Paracoccus isoporae sp. nov., isolated from the reef-building coral isopora palifera

International Journal of Systematic and Evolutionary Microbiology

Volumn 61, Issue 5, 2011, Pages 1138-1143

  Chen, Ming Hui ^a   Sheu, Shih Yi ^a   Chen, Chaolun Allen ^b   Wang, Jih Terng ^c   Chen, Wen Ming ^a  

^a NATIONAL KAOHSIUNG UNIVERSITY OF APPLIED SCIENCES   (Taiwan)

^b BIODIVERSITY RESEARCH CENTER   (Taiwan)

^c TAJEN UNIVERSITY   (Taiwan)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; FATTY ACID; PHOSPHATIDYLCHOLINE; PHOSPHATIDYLGLYCEROL; QUINONE DERIVATIVE; RNA 16S;

AEROBIC BACTERIUM; ARTICLE; BACTERIAL CELL; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIUM COLONY; BACTERIUM ISOLATION; CHEMOTAXONOMY; CORAL REEF; DNA BASE COMPOSITION; FLAGELLUM; GENE SEQUENCE; GRAM NEGATIVE BACTERIUM; GRAM STAINING; LIPID ANALYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PARACOCCUS AESTUARII; PARACOCCUS DENITRIFICANS; PARACOCCUS HOMIENSIS; PARACOCCUS ISOPORAE; PARACOCCUS MARINUS; PARACOCCUS ZEAXANTHINIFACIENS; PHENOTYPIC VARIATION; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE HOMOLOGY; TAIWAN; TAXONOMY;

ANIMALS; ANTHOZOA; DNA, BACTERIAL; FATTY ACIDS; MOLECULAR SEQUENCE DATA; PARACOCCUS; PHYLOGENY; RNA, RIBOSOMAL, 16S; TAIWAN;

ANTHOZOA; BACTERIA (MICROORGANISMS); ISOPORA PALIFERA; PARACOCCUS (BACTERIUM); PARACOCCUS DENITRIFICANS; PARACOCCUS ZEAXANTHINIFACIENS;

EID: 79955876113     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.023333-0     Document Type: Article

References (38)

1. Berry, A., Janssens, D., Hümbelin, M., Jore, J. P. M., Hoste, B., Cleenwerck, I., Vancanneyt, M., Bretzel, W., Mayer, A. F. & other authors (2003). Paracoccus zeaxanthinifaciens sp. nov., a zeaxanthinproducing bacterium. Int J Syst Evol Microbiol 53, 231-238.
2. Chen, W. M., Laevens, S., Lee, T. M., Coenye, T., De Vos, P., Mergeay, M. & Vandamme, P. (2001). Ralstonia taiwanensis sp. nov., isolated from root nodules of Mimosa species and sputum of a cystic fibrosis patient. Int J Syst Evol Microbiol 51, 1729-1735.
3. 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.
4. Collins, M. D. (1985). Analysis of isoprenoid quinones. Methods Microbiol 18, 329-366.
5. Daneshvar, M. I., Hollis, D. G., Weyant, R. S., Steigerwalt, A. G., Whitney, A. M., Douglas, M. P., Macgregor, J. P., Jordan, J. G., Mayer, L. W. & other authors (2003). Paracoccus yeeii sp. nov. (formerly CDC group EO-2), a novel bacterial species associated with human infection. J Clin Microbiol 41, 1289-1294.
6. Davis, D. H., Doudoroff, M., Stanier, R. Y. & Mandel, M. (1969). Proposal to reject the genus Hydrogenomonas: taxonomic implications. Int J Syst Bacteriol 19, 375-390.
7. Deng, Z. S., Zhao, L. F., Xu, L., Kong, Z. Y., Zhao, P., Qin, W., Chang, J. L. & Wei, G. H. (2010). Paracoccus sphaerophysae sp. nov., a siderophore-producing, endophytic bacterium isolated from root nodules of Sphaerophysa salsula. Int J Syst Evol Microbiol 61, 665-669.
8. Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368-376.
9. Felsenstein, J. (1993). PHYLIP (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA
10. 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
11. Hall, T. A. (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41, 95-98.
12. Hosoya, S., Adachi, K. & Kasai, H. (2009). Thalassomonas actiniarum sp. nov. and Thalassomonas haliotis sp. nov., isolated from marine animals. Int J Syst Evol Microbiol 59, 686-690.
13. 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.
14. Katayama, Y., Hiraishi, A. & Kuraishi, H. (1995). Paracoccus thiocyanatus sp. nov., a new species of thiocyanate-utilizing facultative chemolithotroph, and transfer of Thiobacillus versutus to the genus Paracoccus as Paracoccus versutus comb. nov. with emendation of the genus. Microbiology 141, 1469-1477.
15. Khan, S. T., Takaichi, S. & Harayama, S. (2008). Paracoccus marinus sp. nov., an adonixanthin diglucoside-producing bacterium isolated from coastal seawater in Tokyo Bay. Int J Syst Evol Microbiol 58, 383-386
16. Kim, B. Y., Weon, H. Y., Yoo, S. H., Kwon, S. W., Cho, Y. H., Stackebrandt, E. & Go, S. J. (2006). Paracoccus homiensis sp. nov., isolated from a sea-sand sample. Int J Syst Evol Microbiol 56, 2387-2390
17. Kim, Y. O., Kong, H. J., Park, S., Kang, S. J., Kim, K. K., Moon, D. Y., Oh, T. K. & Yoon, J. H. (2010). Paracoccus fistulariae sp. nov., a lipolytic bacterium isolated from bluespotted cornetfish Fistularia commeronii. Int J Syst Evol Microbiol 60, 2908-2912.
18. Kimura, M. (1983). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press
19. Kluge, A. G. & Farris, F. S. (1969). Quantitative phyletics and the evolution of anurans. Syst Zool 18, 1-32.
20. Kumar, S., Tamura, K. & Nei, M. (2004). MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150-163.
21. La, H. J., Im, W.-T., Ten, L. N., Kang, M. S., Shin, D. Y. & Lee, S. T. (2005). Paracoccus koreensis sp. nov., isolated from anaerobic granules in an upflow anaerobic sludge blanket (UASB) reactor. Int J Syst Evol Microbiol 55, 1657-1660.
22. Lechevalier, M. P., de Bikvre, C. & Lechevalier, H. A. (1977). Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 5, 249-260.
23. Liu, X.-Y., Wang, B.-J., Jiang, C.-Y. & Liu, S.-J. (2006). Paracoccus sulfuroxidans sp. nov., a sulfur oxidizer from activated sludge. Int J Syst Evol Microbiol 56, 2693-2695.
24. Liu, Z.-P., Wang, B.-J., Liu, X.-Y., Dai, X., Liu, Y.-H. & Liu, S.-J. (2008). Paracoccus halophilus sp. nov., isolated from marine sediment of the South China Sea, China, and emended description of genus Paracoccus Davis 1969. Int J Syst Evol Microbiol 58, 257-261.
25. Lyman, J. & Fleming, R. H. (1940). Composition of sea water. J Mar Res 3, 134-146.
26. MacFaddin, J. F. (2000). Biochemical Tests for the Identification of Medical Bacteria, 3rd edn. Baltimore, MD: Williams & Wilkins
27. Maidak, B. L., Cole, J. R., Lilburn, T. G., Parker, C. T., Jr, Saxman, P. R., Farris, R. J., Garrity, G. M., Olsen, G. J., Schmidt, T. M. & Tiedje, J. M. (2001). The RDP-II (Ribosomal Database Project). Nucleic Acids Res 29, 173-174.
28. Mesbah, M., Premachandran, U. & Whitman, W. B. (1989). Precise measurement of the G+C content of deoxyribonucleic acid by highperformance liquid chromatography. Int J Syst Bacteriol 39, 159-167.
29. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, K. & Parlett, J. H. (1984). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233-241.
30. Nokhal, T. H. & Schlegel, H. G. (1983). Taxonomic study of Paracoccus denitrificans. Int J Syst Bacteriol 33, 26-37.
31. Powers, E. M. (1995). Efficacy of the Ryu nonstaining KOH technique for rapidly determining Gram reactions of food-borne and waterborne bacteria and yeasts. Appl Environ Microbiol 61, 3756-3758.
32. Roh, S. W., Nam, Y. D., Chang, H. W., Kim, K. H., Kim, M. S., Shin, K. S., Yoon, J. H., Oh, H. M. & Bae, J. W. (2009). Paracoccus aestuarii sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 59, 790-794.
33. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
34. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc
35. Siller, H., Rainey, F. A., Stackebrandt, E. & Winter, J. (1996). Isolation and characterization of a new Gram-negative, acetone-degrading, nitrate-reducing bacterium from soil, Paracoccus solventivorans sp. nov. Int J Syst Bacteriol 46, 1125-1130.
36. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. (1997). The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876-4882.
37. Tsubokura, A., Yoneda, H. & Mizuta, H. (1999). Paracoccus carotinifaciens sp. nov., a new aerobic Gram-negative astaxanthinproducing bacterium. Int J Syst Bacteriol 49, 277-282.
38. Wallet, F., Blondiaux, N., Foy, C. L., Loïez, C., Armand, S., Pagniez, D. & Courcol, R. J. (2010). Paracoccus yeei: a new unusual opportunistic bacterium in ambulatory peritoneal dialysis. Int J Infect Dis 14, e173-e174