Loktanella cinnabarina sp. nov., isolated from a deep subseafloor sediment, and emended description of the genus Loktanella

References

1. Barrow G. I., Feltham R. K. A. ( 1993 ). Cowan and Steel’s Manual for the Identification of Medical Bacteria, , 3rd edn.. Cambridge:: Cambridge University Press;. [View Article]
   [Google Scholar]
2. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989 ). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in micro-dilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. . Int J Syst Bacteriol 39, 224–229. [View Article]
   [Google Scholar]
3. Felsenstein J. ( 1981 ). Evolutionary trees from DNA sequences: a maximum likelihood approach. . J Mol Evol 17, 368–376. [View Article] [PubMed]
   [Google Scholar]
4. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783–791. [View Article]
   [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. Hosoya S., Yokota A. ( 2007 ). Loktanella atrilutea sp. nov., isolated from seawater in Japan. . Int J Syst Evol Microbiol 57, 1966–1969. [View Article] [PubMed]
   [Google Scholar]
7. Ivanova E. P., Zhukova N. V., Lysenko A. M., Gorshkova N. M., Sergeev A. F., Mikhailov V. V., Bowman J. P. ( 2005 ). Loktanella agnita sp. nov. and Loktanella rosea sp. nov., from the north-west Pacific Ocean. . Int J Syst Evol Microbiol 55, 2203–2207. [View Article] [PubMed]
   [Google Scholar]
8. Jukes T. H., Cantor C. R. ( 1969 ). Evolution of protein molecules. . In Mammalian Protein Metabolism, pp. 21–132. Edited by Munro H. N. . New York:: Academic Press;.
   [Google Scholar]
9. Kroppenstedt R. M. ( 1985 ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. . In Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series vol. 20), pp. 173–199. Edited by Goodfellow M., Minnikin D. E. . New York:: Academic Press;.
   [Google Scholar]
10. Kumar Y., Westram R., Behrens S., Fuchs B., Glöckner F. O., Amann R., Meier H., Ludwig W. ( 2005 ). Graphical representation of ribosomal RNA probe accessibility data using arb software package. . BMC Bioinformatics 6, 61. [View Article] [PubMed]
    [Google Scholar]
11. Kumar Y., Westram R., Kipfer P., Meier H., Ludwig W. ( 2006 ). Evaluation of sequence alignments and oligonucleotide probes with respect to three-dimensional structure of ribosomal RNA using arb software package. . BMC Bioinformatics 7, 240. [View Article] [PubMed]
    [Google Scholar]
12. Lane D. J. ( 1991 ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–175. Edited by Stackebrandt E., Goodfellow M. . Chichester, UK:: Wiley;.
    [Google Scholar]
13. Lau S. C., Tsoi M. M., Li X., Plakhotnikova I., Wu M., Wong P.-K., Qian P.-Y. ( 2004 ). Loktanella hongkongensis sp. nov., a novel member of the α-Proteobacteria originating from marine biofilms in Hong Kong waters. . Int J Syst Evol Microbiol 54, 2281–2284. [View Article] [PubMed]
    [Google Scholar]
14. Lee S. D. ( 2012 ). Loktanella tamlensis sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 62, 586–590. [View Article] [PubMed]
    [Google Scholar]
15. Ludwig W., Strunk O., Westram R., Richter L., Meier H., Yadhukumar, Buchner A., Lai T., Steppi S. et al. ( 2004 ). arb: a software environment for sequence data. . Nucleic Acids Res 32, 1363–1371. [View Article] [PubMed]
    [Google Scholar]
16. 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, 159–167. [View Article]
    [Google Scholar]
17. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. ( 1977 ). Polar lipid composition in the classification of Nocardia and related bacteria. . Int J Syst Bacteriol 27, 104–117. [View Article]
    [Google Scholar]
18. Minnikin D. E., O’Donnell A. G., Goodfellow M., Alderson G., Athalye M., Schaal A., Parlett J. H. ( 1984 ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. . J Microbiol Methods 2, 233–241. [View Article]
    [Google Scholar]
19. Moon Y. G., Seo S. H., Lee S. D., Heo M. S. ( 2010 ). Loktanella pyoseonensis sp. nov., isolated from beach sand, and emended description of the genus Loktanella . . Int J Syst Evol Microbiol 60, 785–789. [View Article] [PubMed]
    [Google Scholar]
20. Nishijima M., Araki-Sakai M., Sano H. ( 1997 ). Identification of isoprenoid quinones by frit-FAB liquid chromatography–mass spectrometry for the chemotaxonomy of microorganisms. . J Microbiol Methods 28, 113–122. [View Article]
    [Google Scholar]
21. Rautela G. S., Cowling E. B. ( 1966 ). Simple cultural test for relative cellulolytic activity of fungi. . Appl Microbiol 14, 892–898.[PubMed]
    [Google Scholar]
22. 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]
23. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characteristics. . In Manual of Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
24. Swan A. ( 1954 ). The use of a bile-aesculin medium and of Maxted’s technique of Lancefield grouping in the identification of enterococci (group D streptococci). . J ClinPathol 7, 160–163. [View Article] [PubMed]
    [Google Scholar]
25. Tang J. C., Taniguchi H., Chu H., Zhou Q., Nagata S. ( 2009 ). Isolation and characterization of alginate-degrading bacteria for disposal of seaweed wastes. . Lett Appl Microbiol 48, 38–43. [View Article] [PubMed]
    [Google Scholar]
26. Tavaré S. ( 1986 ). Some probabilistic and statistical problems in the analysis of DNA sequences. . Lect Math Life Sci 17, 57–86 (American Mathematical Society).
    [Google Scholar]
27. Van Trappen S., Mergaert J., Swings J. ( 2004 ). Loktanella salsilacus gen. nov., sp. nov., Loktanella fryxellensis sp. nov. and Loktanella vestfoldensis sp. nov., new members of the Rhodobacter group, isolated from microbial mats in Antarctic lakes. . Int J Syst Evol Microbiol 54, 1263–1269. [View Article] [PubMed]
    [Google Scholar]
28. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E. et al. ( 1987 ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37, 463–464. [View Article]
    [Google Scholar]
29. Weon H.-Y., Kim B.-Y., Yoo S.-H., Kim J.-S., Kwon S.-W., Go S.-J., Stackebrandt E. ( 2006 ). Loktanella koreensis sp. nov., isolated from sea sand in Korea. . Int J Syst Evol Microbiol 56, 2199–2202. [View Article] [PubMed]
    [Google Scholar]
30. Wilson K. ( 1987 ). Preparation of genomic DNA from bacteria. . In Current Protocols in Molecular Biology, pp. 2.4.1–2.4.5. Edited by Ausubel F. M., Brent R., Kingston R. E., Moore D. D., Seidman J. G., Smith J. A., Struhl K. . New York:: Green Publishing & Wiley-Interscience;.
    [Google Scholar]
31. Yoon J.-H., Kang S.-J., Lee S.-Y., Oh T.-K. ( 2007 ). Loktanella maricola sp. nov., isolated from seawater of the East Sea in Korea. . Int J Syst Evol Microbiol 57, 1799–1802. [View Article] [PubMed]
    [Google Scholar]
32. Yoon J.-H., Jung Y.-T., Lee J.-S. ( 2013 ). Loktanella litorea sp. nov., isolated from seawater. . Int J Syst Evol Microbiol 63, 175–180. [View Article] [PubMed]
    [Google Scholar]
33. Zwickl D., Holder M. ( 2004 ). Model parameterization, prior distributions, and the general time-reversible model in Bayesian phylogenetics. . Syst Biol 53, 877–888. [View Article] [PubMed]
    [Google Scholar]