Polyphyly in 16S rRNA-based LVTree Versus Monophyly in Whole-genome-based CVTree / 基因组蛋白质组与生物信息学报·英文版
Genomics, Proteomics & Bioinformatics
;
(4): 310-319, 2018.
Article
in English
| WPRIM
| ID: wpr-772973
ABSTRACT
We report an important but long-overlooked manifestation of low-resolution power of 16S rRNA sequence analysis at the species level, namely, in 16S rRNA-based phylogenetic trees polyphyletic placements of closely-related species are abundant compared to those in genome-based phylogeny. This phenomenon makes the demarcation of genera within many families ambiguous in the 16S rRNA-based taxonomy. In this study, we reconstructed phylogenetic relationship for more than ten thousand prokaryote genomes using the CVTree method, which is based on whole-genome information. And many such genera, which are polyphyletic in 16S rRNA-based trees, are well resolved as monophyletic clusters by CVTree. We believe that with genome sequencing of prokaryotes becoming a commonplace, genome-based phylogeny is doomed to play a definitive role in the construction of a natural and objective taxonomy.
Full text:
Available
Index:
WPRIM (Western Pacific)
Main subject:
Phylogeny
/
RNA, Ribosomal, 16S
/
Genome
/
Sequence Analysis, DNA
/
Genomics
/
Genetics
Language:
English
Journal:
Genomics, Proteomics & Bioinformatics
Year:
2018
Type:
Article
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