [Google Scholar]
  9. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25:4876–4882 [View Article][PubMed]
     [Google Scholar]
  10. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [View Article]
     [Google Scholar]
  11. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
     [Google Scholar]
  12. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
     [Google Scholar]
  13. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980; 16:111–120 [View Article][PubMed]
     [Google Scholar]
  14. Li W-H, Zharkikh A. What is the bootstrap technique?. Syst Biol 1994; 43:424–430 [View Article]
     [Google Scholar]
  15. Choi DH, Zhang GI, Noh JH, Kim WS, Cho BC. Gracilimonas tropica gen. nov., sp. nov., isolated from a Synechococcus culture. Int J Syst Evol Microbiol 2009; 59:1167–1172 [View Article][PubMed]
     [Google Scholar]
  16. Wang YX, Li YP, Liu JH, Xiao W, Lai YH et al. Gracilimonas mengyeensis sp. nov., a moderately halophilic bacterium isolated from a salt mine in Yunnan, south-western China. Int J Syst Evol Microbiol 2013; 63:3989–3993 [View Article][PubMed]
     [Google Scholar]
  17. Cho Y, Chung H, Jang GI, Choi DH, Noh JH et al. Gracilimonas rosea sp. nov., isolated from tropical seawater, and emended description of the genus Gracilimonas. Int J Syst Evol Microbiol 2013; 63:4006–4011 [View Article][PubMed]
     [Google Scholar]
  18. Urios L, Intertaglia L, Lesongeur F, Lebaron P. Balneola alkaliphila sp. nov., a marine bacterium isolated from the Mediterranean Sea. Int J Syst Evol Microbiol 2008; 58:1288–1291 [View Article][PubMed]
     [Google Scholar]
  19. Wang YX, Liu JH, Xiao W, Ma XL, Lai YH et al. Aliifodinibius roseus gen. nov., sp. nov., and Aliifodinibius sediminis sp. nov., two moderately halophilic bacteria isolated from salt mine samples. Int J Syst Evol Microbiol 2013; 63:2907–2913 [View Article][PubMed]
     [Google Scholar]
  20. Urios L, Agogué H, Lesongeur F, Stackebrandt E, Lebaron P. Balneola vulgaris gen. nov., sp. nov., a member of the phylum Bacteroidetes from the north-western Mediterranean Sea. Int J Syst Evol Microbiol 2006; 56:1883–1887 [View Article][PubMed]
     [Google Scholar]
  21. Wang YX, Liu JH, Xiao W, Zhang XX, Li YQ et al. Fodinibius salinus gen. nov., sp. nov., a moderately halophilic bacterium isolated from a salt mine. Int J Syst Evol Microbiol 2012; 62:390–396 [View Article][PubMed]
     [Google Scholar]
  22. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA–DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007; 57:81–91 [View Article][PubMed]
     [Google Scholar]
  23. Qin QL, Xie BB, Zhang XY, Chen XL, Zhou BC et al. A proposed genus boundary for the prokaryotes based on genomic insights. J Bacteriol 2014; 196:2210–2215 [View Article][PubMed]
     [Google Scholar]
  24. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
     [Google Scholar]
  25. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article][PubMed]
     [Google Scholar]
  26. 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]
  27. Cowan ST, Steel KJ. Manual for the Identification of Medical Bacteria London: Cambridge University Press; 1965
     [Google Scholar]
  28. Williams ST, Goodfellow M, Alderson G. Genus Streptomyces Waksman and Henrici 1943, 339AL. In Williams ST, Sharpe ME, Holt JG. (editors) Bergey’s Manual of Systematic Bacteriology vol. 4 Baltimore: Williams &Wilkins; 1989 pp. 2463–2468
     [Google Scholar]
  29. Holdeman L V, Cato EP, Moore WEC. Anaerobe Laboratory Manual, 4th ed. Blacksburg, VA: Virginia Polytechnic Institute and State University; 1977
     [Google Scholar]
  30. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids MIDI Technical Note 101 Newark, DE: MIDI, Inc; 1990
     [Google Scholar]
  31. 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]
  32. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990; 13:128–130 [View Article]
     [Google Scholar]
  33. Tindall BJ. Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Letts 1990; 66:199–202 [CrossRef]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001806
Loading
Rhodohalobacter halophilus gen. nov., sp. nov., a moderately halophilic member of the family Balneolaceae
Int J Syst Evol Microbiol 67, 1281 (2017); https://doi.org/10.1099/ijsem.0.001806
/content/journal/ijsem/10.1099/ijsem.0.001806
/content/journal/ijsem/10.1099/ijsem.0.001806
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