Zunongwangia atlantica sp. nov., isolated from deep-sea water

References

1. Auch A. F., Klenk H. P., Göker M. ( 2010a ). Standard operating procedure for calculating genome-to-genome distances based on high-scoring segment pairs. . Stand Genomic Sci 2, 142–148. [View Article] [PubMed]
   [Google Scholar]
2. Auch A. F., von Jan M., Klenk H. P., Göker M. ( 2010b ). Digital DNA–DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. . Stand Genomic Sci 2, 117–134. [View Article] [PubMed]
   [Google Scholar]
3. Ausubel F., Brent R., Kingston R., Moore D., Seidman J., Smith J., Struhl K. (editors) ( 1995 ). Short Protocols in Molecular Biology: a Compendium of Methods from Current Protocols in Molecular Biology, , 3rd edn.. New York:: Wiley;.
   [Google Scholar]
4. 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]
5. Bligh E. G., Dyer W. J. ( 1959 ). A rapid method of total lipid extraction and purification. . Can J Biochem Physiol 37, 911–917. [View Article] [PubMed]
   [Google Scholar]
6. Dong X.-Z., Cai M.-Y. ( 2001 ). Determinative Manual for Routine Bacteriology. Beijing:: Scientific Press (English translation);.
   [Google Scholar]
7. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
   [Google Scholar]
8. Lai Q., Yuan J., Gu L., Shao Z. ( 2009 ). Marispirillum indicum gen. nov., sp. nov., isolated from a deep-sea environment. . Int J Syst Evol Microbiol 59, 1278–1281. [View Article] [PubMed]
   [Google Scholar]
9. 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, 1181–1186. [View Article] [PubMed]
   [Google Scholar]
10. Meier-Kolthoff J. P., Auch A. F., Klenk H. P., Göker M. ( 2013 ). Genome sequence-based species delimitation with confidence intervals and improved distance functions. . BMC Bioinformatics 14, 60. [View Article] [PubMed]
    [Google Scholar]
11. Qin Q. L., Zhao D. L., Wang J., Chen X. L., Dang H. Y., Li T. G., Zhang Y. Z., Gao P. J. ( 2007 ). Wangia profunda gen. nov., sp. nov., a novel marine bacterium of the family Flavobacteriaceae isolated from southern Okinawa Trough deep-sea sediment. . FEMS Microbiol Lett 271, 53–58. [View Article] [PubMed]
    [Google Scholar]
12. Qin Q. L., Zhang X. Y., Wang X. M., Liu G. M., Chen X. L., Xie B. B., Dang H. Y., Zhou B. C., Yu J., Zhang Y. Z. ( 2010 ). The complete genome of Zunongwangia profunda SM-A87 reveals its adaptation to the deep-sea environment and ecological role in sedimentary organic nitrogen degradation. . BMC Genomics 11, 247. [View Article] [PubMed]
    [Google Scholar]
13. Richter M., Rosselló-Móra R. ( 2009 ). Shifting the genomic gold standard for the prokaryotic species definition. . Proc Natl Acad Sci U S A 106, 19126–19131. [View Article] [PubMed]
    [Google Scholar]
14. Rzhetsky A., Nei M. ( 1992 ). Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference. . J Mol Evol 35, 367–375. [View Article] [PubMed]
    [Google Scholar]
15. Rzhetsky A., Nei M. ( 1993 ). Theoretical foundation of the minimum-evolution method of phylogenetic inference. . Mol Biol Evol 10, 1073–1095.[PubMed]
    [Google Scholar]
16. 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]
17. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids . , MIDI Technical Note 101. Newark, DE:: MIDI;.
    [Google Scholar]
18. Shieh W. Y., Chen Y. W., Chaw S. M., Chiu H. H. ( 2003 ). Vibrio ruber sp. nov., a red, facultatively anaerobic, marine bacterium isolated from sea water. . Int J Syst Evol Microbiol 53, 479–484. [View Article] [PubMed]
    [Google Scholar]
19. Skerman V. B. D. ( 1967 ). A Guide to the Identification of the Genera of Bacteria, , 2nd edn.. Baltimore, MD:: Williams & Wilkins;.
    [Google Scholar]
20. 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]
21. Tindall B. ( 1990a ). A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. . Syst Appl Microbiol 13, 128–130. [View Article]
    [Google Scholar]
22. Tindall B. ( 1990b ). Lipid composition of Halobacterium lacusprofundi . . FEMS Microbiol Lett 66, 199–202. [View Article]
    [Google Scholar]
23. Tindall B. J., Sikorski J., Smibert R. M., Kreig N. R. ( 2007 ). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology, , 3rd edn., pp. 330–393. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]