Actibacter sediminis gen. nov., sp. nov. , a marine bacterium of the family Flavobacteriaceae isolated from tidal flat sediment

International Journal of Systematic and Evolutionary Microbiology

Volumn 58, Issue 1, 2008, Pages 139-143

  Kim, Ju Hyoung ^a   Kim, Ki Youn ^a   Hahm, Young Tae ^a   Kim, Bong Soo ^b   Chun, Jongsik ^b   Cha, Chang Ju ^a  

^a Chung Ang University   (South Korea)

^b Seoul National University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; CYTOSINE; FATTY ACID; GUANINE; QUINONE DERIVATIVE; RNA 16S; SEA WATER;

ACTIBACTER SEDIMINIS; AEROBIC BACTERIUM; ARTICLE; BACTERIAL CELL; BACTERIAL STRAIN; BACTERIUM ISOLATE; BACTERIUM ISOLATION; DNA CONTENT; FLAVOBACTERIACEAE; MARINE BACTERIUM; NEW GENUS; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; POLIBACTER DOKDONENSIS; PRIORITY JOURNAL; RNA SEQUENCE; SEDIMENT; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SOUTH KOREA; TAXONOMY; BACTERIUM IDENTIFICATION; CHEMISTRY; CLASSIFICATION; DNA BASE COMPOSITION; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; PHYLOGENY; RNA GENE; SPECIES DIFFERENCE;

BACTERIA (MICROORGANISMS); FLAVOBACTERIACEAE; NEGIBACTERIA; POLARIBACTER DOKDONENSIS;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; FATTY ACIDS; FLAVOBACTERIACEAE; GENES, RRNA; GEOLOGIC SEDIMENTS; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEAWATER; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY;

EID: 40449129856     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.65346-0     Document Type: Article

References (25)

1. Bernardet, J. F., Nakagawa, Y. & Holmes, B. (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.
2. Choi, D. H. & Cho, B. C. (2006). Lutibacter litoralis gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from tidal flat sediment. Int J Syst Evol Microbiol 36, 771-776.
3. Choi, D. H., Kim, Y. G., Hwang, C. Y., Yi, H., Chun, J. & Cho, B. C. (2006). Tenacibaculum litoreum sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 56, 635-640.
4. Chun, J., Lee, J.-H., Jung, Y., Kim, M., Kim, S., Kim, B. K. & Lim, Y. W. (2007), EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57, 2259-2261.
5. Collins, M. D. (1985). Analysis of isoprenoid quinones. Methods Microbiol 18, 329-366.
6. Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
7. Felsenstein, J. (2005). PHYLIP (phylogeny inference package), version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
8. Frette, L, Jørgensen, N. O. G., Irming, H. & Kroer, N. (2004). Tenacibaculum skagerrakense sp. nov., a marine bacterium isolated from the pelagic zone in Skagerrak, Denmark. Int J Syst Evol Microbiol 54, 519-524.
9. Gosink, J. J., Woese, C. R. & Staley, J. T. (1998). Polaribacter gen. nov., with three new species, P. irgensii sp. nov., P. franzmannii sp. nov. and'P. filamentus sp. nov., gas vacuolate polar marine bacteria of the Cytophaga-Flavobacterium-Bacteroides group and reclassification of 'Flec obacillus glomeratus' as Polaribacter glomeratus comb. nov. Int J Syst Bacteriol 48, 223-235.
10. Hsu, S. C. & Lockwood, J. L. (1975). Powdered chitin agar as a selective medium for enumeration of actinomycetes in water and soil. Appl Microbiol 29, 422-426.
11. Jeon, Y.-S., Chung, H., Park, S., Hur, I., Lee, J.-H. & Chun, J. (2005). jPHYDIT: a JAVA-based integrated environment for molecular phylogeny of ribosomal RNA sequences. Bioinformatics 21, 3171-3173.
12. Jukes, T. H. & Cantor, C. R. (1969). Evolution of protein molecules. In Mammalian Protein Metabolism, vol. 3, pp. 21-132. Edited by H. N. Munro. New York: Academic Press.
13. Kim, S. S., Oh, H. M., Kang, H., Park S. S. & Chun, J. (2004). Remarkable bacterial diversity in the tidal flat sediment as revealed by 16S rDNA analysis. J Microbiol Biotechnol 14, 205-211.
14. Kim, B. S., Oh, H. M., Kang, H. & Chun, J. (2005). Archaeal diversity in tidal flat sediment as revealed by 16S rDNA analysis. J Microbiol 43, 144-151.
15. Kumar, S., Tamura, K. & Nei, M. (2004). MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150-163.
16. Lane, D. J. (1991). 16S/23S rRNA sequencing. In Nucleic Acid Techniques in Bacterial Systematics, pp. 115-175. Edited by E. Stackebrandt & M. Goodfellow. Chichester: Wiley.
17. Lyman, J. & Fleming, R. H. (1940). Composition of sea water. J Mar Res 3, 134-146.
18. 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.
19. 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.
20. Saitou, N. & Nel, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
21. Smibert, R. M. & Krieg, N. R. (1994). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607-654. Washington, DC: American Society for Microbiology.
22. Suzuki, M., Nakagawa, Y., Harayama, S. & Yamamoto, S. (2001). Phylogenetic analysis and taxonomic study of marine Cytophaga-like bacteria: proposal for Tenacibaculum gen. nov. with Tenacibaculum maritimum comb. nov. and Tenacibaculum ovolyticum comb. nov., and description of Tenacibaculum mesophilum sp. nov. and Tenacibaculum amylolyticum sp. nov. Int J Syst Evol Microbiol 51, 1639-1652.
23. Weeks, O. B. (1981). Preliminary studies of the pigments of Flavobacterium breve NCTC 11099 and Flavobacterium odoratum NCTC 11036. In The Flavobacterium - Cytophaga Group, pp. 108-114. Edited by O. B. Weeks. Weinheim: Gesellschaft für Biotechnologische Forschung.
24. Yi, H. & Chun, J. (2006). Thalassobius aestuarii sp. nov., isolated from tidal flat sediment. J Microbiol 44, 171-176.
25. Yoon, J.-H., Kang, S.-J. & Oh, T.-K. (2005). Tenacibaculum lutimaris sp. nov., isolated from a tidal flat in the Yellow Sea, Korea. Int J Syst Evol Microbiol 55, 793-798.