Paper Info
Title
Polyphyly in 16S rRNA-based LVTree Monophyly in Whole-genome-based CVTree.
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.
Year
DOI
Venue
2018
10.1016/j.gpb.2018.06.005
Genomics, Proteomics & Bioinformatics
Keywords
DocType
Volume
Archaea and bacteria taxonomy,Phylogeny,CVTree,Whole-genome sequence,16S rRNA sequence
Journal
16
Issue
ISSN
Citations 
5
1672-0229
0
PageRank 
References 
Authors
0.34
0
3
Name
Order
Citations
PageRank
guanghong1121.90
Ji Qi25010.17
Bailin Hao3838.43