Determination of 16S rRNA Sequences of Streptococcus mitis and Streptococcus gordonii and Phylogenetic Relationships among Members of the Genus Streptococcus

1995 ◽  
Vol 45 (2) ◽  
pp. 406-408 ◽  
Author(s):  
Y. KAWAMURA ◽  
X.-G. HOU ◽  
F. SULTANA ◽  
H. MIURA ◽  
T. EZAKI
Keyword(s):  
16S Rrna ◽  
Phylogenetic Relationships ◽  
Streptococcus Gordonii ◽  
Streptococcus Mitis ◽  
Rrna Sequences ◽  
16S Rrna Sequences

scholarly journals Determination of 16S rRNA Sequences of Enterococci and Application to Species Identification of Nonmotile Enterococcus gallinarum Isolates

1998 ◽  
Vol 36 (11) ◽  
pp. 3399-3407 ◽  
Author(s):  
Robin Patel ◽  
Kerryl E. Piper ◽  
Mark S. Rouse ◽  
James M. Steckelberg ◽  
Jim R. Uhl ◽  
...  
Keyword(s):  
16S Rrna ◽  
Species Identification ◽  
Enterococcal Species ◽  
Enterococcus Gallinarum ◽  
Rrna Sequences ◽  
16S Rrna Sequences

The 16S rRNA sequences of enterococcal species E. faecium, E. faecalis, E. gallinarum, E. casseliflavus/flavescens, E. dispar,E. pseudoavium, E. sulfureus,E. malodoratus, E. raffinosus,E. cecorum, E. hirae, E. saccharolyticus, E. seriolicida, E. mundtii, E. avium, E. durans,E. columbae, and E. solitarius are presented herein. These data were utilized to confirm the species identification of two nonmotile E. gallinarum isolates which had been previously phenotypically identified asE. faecium. The implications of this finding are discussed.

scholarly journals Evidence for Lateral Transfer of the Suilysin Gene Region of Streptococcus suis

2002 ◽  
Vol 184 (7) ◽  
pp. 2050-2057 ◽  
Author(s):  
Daisuke Takamatsu ◽  
Makoto Osaki ◽  
Tsutomu Sekizaki
Keyword(s):  
Homologous Recombination ◽  
16S Rrna ◽  
Dna Sequence ◽  
Streptococcus Suis ◽  
Repeat Sequence ◽  
Sequence Determination ◽  
Flanking Regions ◽  
Rrna Sequences ◽  
16S Rrna Sequences

ABSTRACT Suilysin is a cholesterol-binding cytolysin encoded by sly in Streptococcus suis. DNA sequence determination of the sly locus in a strain lacking sly revealed the presence of another gene, designated orf102, in the place of sly. No transposable element or long-repeat sequence was found in the close vicinity. Except for six strains whose corresponding loci have been rearranged, all of the remaining 62 strains examined had either sly or orf102 at the same locus and their flanking regions were conserved. The genetic organizations having either sly or orf102 were found in the strains whose 16S rRNA sequences were identical. These results suggest that S. suis acquired sly or orf102 from a foreign source and that these genes subsequently spread among S. suis strains by homologous recombination.

Phylogenetic relationships within the genus Staurois (Anura, Ranidae) based on 16S rRNA sequences

Zootaxa ◽  
2011 ◽  
Vol 2744 (1) ◽  
pp. 39 ◽  
Author(s):  
UMILAELA ARIFIN ◽  
DJOKO T. ISKANDAR ◽  
DAVID P. BICKFORD ◽  
RAFE M. BROWN ◽  
RUDOLF MEIER ◽  
...  
Keyword(s):  
Genetic Variation ◽  
New Species ◽  
16S Rrna ◽  
Phylogenetic Tree ◽  
Bayesian Methods ◽  
Phylogenetic Relationships ◽  
Maximum Parsimony ◽  
The Philippines ◽  
Rrna Sequences ◽  
16S Rrna Sequences

We estimate the phylogenetic relationships among all six recognized species of the genus Staurois based on 16S rRNA sequences (~522 bp) for 92 specimens from Borneo and the Philippines. Our preferred phylogenetic tree inferred from Maximum Parsimony and Bayesian methods reveal six major clades within the genus leading to recognition of S. natator, S. nubilus, S. guttatus, S. tuberilinguis, S. parvus, and S. latopalmatus. For species where multiple populations were assessed, we found high genetic variation that may eventually support the recognition of new species.

scholarly journals CVTree: A Parallel Alignment-free Phylogeny and Taxonomy Tool based on Composition Vectors of Genomes

2021 ◽  
Author(s):  
Guanghong Zuo
Keyword(s):  
16S Rrna ◽  
Phylogenetic Relationships ◽  
Genome Sequences ◽  
Link Type ◽  
Alignment Free ◽  
Whole Genomes ◽  
Parallel Workflow ◽  
Rrna Sequences ◽  
16S Rrna Sequences

ABSTRACTCVTree is an alignment-free algorithm to infer phylogenetic relationships from genome sequences. It had been successfully applied to study phylogeny and taxonomy of viruses, prokaryotes, and fungi based on the whole genomes, as well as chloroplasts, mitochondria, and metagenomes. Here we presented the standalone software for the CVTree algorithm. In the software, a parallel workflow for the CVTree algorithm was designed. Based on the workflow, new alignment-free methods were also implemented. And by examining the phylogeny and taxonomy of 13903 prokaryotes based on 16S rRNA sequences, we showed that CVTree software is an efficient and effective tool for the studying of phylogeny and taxonomy based on genome sequences.Availabilityhttps://github.com/ghzuo/cvtree

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