Extended Bibliography: |
Show bibliography
Ref #: |
93196 |
Author(s): |
Ruimy,R.;Breittmayer,V.;Elbaze,P.;Lafay,B.;Boussemart,O.;Gauthier,M.;Christen,R. |
Journal: |
Int J Syst Bacteriol |
Title: |
Phylogenetic analysis and assessment of the genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas deduced from small-subunit rRNA sequences |
Volume: |
44 |
Page(s): |
416-26 |
Year: |
1994 |
Keyword(s): |
GENBANK/X74674
GENBANK/X74675
GENBANK/X74676
GENBANK/X74677
GENBANK/X74678
GENBANK/X74679
GENBANK/X74680
GENBANK/X74681
GENBANK/X74682
GENBANK/X74683
GENBANK/X74684
GENBANK/X74685
GENBANK/X74686
GENBANK/X74687
GENBANK/X74688
GENBANK/X74689
GENBANK/X74690
GENBANK/X74691
GENBANK/X74692
GENBANK/X74693
GENBANK/X74694
GENBANK/X74695
GENBANK/X74696
GENBANK/X74697
GENBANK/X74698
GENBANK/X74699
GENBANK/X74700
GENBANK/X74701
GENBANK/X74702
GENBANK/X74703
Aeromonas/classification/genetics
Photobacterium/classification/genetics
*Phylogeny
Plesiomonas/classification/genetics
RNA, Bacterial/*genetics
RNA, Ribosomal/*genetics
Sequence Homology, Nucleic Acid
Species Specificity
Vibrio/classification/genetics
Vibrionaceae/*classification/*genetics
|
Remarks: |
We sequenced nearly complete small-subunit rRNAs of 54 reference strains belonging to the genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas. We then performed a phylogenetic analysis by comparing the sequences which we obtained with all other known sequences for bacteria belonging to the gamma subgroup of the Proteobacteria (thus providing a data base consisting of 70 sequences for the genera investigated), using methods such as neighbor joining, maximum likelihood, and maximum parsimony, as well as bootstrap, to assess the robustness of each topology. Our results confirmed that the family Vibrionaceae should include only Photobacterium and Vibrio species (but not Vibrio marinus); that Aeromonas species deserve family rank; and that Plesiomonas shigelloides is linked to the family Enterobacteriaceae. The genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas, together with the family Enterobacteriaceae, the family Pasteurellaceae, and probably the genus Alteromonas, form a robust monophyletic unit within the gamma 3 subgroup of the Proteobacteria. |
URL: |
7520733 |
|
Ref #: |
93293 |
Author(s): |
Chun,J.;Huq,A.;Colwell,R.R. |
Journal: |
Appl Environ Microbiol |
Title: |
Analysis of 16S-23S rRNA intergenic spacer regions of Vibrio cholerae and Vibrio mimicus |
Volume: |
65 |
Page(s): |
2202-8 |
Year: |
1999 |
Keyword(s): |
GENBANK/AF114721
GENBANK/AF114722
GENBANK/AF114723
GENBANK/AF114724
GENBANK/AF114725
GENBANK/AF114726
GENBANK/AF114727
GENBANK/AF114728
GENBANK/AF114729
GENBANK/AF114730
GENBANK/AF114731
GENBANK/AF114732
GENBANK/AF114733
GENBANK/AF114734
GENBANK/AF114735
GENBANK/AF114736
GENBANK/AF114737
GENBANK/AF114738
GENBANK/AF114739
GENBANK/AF114740
GENBANK/AF114741
GENBANK/AF114742
GENBANK/AF114743
GENBANK/AF114744
GENBANK/AF114745
GENBANK/AF114746
GENBANK/AF114747
GENBANK/AF114748
GENBANK/AF114749
Base Sequence
DNA Primers/genetics
Genes, Bacterial
Molecular Sequence Data
Phylogeny
Polymerase Chain Reaction
RNA, Bacterial/*genetics
RNA, Ribosomal, 16S/*genetics
RNA, Ribosomal, 23S/*genetics
Sequence Homology, Nucleic Acid
Species Specificity
Vibrio/classification/*genetics
Vibrio cholerae/classification/*genetics
|
Remarks: |
Vibrio cholerae identification based on molecular sequence data has been hampered by a lack of sequence variation from the closely related Vibrio mimicus. The two species share many genes coding for proteins, such as ctxAB, and show almost identical 16S DNA coding for rRNA (rDNA) sequences. Primers targeting conserved sequences flanking the 3' end of the 16S and the 5' end of the 23S rDNAs were used to amplify the 16S-23S rRNA intergenic spacer regions of V. cholerae and V. mimicus. Two major (ca. 580 and 500 bp) and one minor (ca. 750 bp) amplicons were consistently generated for both species, and their sequences were determined. The largest fragment contains three tRNA genes (tDNAs) coding for tRNAGlu, tRNALys, and tRNAVal, which has not previously been found in bacteria examined to date. The 580-bp amplicon contained tDNAIle and tDNAAla, whereas the 500-bp fragment had single tDNA coding either tRNAGlu or tRNAAla. Little variation, i.e., 0 to 0.4%, was found among V. cholerae O1 classical, O1 El Tor, and O139 epidemic strains. Slightly more variation was found against the non-O1/non-O139 serotypes (ca. 1% difference) and V. mimicus (2 to 3% difference). A pair of oligonucleotide primers were designed, based on the region differentiating all of V. cholerae strains from V. mimicus. The PCR system developed was subsequently evaluated by using representatives of V. cholerae from environmental and clinical sources, and of other taxa, including V. mimicus. This study provides the first molecular tool for identifying the species V. cholerae. |
URL: |
10224020 |
|
Ref #: |
12044 |
Author(s): |
Ruimy,R.;Breittmayer,V.;Elbaze,P.;Lafay,B.;Boussemart,O.;Gauthier,M.;Christen,R. |
Journal: |
Int J Syst Bacteriol |
Title: |
Phylogenetic analysis and assessment of the genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas deduced from small-subunit rRNA sequences |
Volume: |
44 |
Page(s): |
416-26 |
Year: |
1994 |
Keyword(s): |
GENBANK/X74674
GENBANK/X74675
GENBANK/X74676
GENBANK/X74677
GENBANK/X74678
GENBANK/X74679
GENBANK/X74680
GENBANK/X74681
GENBANK/X74682
GENBANK/X74683
GENBANK/X74684
GENBANK/X74685
GENBANK/X74686
GENBANK/X74687
GENBANK/X74688
GENBANK/X74689
GENBANK/X74690
GENBANK/X74691
GENBANK/X74692
GENBANK/X74693
GENBANK/X74694
GENBANK/X74695
GENBANK/X74696
GENBANK/X74697
GENBANK/X74698
GENBANK/X74699
GENBANK/X74700
GENBANK/X74701
GENBANK/X74702
GENBANK/X74703
Aeromonas/classification/genetics
Comparative Study
Photobacterium/classification/genetics
*Phylogeny
Plesiomonas/classification/genetics
RNA, Bacterial/*genetics
RNA, Ribosomal/*genetics
Sequence Homology, Nucleic Acid
Species Specificity
Support, Non-U.S. Gov't
Vibrio/classification/genetics
Vibrionaceae/*classification/*genetics
|
Remarks: |
We sequenced nearly complete small-subunit rRNAs of 54 reference strains belonging to the genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas. We then performed a phylogenetic analysis by comparing the sequences which we obtained with all other known sequences for bacteria belonging to the gamma subgroup of the Proteobacteria (thus providing a data base consisting of 70 sequences for the genera investigated), using methods such as neighbor joining, maximum likelihood, and maximum parsimony, as well as bootstrap, to assess the robustness of each topology. Our results confirmed that the family Vibrionaceae should include only Photobacterium and Vibrio species (but not Vibrio marinus); that Aeromonas species deserve family rank; and that Plesiomonas shigelloides is linked to the family Enterobacteriaceae. The genera Vibrio, Photobacterium, Aeromonas, and Plesiomonas, together with the family Enterobacteriaceae, the family Pasteurellaceae, and probably the genus Alteromonas, form a robust monophyletic unit within the gamma 3 subgroup of the Proteobacteria. |
URL: |
94347604 |
|
Ref #: |
13616 |
Author(s): |
Chun,J.;Huq,A.;Colwell,R.R. |
Journal: |
Appl Environ Microbiol |
Title: |
Analysis of 16S-23S rRNA intergenic spacer regions of Vibrio cholerae and Vibrio mimicus |
Volume: |
65 |
Page(s): |
2202-8 |
Year: |
1999 |
Keyword(s): |
GENBANK/AF114721
GENBANK/AF114722
GENBANK/AF114723
GENBANK/AF114724
GENBANK/AF114725
GENBANK/AF114726
GENBANK/AF114727
GENBANK/AF114728
GENBANK/AF114729
GENBANK/AF114730
GENBANK/AF114731
GENBANK/AF114732
GENBANK/AF114733
GENBANK/AF114734
GENBANK/AF114735
GENBANK/AF114736
GENBANK/AF114737
GENBANK/AF114738
GENBANK/AF114739
GENBANK/AF114740
GENBANK/AF114741
GENBANK/AF114742
GENBANK/AF114743
GENBANK/AF114744
GENBANK/AF114745
GENBANK/AF114746
GENBANK/AF114747
GENBANK/AF114748
GENBANK/AF114749
Base Sequence
Comparative Study
DNA Primers/genetics
Genes, Bacterial
Molecular Sequence Data
Phylogeny
Polymerase Chain Reaction
RNA, Bacterial/*genetics
RNA, Ribosomal, 16S/*genetics
RNA, Ribosomal, 23S/*genetics
Sequence Homology, Nucleic Acid
Species Specificity
Support, U.S. Gov't, Non-P.H.S.
Support, U.S. Gov't, P.H.S.
Vibrio/classification/*genetics
Vibrio cholerae/classification/*genetics
|
Remarks: |
Vibrio cholerae identification based on molecular sequence data has been hampered by a lack of sequence variation from the closely related Vibrio mimicus. The two species share many genes coding for proteins, such as ctxAB, and show almost identical 16S DNA coding for rRNA (rDNA) sequences. Primers targeting conserved sequences flanking the 3' end of the 16S and the 5' end of the 23S rDNAs were used to amplify the 16S-23S rRNA intergenic spacer regions of V. cholerae and V. mimicus. Two major (ca. 580 and 500 bp) and one minor (ca. 750 bp) amplicons were consistently generated for both species, and their sequences were determined. The largest fragment contains three tRNA genes (tDNAs) coding for tRNAGlu, tRNALys, and tRNAVal, which has not previously been found in bacteria examined to date. The 580-bp amplicon contained tDNAIle and tDNAAla, whereas the 500-bp fragment had single tDNA coding either tRNAGlu or tRNAAla. Little variation, i.e., 0 to 0.4%, was found among V. cholerae O1 classical, O1 El Tor, and O139 epidemic strains. Slightly more variation was found against the non-O1/non-O139 serotypes (ca. 1% difference) and V. mimicus (2 to 3% difference). A pair of oligonucleotide primers were designed, based on the region differentiating all of V. cholerae strains from V. mimicus. The PCR system developed was subsequently evaluated by using representatives of V. cholerae from environmental and clinical sources, and of other taxa, including V. mimicus. This study provides the first molecular tool for identifying the species V. cholerae. |
URL: |
99240450 |
|
|