1887

Abstract

A Gram-stain-negative, non-motile, non-spore-forming, long rod-shaped bacterium, designated strain GYP-15, was isolated from the culture broth of a marine microalga, sp. 122. Phylogenetic analyses revealed that strain GYP-15 shared 90.6 % 16S rRNA gene sequence similarity with its closest relative, KCTC 12183, and represents a distinct phylogenetic lineage in a robust clade consisting of GYP-15 and members of the genera and in the order . Chemotaxonomic and physiological characteristics, including major cellular fatty acids, NaCl tolerance and pattern of carbon source utilization, could also readily distinguish strain GYP-15 from all established genera and species. Thus, it is concluded that strain GYP-15 represents a novel species of a new genus, for which the name gen. nov., sp. nov. is proposed. The type strain of is GYP-15 ( = MCCC 1K01163 = KCTC 42667). Based on phylogenetic results, 16S rRNA gene signature nucleotide pattern and some physiological characteristics, the three genera , and are proposed to make up a novel family, fam. nov., in the order

Funding
This study was supported by the:
  • , Public Science and Technology Research Funds Projects of Ocean , (Award 201305018-3)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.000601
2015-12-01
2021-03-07
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/12/4488.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.000601&mimeType=html&fmt=ahah

References

  1. Ahn J., Park J. W., McConnell J. A., Ahn Y. B., Häggblom M. M. ( 2011;). Kangiella spongicola sp. nov., a halophilic marine bacterium isolated from the sponge Chondrilla nucula . Int J Syst Evol Microbiol 61 961964 [CrossRef] [PubMed].
    [Google Scholar]
  2. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. ( 1990;). Basic local alignment search tool. J Mol Biol 215 403410 [CrossRef] [PubMed].
    [Google Scholar]
  3. 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 10491070 [PubMed].
    [Google Scholar]
  4. Bruns A., Berthe-Corti L. ( 1999;). Fundibacter jadensis gen. nov., sp. nov., a new slightly halophilic bacterium, isolated from intertidal sediment. Int J Syst Bacteriol 49 441448 [CrossRef] [PubMed].
    [Google Scholar]
  5. Collins M. D. ( 1994;). Isoprenoid quinones. . In Chemical Methods in Prokaryotic Systematics, pp. 345401. Edited by Goodfellow M., O'Donnell A. G. Chichester: Wiley;.
    [Google Scholar]
  6. Dong X. Z., Cai M. Y. ( 2001). Determinative Manual for Routine Bacteriology Beijing: Scientific Press;.
    [Google Scholar]
  7. Fagervold S. K., Urios L., Intertaglia L., Batailler N., Lebaron P., Suzuki M. T. ( 2013;). Pleionea mediterranea gen. nov., sp. nov., a gammaproteobacterium isolated from coastal seawater. Int J Syst Evol Microbiol 63 27002705 [CrossRef] [PubMed].
    [Google Scholar]
  8. Felsenstein J. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17 368376 [CrossRef] [PubMed].
    [Google Scholar]
  9. Felsenstein J. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 783791 [CrossRef].
    [Google Scholar]
  10. Fernández-Martínez J., Pujalte M. J., García-Martínez J., Mata M., Garay E., Rodríguez-Valeral F. ( 2003;). Description of Alcanivorax venustensis sp. nov. and reclassification of Fundibacter jadensis DSM 1 21 78T (Bruns and Berthe-Corti 1999) as Alcanivorax jadensis comb. nov., members of the emended genus Alcanivorax . Int J Syst Evol Microbiol 53 331338 [CrossRef] [PubMed].
    [Google Scholar]
  11. Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. (editors) ( 1994). Methods for General and Molecular Bacteriology., Washington, DC: American Society for Microbiology;.
    [Google Scholar]
  12. Golyshin P. N., Harayama S., Timmis K. N., Yakimov M. M. ( 2005;). Family II. Alcanivoraceae fam. nov.. In Bergey's Manual of Systematic Bacteriology, p. 295. Edited by Brenner D. J., Krieg N. R., Staley J. R., Garrity G. M. vol. 2 , 2nd edn.., New York: Springer;.
    [Google Scholar]
  13. Jean W. D., Huang S. P., Chen J. S., Shieh W. Y. ( 2012;). Kangiella taiwanensis sp. nov. and Kangiella marina sp. nov., marine bacteria isolated from shallow coastal water. Int J Syst Evol Microbiol 62 22292234 [CrossRef] [PubMed].
    [Google Scholar]
  14. Kamekura M. ( 1993;). Lipids of extreme halophiles. . In The Biology of Halophilic Bacteria, pp. 135161. Edited by Vreeland R. H., Hochstein L. I. Boca Raton, FL: CRC Press;.
    [Google Scholar]
  15. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H., other authors. ( 2012;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62 716721 [CrossRef] [PubMed].
    [Google Scholar]
  16. Kim J. H., Ward A. C., Kim W. ( 2015;). Kangiella chungangensis sp. nov. isolated from a marine sand. Antonie van Leeuwenhoek 107 12911298 [CrossRef] [PubMed].
    [Google Scholar]
  17. Kimura M. ( 1980;). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16 111120 [CrossRef] [PubMed].
    [Google Scholar]
  18. Komagata K., Suzuki K. ( 1987;). Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19 161207 [CrossRef].
    [Google Scholar]
  19. Kwon K. K., Oh J. H., Yang S. H., Seo H. S., Lee J. H. ( 2015;). Alcanivorax gelatiniphagus sp. nov., a marine bacterium isolated from tidal flat sediments enriched with crude oil. Int J Syst Evol Microbiol 65 22042208 [CrossRef].
    [Google Scholar]
  20. Lai Q., Wang L., Liu Y., Fu Y., Zhong H., Wang B., Chen L., Wang J., Sun F., Shao Z. ( 2011;). Alcanivorax pacificus sp. nov., isolated from a deep-sea pyrene-degrading consortium. Int J Syst Evol Microbiol 61 13701374 [CrossRef] [PubMed].
    [Google Scholar]
  21. Lai Q., Wang J., Gu L., Zheng T., Shao Z. ( 2013;). Alcanivorax marinus sp. nov., isolated from deep-sea water. Int J Syst Evol Microbiol 63 44284432 [CrossRef] [PubMed].
    [Google Scholar]
  22. Lane D. J. ( 1991;). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115175. Edited by Stackebrandt E., Goodfellow M. Chichester: Wiley;.
    [Google Scholar]
  23. Lee S. Y., Park S., Oh T. K., Yoon J. H. ( 2013;). Kangiella sediminilitoris sp. nov., isolated from a tidal flat sediment. Int J Syst Evol Microbiol 63 10011006 [CrossRef] [PubMed].
    [Google Scholar]
  24. Liu C., Shao Z. ( 2005;). Alcanivorax dieselolei sp. nov., a novel alkane-degrading bacterium isolated from sea water and deep-sea sediment. Int J Syst Evol Microbiol 55 11811186 [CrossRef] [PubMed].
    [Google Scholar]
  25. Mesbah M., Premachandran U., Whitman W. B. ( 1989;). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39 159167 [CrossRef].
    [Google Scholar]
  26. Munoz R., Yarza P., Ludwig W., Euzéby J., Amann R., Schleifer K. H., Glöckner F. O., Rosselló-Móra R. ( 2011;). Release LTPs104 of the All-Species Living Tree. Syst Appl Microbiol 34 169170 [CrossRef] [PubMed].
    [Google Scholar]
  27. Myers E. W., Miller W. ( 1988;). Optimal alignments in linear space. Comput Appl Biosci 4 1117 [PubMed].
    [Google Scholar]
  28. Pruesse E., Peplies J., Glöckner F. O. ( 2012;). SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 28 18231829 [CrossRef] [PubMed].
    [Google Scholar]
  29. Rahul K., Sasikala Ch., Tushar L., Debadrita R., Ramana ChV. ( 2014;). Alcanivorax xenomutans sp. nov., a hydrocarbonoclastic bacterium isolated from a shrimp cultivation pond. Int J Syst Evol Microbiol 64 35533558 [CrossRef] [PubMed].
    [Google Scholar]
  30. Rivas R., García-Fraile P., Peix A., Mateos P. F., Martínez-Molina E., Velázquez E. ( 2007;). Alcanivorax balearicus sp. nov., isolated from Lake Martel. Int J Syst Evol Microbiol 57 13311335 [CrossRef] [PubMed].
    [Google Scholar]
  31. Romanenko L. A., Tanaka N., Frolova G. M., Mikhailov V. V. ( 2010;). Kangiella japonica sp. nov., isolated from a marine environment. Int J Syst Evol Microbiol 60 25832586 [CrossRef] [PubMed].
    [Google Scholar]
  32. Saitou N., Nei M. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406425 [PubMed].
    [Google Scholar]
  33. Silveira C. B., Thompson F. ( 2014;). The family Alcanivoraceae . . In The Prokaryotes – Gammaproteobacteria, vol. 9, , 4th edn.., p. 59. Edited by Rosenberg E., DeLong E. F., Stackebrandt E., Lory S., Thompson F. New York: Springer;.
    [Google Scholar]
  34. Swofford D. L. ( 1993). paup: Phylogenetic analysis using parsimony, version 3.1.1 Champaign, IL: Illinois Natural History Survey;.
    [Google Scholar]
  35. 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 27312739 [CrossRef] [PubMed].
    [Google Scholar]
  36. Tindall B. J. ( 1990;). Lipid composition of Halobacterium lacusprofundi . FEMS Microbiol Lett 66 199202 [CrossRef].
    [Google Scholar]
  37. 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, pp. 330393. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R. Washington DC: American Society for Microbiology;.
    [Google Scholar]
  38. Wu Y., Lai Q., Zhou Z., Qiao N., Liu C., Shao Z. ( 2009;). Alcanivorax hongdengensis sp. nov., an alkane-degrading bacterium isolated from surface seawater of the straits of Malacca and Singapore, producing a lipopeptide as its biosurfactant. Int J Syst Evol Microbiol 59 14741479 [CrossRef] [PubMed].
    [Google Scholar]
  39. Xu F. D., Li X. G., Xiao X., Xu J. ( 2015;). Kangiella profundi sp. nov., isolated from deep-sea sediment. Int J Syst Evol Microbiol 65 23152319 [CrossRef] [PubMed].
    [Google Scholar]
  40. Yakimov M. M., Golyshin P. N., Lang S., Moore E. R., Abraham W. R., Lünsdorf H., Timmis K. N. ( 1998;). Alcanivorax borkumensis gen. nov., sp. nov., a new, hydrocarbon-degrading and surfactant-producing marine bacterium. Int J Syst Bacteriol 48 339348 [CrossRef] [PubMed].
    [Google Scholar]
  41. Yarza P., Yilmaz P., Pruesse E., Glöckner F. O., Ludwig W., Schleifer K. H., Whitman W. B., Euzéby J., Amann R., Rosselló-Móra R. ( 2014;). Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences. Nat Rev Microbiol 12 635645 [CrossRef] [PubMed].
    [Google Scholar]
  42. Yoon J. H., Oh T. K., Park Y. H. ( 2004;). Kangiella koreensis gen. nov., sp. nov. and Kangiella aquimarina sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. Int J Syst Evol Microbiol 54 18291835 [CrossRef] [PubMed].
    [Google Scholar]
  43. Yoon J. H., Kang S. J., Lee S. Y., Lee J. S., Oh T. K. ( 2012;). Kangiella geojedonensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 62 511514 [CrossRef] [PubMed].
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.000601
Loading
/content/journal/ijsem/10.1099/ijsem.0.000601
Loading

Data & Media loading...

Supplements

Supplementary Data

PDF

Most cited this month 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