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1. Nhung  PH, Shah  MM, Ohkusu  K, Noda  M, Hata  H, Sun  XS, Iihara  H, Goto  K, Masaki  T, Miyasaka  J, Ezaki  T,     ( 2007 )

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

Systematic and applied microbiology 30 (4)
PMID : 17207598  :   DOI  :   10.1016/j.syapm.2006.11.004    
Abstract >>
The utility of the dnaJ gene for identifying Vibrio species was investigated by analyzing dnaJ sequences of 57 type strains and 22 clinical strains and comparing sequence homologies with those of the 16S rDNA gene and other housekeeping genes (recA, rpoA, hsp60). Among the 57 Vibrio species, the mean sequence similarity of the dnaJ gene (77.9%) was significantly less than that of the 16S rDNA gene (97.2%), indicating a high discriminatory power of the dnaJ gene. Most Vibrio species were, therefore, differentiated well by dnaJ sequence analysis. Compared to other housekeeping genes, the dnaJ gene showed better resolution than recA or rpoA for differentiating Vibrio coralliilyticus from Vibrio neptunius and Vibrio harveyi from Vibrio rotiferianus. Among the clinical strains, all 22 human pathogenic strains, including an atypical strain, were correctly identified by the dnaJ sequence. Our findings suggest that analysis of the dnaJ gene sequence can be used as a new tool for the identification of Vibrio species.
KeywordMeSH Terms
Genes, Bacterial
HSP40 Heat-Shock Proteins
2. Thompson  FL, Gevers  D, Thompson  CC, Dawyndt  P, Naser  S, Hoste  B, Munn  CB, Swings  J,     ( 2005 )

Phylogeny and molecular identification of vibrios on the basis of multilocus sequence analysis.

Applied and environmental microbiology 71 (9)
PMID : 16151093  :   DOI  :   10.1128/AEM.71.9.5107-5115.2005     PMC  :   PMC1214639    
Abstract >>
We analyzed the usefulness of rpoA, recA, and pyrH gene sequences for the identification of vibrios. We sequenced fragments of these loci from a collection of 208 representative strains, including 192 well-documented Vibrionaceae strains and 16 presumptive Vibrio isolates associated with coral bleaching. In order to determine the intraspecies variation among the three loci, we included several representative strains per species. The phylogenetic trees constructed with the different genetic loci were roughly in agreement with former polyphasic taxonomic studies, including the 16S rRNA-based phylogeny of vibrios. The families Vibrionaceae, Photobacteriaceae, Enterovibrionaceae, and Salinivibrionaceae were all differentiated on the basis of each genetic locus. Each species clearly formed separated clusters with at least 98, 94, and 94% rpoA, recA, and pyrH gene sequence similarity, respectively. The genus Vibrio was heterogeneous and polyphyletic, with Vibrio fischeri, V. logei, and V. wodanis grouping closer to the Photobacterium genus. V. halioticoli-, V. harveyi-, V. splendidus-, and V. tubiashii-related species formed groups within the genus Vibrio. Overall, the three genetic loci were more discriminatory among species than were 16S rRNA sequences. In some cases, e.g., within the V. splendidus and V. tubiashii group, rpoA gene sequences were slightly less discriminatory than recA and pyrH sequences. In these cases, the combination of several loci will yield the most robust identification. We can conclude that strains of the same species will have at least 98, 94, and 94% rpoA, recA, and pyrH gene sequence similarity, respectively.
KeywordMeSH Terms
Bacterial Typing Techniques
Sequence Analysis, DNA

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