The dnaJ gene as a novel phylogenetic marker for identification of Vibrio species

Systematic and Applied Microbiology

Volumn 30, Issue 4, 2007, Pages 309-315

  Nhung, Pham Hong ^a   Shah, Mohammad Monir ^a   Ohkusu, Kiyofumi ^a   Noda, Makiko ^a   Hata, Hiroyuki ^a   Sun, Xiao Song ^a   Iihara, Hirotoshi ^a   Goto, Keiichi ^b   Masaki, Takayuki ^c   Miyasaka, Jiro ^d   Ezaki, Takayuki ^a  

^a GIFU UNIVERSITY GRADUATE SCHOOL OF MEDICINE   (Japan)

^b Food Research Laboratories Mitsui Norin Co Ltd ^*  (Japan)

^c Chemo Sero Therapeutic Research Institute   (Japan)

^d Kumamoto Prefectural Institute of Public Health and Environmental Science   (Japan)

Author keywords

dnaJ; Identification; Vibrio

Indexed keywords

HEAT SHOCK PROTEIN 60; PROTEIN DNAJ; RECA PROTEIN; RNA 16S;

ARTICLE; BACTERIUM IDENTIFICATION; CONTROLLED STUDY; GENE SEQUENCE; HOUSEKEEPING GENE; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES DIFFERENTIATION; SPECIES IDENTIFICATION; UNINDEXED SEQUENCE; VIBRIO; VIBRIO CORALLIILYTICUS; VIBRIO HARVEYI; VIBRIO NEPTUNIUS; VIBRIO ROTIFERIANUS;

VIBRIO; VIBRIO CORALLIILYTICUS; VIBRIO HARVEYI; VIBRIO NEPTUNIUS; VIBRIO ROTIFERIANUS;

EID: 34248332609     PISSN: 07232020     EISSN: 16180984     Source Type: Journal    
DOI: 10.1016/j.syapm.2006.11.004     Document Type: Article

References (29)

1. Ang D., Liberek K., Skowyra D., Zylicz M., and Georgopoulos C. Biological role and regulation of universally conserved heat shock proteins. J. Biol. Chem. 266 (1991) 24233-24236
2. Bustard K., and Gupta R.S. The sequences of heat shock protein 40 (DnaJ) homologs provide evidence for a close evolutionary relationship between the Deinococcus-Thermus group and cyanobacteria. J. Mol. Evol. 45 (1997) 193-205
3. Chun J., Huq A., and Colwell R.R. Analysis of 16S-23S rRNA intergenic spacer regions of Vibrio cholerae and Vibrio mimicus. Appl. Environ. Microbiol. 65 (1999) 2202-2208
4. Daniels N.A., and Shafaie A. A review of pathogenic Vibrio infections for clinicians. Infect. Med. 17 (2000) 665-685
5. Desmarchelier P.M., and Reichelt J.L. A phenotypic and genetic study of sucrose nonfermentating strains of Vibrio mimicus and Vibrio cholerae. Curr. Microbiol. 10 (1984) 41-47
6. Gomez-Gil B., Thompson F.L., Thompson C.C., and Swings J. Vibrio rotiferianus sp. nov., isolated from cultures of the rotifer Brachionus plicatilis. Int. J. Syst. Evol. Microbiol. 53 (2003) 239-243
7. Itoh Y., Kawamura Y., Kasai H., Shah M.M., Nhung P.H., Yamada M., Sun X., Koyana T., Hayashi M., Ohkusu K., and Ezaki T. dnaJ and gyrB gene sequence relationship among species and strains of genus Streptococcus. Syst. Appl. Microbiol. 29 (2006) 368-374
8. Kelly M.T., Hickman-Brenner F.W., and Farmer J.J. Vibrio. In: Balows A., Hausler Jr. W.J., Herrmann K.L., Isenberg H.D., and Shadomy H.J. (Eds). Manual of Clinical Microbiology. fifth ed (1991), American Society for Microbiology, Washington, DC 384-395
9. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16 (1980) 111-120
10. Kumar S., Tamura K., and Nei M. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform. 5 (2004) 150-163
11. Kwok A.Y., Wilson J.T., Coulthart M., Ng L.K., Mutharia L., and Chow A.W. Phylogenetic study and identification of human pathogenic Vibrio species based on partial hsp60 gene sequences. Can. J. Microbiol. 48 (2002) 903-910
12. Liu H., Li Y., Huang X., Kawamura Y., and Ezaki T. Use of the dnaJ gene for the detection and identification of all Legionella pneumophila serogroups and description of the primers used to detect 16S rDNA gene sequences of major members of the genus Legionella. Microbiol. Immunol. 47 (2003) 859-869
13. Macián M.C., Garay E., Grimont P.A., and Pujalte M.J. Vibrio ponticus sp. nov., a neighbour of V. fluvialis-V. furnissii clade, isolated from gilthead sea bream, mussels and seawater. Syst. Appl. Microbiol. 27 (2004) 535-540
14. Nishiguchi M.K., and Nair V.S. Evolution of symbiosis in the Vibrionaceae: a combined approach using molecules and physiology. Int. J. Syst. Evol. Microbiol. 53 (2003) 2019-2026
15. Oliver J.D., and Kaper J.B. Vibrio species. In: Doyle M.P., Beuchat L.R., and Montville T.J. (Eds). Food Microbiology Fundamentals and Frontiers. second ed (2001), ASM Press, Washington, DC 263-300
16. Perrière G., and Gouy M. WWW-query: an on-line retrieval system for biological sequence banks. Biochimie 78 (1996) 364-369
17. Le Roux F., Gay M., Lambert C., Nicolas J.L., Gouy M., and Berthe F. Phylogenetic study and identification of Vibrio splendidus-related strains based on gyrB gene sequences. Dis. Aquat. Org. 58 (2004) 143-150
18. Le Roux F., Goubet A., Thompson F.L., Faury N., Gay M., Swings J., and Saulnier D. Vibrio gigantis sp. nov., isolated from the haemolymph of cultured oysters (Crassostrea gigas). Int. J. Syst. Evol. Microbiol. 55 (2005) 2251-2255
19. Saitou N., and Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4 (1987) 406-425
20. Stackebrandt E., Frederiksen W., Garrity G.M., Grimont P.A., Kämpfer P., Maiden M.C., Nesme X., Rosselló-Mora R., Swings J., Trüper H.G., Vauterin L., Ward A.C., and Whitman W.B. Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int. J. Syst. Evol. Microbiol. 52 (2002) 1043-1047
21. Takewaki S., Okuzumi K., Manabe I., Tanimura M., Miyamura K., Nakahara K., Yazaki Y., Ohkubo A., and Nagai R. Nucleotide sequence comparison of the mycobacterial dnaJ gene and PCR-restriction fragment length polymorphism analysis for identification of mycobacterial species. Int. J. Syst. Bacteriol. 44 (1994) 159-166
22. Thompson C.C., Thompson F.L., Vandemeulebroecke K., Hoste B., Dawyndt P., and Swings J. Use of recA as an alternative phylogenetic marker in the family Vibrionaceae. Int. J. Syst. Evol. Microbiol. 54 (2004) 919-924
23. Thompson J.D., Higgins D.G., and Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22 (1994) 4673-4680
24. Thompson F.L., Hoste B., Thompson C.C., Goris J., Gomez-Gil B., Huys L., De Vos P., and Swings J. Enterovibrio norvegicus gen. nov., sp. nov., isolated from the gut of turbot (Scophthalmus maximus) larvae: a new member of the family Vibrionaceae. Int. J. Syst. Evol. Microbiol. 52 (2002) 2015-2022
25. Thompson F.L., Thompson C.C., Vicente A.C., Theophilo G.N., Hofer E., and Swings J. Genomic diversity of clinical and environmental Vibrio cholerae strains isolated in Brazil between 1991 and 2001 as revealed by fluorescent amplified fragment length polymorphism analysis. J. Clin. Microbiol. 41 (2003) 1946-1950
26. Thompson F.L., Hoste B., Vandemeulebroecke K., and Swings J. Reclassification of Vibrio hollisae as Grimontia hollisae gen. nov., comb. nov. Int. J. Syst. Evol. Microbiol. 53 (2003) 1615-1617
27. Thompson F.L., Iida T., and Swings J. Biodiversity of vibrios. Microbiol. Mol. Biol. Rev. 68 (2004) 403-431
28. Thompson F.L., Gevers D., Thompson C.C., Dawyndt P., Naser S., Hoste B., Munn C.B., and Swings J. Phylogeny and molecular identification of vibrios on the basis of multilocus sequence analysis. Appl. Environ. Microbiol. 71 (2005) 5107-5115
29. Vieira V.V., Teixeira L.F., Vicente A.C., Momen H., and Salles C.A. Differentiation of environmental and clinical isolates of Vibrio mimicus from Vibrio cholerae by multilocus enzyme electrophoresis. Appl. Environ. Microbiol. 67 (2001) 2236-2364