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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 48, Issue 3

Phylogenetic relationships of strains deduced from the nucleotide sequences of and 16S rRNA genes Free

Abstract

Phylogenetic analysis of 20 strains ( and ) was conducted by using the nucleotide sequences of the genes for 16S rRNA, DNA gyrase B subunit () and RNA polymerase σfactor (), which have been determined by the direct sequencing of PCR-amplified fragments. On the basis of and sequences, these strains were split into two major clusters: one including the type strain of and all biovar A strains and the other including all biovar B strains, strains and the strain. In the phylogenetic tree reconstructed from the 16S rRNA sequences including variable regions, biovar A and B strains were not separated into two independent clusters, whereas in the phylogenetic tree reconstructed from the 16S rRNA sequences excluding the variable region sequences, these strains were separated into biovar A and biovar B clusters. The pairwise distances estimated from the variable regions of 16S rRNA correlated poorly with the synonymous distances estimated from the and genes. On the other hand, a highly significant correlation was observed between the pairwise distances estimated from the non-variable regions of 16S rRNA and the synonymous distances from and genes. Consequently, only the 16S rRNA sequences in the non-variable regions should be used for the phylogenetic analysis. The and analyses showed the necessity for the reclassification of biovar B strains.

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Keyword(s): 16S rRNA , gyrB , PCR , Pseudomonas and rpoD
© Society for General Microbiology, 1998
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1998-07-01
2024-04-25
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Phylogenetic relationships of Pseudomonas putida strains deduced from the nucleotide sequences of gyrB, rpoD and 16S rRNA genes
Int J Syst Evol Microbiol 48, 813 (1998); https://doi.org/10.1099/00207713-48-3-813
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