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

Volume 64, Issue Pt_1

sp. nov., isolated from deep-sea sediment Free

Abstract

A Gram-stain-negative, short rod-shaped bacterium, designated 26DY36, was isolated from a deep-sea sediment sample collected from the North Atlantic Rise. The isolate required NaCl and grew best with 2 % (w/v) sea salts at a temperature of 30–35 °C and at pH 7.0. It formed yellow colonies, produced carotenoid-like pigments and did not produce bacteriochlorophyll . Strain 26DY36 was positive for hydrolysis of aesculin, gelatin, tyrosine and Tweens 20, 40, 60 and 80, but negative for hydrolysis of casein, DNA and starch. The major respiratory quinone was ubiquinone-10. The major polar lipid profile consisted of sphingoglycolipid, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine and two unidentified glycolipids. The principal fatty acids (>5 %) were Cω7, Cω6, C 2-OH and C. The genomic DNA G+C content was 59.4 mol%. Phylogenetic analysis based on the 16S rRNA gene sequences indicated that strain 26DY36 should be assigned to the genus . 16S rRNA gene sequence similarities between the isolate and the type strains of species of the genus were in the range 92.7–96.5 %. On the basis of phenotypic and genotypic data, strain 26DY36 represents a novel species of the genus , for which the name sp. nov. (type strain, 26DY36 = CGMCC 1.12411 = JCM 18865) is proposed.

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Funding
This study was supported by the:
  • China Ocean Mineral Resources R & D Association (COMRA) Special Foundation (Award DY125-15-R-03)
  • National Natural Science Foundation of China (Award 31100091 and 41276173)
  • Scientific Research Fund of the Second Institute of Oceanography, State Oceanic Administration (Award JT1011 and JT0906)
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2014-01-01
2025-01-22
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References

  1. Bernardet J.-F., Nakagawa Y., Holmes B. Subcommittee on the taxonomy of Flavobacterium and Cytophaga-like bacteria of the International Committee on Systematics of Prokaryotes ( 2002 ). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. . Int J Syst Evol Microbiol 52, 1049–1070. [View Article] [PubMed]
    [Google Scholar]
  2. Dong X.-Z., Cai M.-Y. ( 2001 ). Determinative Manual for Routine Bacteriology. Beijing: Scientific Press (English translation);.
     [Google Scholar]
  3. Fan Z. Y., Xiao Y. P., Hui W., Tian G. R., Lee J. S., Lee K. C., Quan Z. X. ( 2011 ). Altererythrobacter dongtanensis sp. nov., isolated from a tidal flat. . Int J Syst Evol Microbiol 61, 2035–2039. [View Article] [PubMed]
    [Google Scholar]
  4. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
    [Google Scholar]
  5. Fitch W. M. ( 1971 ). Toward defining the course of evolution: minimum change for a specific tree topology. . Syst Zool 20, 406–416. [View Article]
    [Google Scholar]
  6. Hildebrand D. C., Palleroni N. J., Hendson M., Toth J., Johnson J. L. ( 1994 ). Pseudomonas flavescens sp. nov., isolated from walnut blight cankers. . Int J Syst Bacteriol 44, 410–415. [View Article] [PubMed]
    [Google Scholar]
  7. Jeong S. H., Jin H. M., Lee H. J., Jeon C. O. ( 2013 ). Altererythrobacter gangjinensis sp. nov., a marine bacterium isolated from a tidal flat. . Int J Syst Evol Microbiol 63, 971–976. [View Article] [PubMed]
    [Google Scholar]
  8. Kamekura M., Kates M. ( 1988 ). Lipids of halophilic archaebacteria. . In Halophilic Bacteria II, pp. 25–54. Edited by Rodriguez-Valera F. . Boca Raton:: CRC Press;.
     [Google Scholar]
  9. 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]
  10. 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]
  11. Kumar N. R., Nair S., Langer S., Busse H. J., Kämpfer P. ( 2008 ). Altererythrobacter indicus sp. nov., isolated from wild rice (Porteresia coarctata Tateoka). . Int J Syst Evol Microbiol 58, 839–844. [View Article] [PubMed]
    [Google Scholar]
  12. Kuykendall L. D., Roy M. A., O’Neill J. J., Devine T. E. ( 1988 ). Fatty acids, antibiotic resistance, and deoxyribonucleic acid homology groups of Bradyrhizobium japonicum . . Int J Syst Bacteriol 38, 358–361. [View Article]
    [Google Scholar]
  13. Kwon K. K., Woo J.-H., Yang S.-H., Kang J.-H., Kang S. G., Kim S.-J., Sato T., Kato C. ( 2007 ). Altererythrobacter epoxidivorans gen. nov., sp. nov., an epoxide hydrolase-active, mesophilic marine bacterium isolated from cold-seep sediment, and reclassification of Erythrobacter luteolus Yoon et al. 2005 as Altererythrobacter luteolus comb. nov.. Int J Syst Evol Microbiol 57, 2207–2211. [View Article] [PubMed]
    [Google Scholar]
  14. Lai Q., Yuan J., Shao Z. ( 2009 ). Altererythrobacter marinus sp. nov., isolated from deep seawater. . Int J Syst Evol Microbiol 59, 2973–2976. [View Article] [PubMed]
    [Google Scholar]
  15. Leifson E. ( 1963 ). Determination of carbohydrate metabolism of marine bacteria. . J Bacteriol 85, 1183–1184.[PubMed]
    [Google Scholar]
  16. Marmur J. ( 1961 ). A procedure for the isolation of deoxyribonucleic acid from micro-organisms. . J Mol Biol 3, 208–218. [View Article]
    [Google Scholar]
  17. Matsumoto M., Iwama D., Arakaki A., Tanaka A., Tanaka T., Miyashita H., Matsunaga T. ( 2011 ). Altererythrobacter ishigakiensis sp. nov., an astaxanthin-producing bacterium isolated from a marine sediment. . Int J Syst Evol Microbiol 61, 2956–2961. [View Article] [PubMed]
    [Google Scholar]
  18. Mesbah M., Whitman W. B. ( 1989 ). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. . J Chromatogr A 479, 297–306. [View Article] [PubMed]
    [Google Scholar]
  19. Nedashkovskaya O. I., Cho S. H., Joung Y., Joh K., Kim M. N., Shin K. S., Oh H. W., Bae K. S., Mikhailov V. V., Kim S. B. ( 2013 ). Altererythrobacter troitsensis sp. nov., isolated from the sea urchin Strongylocentrotus intermedius . . Int J Syst Evol Microbiol 63, 93–97. [View Article] [PubMed]
    [Google Scholar]
  20. Park Y. D., Baik K. S., Yi H., Bae K. S., Chun J. ( 2005 ). Pseudoalteromonas byunsanensis sp. nov., isolated from tidal flat sediment in Korea. . Int J Syst Evol Microbiol 55, 2519–2523. [View Article] [PubMed]
    [Google Scholar]
  21. Park S. C., Baik K. S., Choe H. N., Lim C. H., Kim H. J., Ka J. O., Seong C. N. ( 2011 ). Altererythrobacter namhicola sp. nov. and Altererythrobacter aestuarii sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 61, 709–715. [View Article] [PubMed]
    [Google Scholar]
  22. Rainey F. A., Silva J., Nobre M. F., Silva M. T., da Costa M. S. ( 2003 ). Porphyrobacter cryptus sp. nov., a novel slightly thermophilic, aerobic, bacteriochlorophyll a-containing species. . Int J Syst Evol Microbiol 53, 35–41. [View Article] [PubMed]
    [Google Scholar]
  23. 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]
  24. Seo S. H., Lee S. D. ( 2010 ). Altererythrobacter marensis sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 60, 307–311. [View Article] [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. Thompson J. D., Higgins D. G., Gibson T. J. ( 1994 ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. . Nucleic Acids Res 22, 4673–4680. [View Article] [PubMed]
    [Google Scholar]
  27. Xu X.-W., Wu Y.-H., Zhou Z., Wang C.-S., Zhou Y.-G., Zhang H.-B., Wang Y., Wu M. ( 2007 ). Halomonas saccharevitans sp. nov., Halomonas arcis sp. nov. and Halomonas subterranea sp. nov., halophilic bacteria isolated from hypersaline environments of China. . Int J Syst Evol Microbiol 57, 1619–1624. [View Article] [PubMed]
    [Google Scholar]
  28. Xue X., Zhang K., Cai F., Dai J., Wang Y., Rahman E., Peng F., Fang C. ( 2012 ). Altererythrobacter xinjiangensis sp. nov., isolated from desert sand, and emended description of the genus Altererythrobacter . . Int J Syst Evol Microbiol 62, 28–32. [View Article] [PubMed]
    [Google Scholar]
  29. Yoon J.-H., Kang K. H., Yeo S.-H., Oh T.-K. ( 2005 ). Erythrobacter luteolus sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. . Int J Syst Evol Microbiol 55, 1167–1170. [View Article] [PubMed]
    [Google Scholar]
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Altererythrobacter atlanticus sp. nov., isolated from deep-sea sediment
Int J Syst Evol Microbiol 64, 116 (2014); https://doi.org/10.1099/ijs.0.052951-0
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