Extended Bibliography: |
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Ref #: |
15405 |
Author(s): |
Yamamoto,S.;Bouvet,P.J.;Harayama,S. |
Journal: |
Int J Syst Bacteriol |
Title: |
Phylogenetic structures of the genus Acinetobacter based on gyrB sequences: comparison with the grouping by DNA-DNA hybridization |
Volume: |
49 Pt 1 |
Page(s): |
87-95 |
Year: |
1999 |
Keyword(s): |
GENBANK/AB008684
GENBANK/AB008685
GENBANK/AB008686
GENBANK/AB008687
GENBANK/AB008688
GENBANK/AB008689
GENBANK/AB008690
GENBANK/AB008691
GENBANK/AB008692
GENBANK/AB008693
GENBANK/AB008694
GENBANK/AB008695
GENBANK/AB008696
GENBANK/AB008697
GENBANK/AB008698
GENBANK/AB008699
GENBANK/AB008700
GENBANK/AB008701
GENBANK/AB008702
GENBANK/AB008703
GENBANK/AB008704
GENBANK/AB008705
GENBANK/AB008706
GENBANK/AB008707
GENBANK/AB008708
GENBANK/AB008709
GENBANK/AB008710
GENBANK/AB008711
GENBANK/AB008712
GENBANK/AB008713
Acinetobacter/*classification/genetics
Base Sequence
DNA Gyrase
DNA Topoisomerases, Type II/*genetics
DNA, Bacterial/*analysis
Molecular Sequence Data
*Nucleic Acid Hybridization
Phylogeny
RNA, Ribosomal, 16S/chemistry
|
Remarks: |
The phylogenetic relationships of 49 Acinetobacter strains, 46 of which have previously been classified into 18 genomic species by DNA-DNA hybridization studies, were investigated using the nucleotide sequence of gyrB, the structural gene for the DNA gyrase B subunit. The phylogenetic tree showed linkages between genomic species 1 (Acinetobacter calcoaceticus), 2 (Acinetobacter baumannii), 3 and TU13; genomic species 6, BJ15, BJ16 and BJ17; genomic species 5, BJ13 (synonym of TU14) and BJ14; genomic species 7 (Acinetobacter johnsonii), 10 and 11; and genomic species 8 and 9. The phylogenetic grouping of Acinetobacter strains based on gyrB genes was almost congruent with that based on DNA-DNA hybridization studies. Consequently, gyrB sequence comparison can be used to resolve the taxonomic positions of bacterial strains at the level of genomic species. However, minor discrepancies existed in the grouping of strains of genomic species 8, 9 and BJ17. The phylogenetic tree for these strains was reconstructed from the sequence of rpoD, the structural gene for the RNA polymerase sigma 70 factor. The latter tree was 100% congruent with the grouping based on DNA-DNA hybridization. The reliability of DNA-DNA hybridization may be superior to that of sequence comparison of a single protein-encoding gene in resolving closely related organisms since the former method measures the homologies between the nucleotide sequences of total genomic DNAs. Three strains that have not been characterized previously by DNA-DNA hybridization seem to belong to two new genomic species, one including strain ATCC 33308 and the other including strains ATCC 31012 and MBIC 1332. |
URL: |
10028249 |
|
Ref #: |
15314 |
Author(s): |
Ibrahim,A.;Gerner-Smidt,P.;Liesack,W. |
Journal: |
Int J Syst Bacteriol |
Title: |
Phylogenetic relationship of the twenty-one DNA groups of the genus Acinetobacter as revealed by 16S ribosomal DNA sequence analysis |
Volume: |
47 |
Page(s): |
837-41 |
Year: |
1997 |
Keyword(s): |
GENBANK/Z93434
GENBANK/Z93435
GENBANK/Z93436
GENBANK/Z93437
GENBANK/Z93438
GENBANK/Z93439
GENBANK/Z93440
GENBANK/Z93441
GENBANK/Z93442
GENBANK/Z93443
GENBANK/Z93444
GENBANK/Z93445
GENBANK/Z93446
GENBANK/Z93447
GENBANK/Z93448
GENBANK/Z93449
GENBANK/Z93450
GENBANK/Z93451
GENBANK/Z93452
GENBANK/Z93453
GENBANK/Z93454
Acinetobacter/*classification/*genetics
DNA Primers
DNA, Bacterial/analysis
DNA, Ribosomal/*analysis
Molecular Sequence Data
Nucleic Acid Hybridization
*Phylogeny
Polymerase Chain Reaction
Sequence Analysis, DNA
|
Remarks: |
The inter- and intrageneric relationships of members of the genus Acinetobacter were investigated by performing a comparative sequence analysis of PCR-amplified 16S ribosomal DNAs (rDNAs) from 21 strains representing all of the DNA groups that have been described. Phylogenetic treeing confirmed that Acinetobacter spp. form a coherent cluster within the gamma subdivision of the class Proteobacteria that includes strains with overall levels of 16S rDNA sequence similarity of more than 94%. The analysis of intrageneric relationships suggested that the majority of the strains cluster in five clearly distinguishable clusters, and this conclusion was supported by the results obtained with the different methods used for phylogenetic analysis (i.e., the maximum-likelihood, parsimony, and distance matrix methods). The first cluster contains the representatives of DNA groups 2 (Acinetobacter baumannii) and TU13, whereas the second cluster comprises representatives of DNA groups 3, "Close To TU13," and "between 1 and 3." The representatives of closely related Acinetobacter DNA groups 8 (Acinetobacter twoffii) and 9 belong to the third cluster, which includes the representative of DNA group 6 as well. The fourth cluster is formed by DNA groups BJ15, BJ16, and BJ17, and the fifth cluster comprises DNA groups 1 (Acinetobacter calcoaceticus), BJ14, 10, and 11. Within the fifth cluster the 16S rDNA sequences of DNA group 10 and 11 strains are nearly identical. The representatives of DNA groups 4 (Acinetobacter haemolyticus), 5 (Acinetobacter junii), 7 (Acinetobacter johnsonii), 12 (Acinetobacter radioresistens), TU14, and TU15 form individual branches that are not significantly affiliated with any of the five clusters identified. Apart from the clustering of the most closely related DNA groups, the general topology of the distance dendrogram revealed some discrepancy with previous DNA-DNA hybridization data, which may point to the inadequacy of comparative 16S rDNA sequence analysis for reflecting true evolutionary relationships of closely related bacterial taxa. Important, however, was the presence of unique sequence motifs in each of the 21 different DNA groups studied, which may be useful for rapid differentiation of DNA groups of the genus Acinetobacter. |
URL: |
9226915 |
|
Ref #: |
11979 |
Author(s): |
Ibrahim,A.;Gerner-Smidt,P.;Liesack,W. |
Journal: |
Int J Syst Bacteriol |
Title: |
Phylogenetic relationship of the twenty-one DNA groups of the genus Acinetobacter as revealed by 16S ribosomal DNA sequence analysis |
Volume: |
47 |
Page(s): |
837-41 |
Year: |
1997 |
Keyword(s): |
GENBANK/Z93434
GENBANK/Z93435
GENBANK/Z93436
GENBANK/Z93437
GENBANK/Z93438
GENBANK/Z93439
GENBANK/Z93440
GENBANK/Z93441
GENBANK/Z93442
GENBANK/Z93443
GENBANK/Z93444
GENBANK/Z93445
GENBANK/Z93446
GENBANK/Z93447
GENBANK/Z93448
GENBANK/Z93449
GENBANK/Z93450
GENBANK/Z93451
GENBANK/Z93452
GENBANK/Z93453
GENBANK/Z93454
Acinetobacter/*classification/*genetics
DNA Primers
DNA, Bacterial/analysis
DNA, Ribosomal/*analysis
Molecular Sequence Data
Nucleic Acid Hybridization
*Phylogeny
Polymerase Chain Reaction
Sequence Analysis, DNA
|
Remarks: |
The inter- and intrageneric relationships of members of the genus Acinetobacter were investigated by performing a comparative sequence analysis of PCR-amplified 16S ribosomal DNAs (rDNAs) from 21 strains representing all of the DNA groups that have been described. Phylogenetic treeing confirmed that Acinetobacter spp. form a coherent cluster within the gamma subdivision of the class Proteobacteria that includes strains with overall levels of 16S rDNA sequence similarity of more than 94%. The analysis of intrageneric relationships suggested that the majority of the strains cluster in five clearly distinguishable clusters, and this conclusion was supported by the results obtained with the different methods used for phylogenetic analysis (i.e., the maximum-likelihood, parsimony, and distance matrix methods). The first cluster contains the representatives of DNA groups 2 (Acinetobacter baumannii) and TU13, whereas the second cluster comprises representatives of DNA groups 3, "Close To TU13," and "between 1 and 3." The representatives of closely related Acinetobacter DNA groups 8 (Acinetobacter twoffii) and 9 belong to the third cluster, which includes the representative of DNA group 6 as well. The fourth cluster is formed by DNA groups BJ15, BJ16, and BJ17, and the fifth cluster comprises DNA groups 1 (Acinetobacter calcoaceticus), BJ14, 10, and 11. Within the fifth cluster the 16S rDNA sequences of DNA group 10 and 11 strains are nearly identical. The representatives of DNA groups 4 (Acinetobacter haemolyticus), 5 (Acinetobacter junii), 7 (Acinetobacter johnsonii), 12 (Acinetobacter radioresistens), TU14, and TU15 form individual branches that are not significantly affiliated with any of the five clusters identified. Apart from the clustering of the most closely related DNA groups, the general topology of the distance dendrogram revealed some discrepancy with previous DNA-DNA hybridization data, which may point to the inadequacy of comparative 16S rDNA sequence analysis for reflecting true evolutionary relationships of closely related bacterial taxa. Important, however, was the presence of unique sequence motifs in each of the 21 different DNA groups studied, which may be useful for rapid differentiation of DNA groups of the genus Acinetobacter. |
URL: |
97370609 |
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