ArticleLife (Basel, Switzerland)2015
Phylogeny and Taxonomy of Archaea: A Comparison of the Whole-Genome-Based CVTree Approach with 16S rRNA Sequence Analysis.
Article in Life (Basel, Switzerland), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 32 citations in OpenAlex.
- Article
- Characterization of promoters in archaeal genomes based on DNA structural parameters.MicrobiologyOpen · 2021Article
- CVTree: A Parallel Alignment-free Phylogeny and Taxonomy Tool Based on Composition Vectors of Genomes.Genomics, proteomics & bioinformatics · 2021Article
- A standardized archaeal taxonomy for the Genome Taxonomy Database.Nature microbiology · 2021Article
- Dominant egg surface bacteria of Holotrichia oblita (Coleoptera: Scarabaeidae) inhibit the multiplication of Bacillus thuringiensis and Beauveria bassiana.Scientific reports · 2021Article
- Physiological and Genomic Characterization of a Hyperthermophilic ArchaeonFrontiers in microbiology · 2021Article
- The statistical power ofSynthetic and systems biotechnology · 2019Article
- Metagenome-assembled genomes provide new insight into the microbial diversity of two thermal pools in Kamchatka, Russia.Scientific reports · 2019Article
- The Shared and Specific Genes and a Comparative Genomics Analysis within ThreeInternational journal of genomics · 2019Article
- Cryptic dispersal of Cyanidiophytina (Rhodophyta) in non-acidic environments from Turkey.Extremophiles : life under extreme conditions · 2018Article
- The Host Microbiome Regulates and Maintains Human Health: A Primer and Perspective for Non-Microbiologists.Cancer research · 2017Review
- Phylogeny Reconstruction with Alignment-Free Method That Corrects for Horizontal Gene Transfer.PLoS computational biology · 2016Article
- Archaeal Distribution in Moonmilk Deposits from Alpine Caves and Their Ecophysiological Potential.Microbial ecology · 2016Article
- Genome Sequencing ofFrontiers in microbiology · 2016Article
- Early Microbial Evolution: The Age of Anaerobes.Cold Spring Harbor perspectives in biology · 2015Review
- CVTree3 Web Server for Whole-genome-based and Alignment-free Prokaryotic Phylogeny and Taxonomy.Genomics, proteomics & bioinformatics · 2015Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A tripartite comparison of Archaea phylogeny and taxonomy at and above the rank order is reported: (1) the whole-genome-based and alignment-free CVTree using 179 genomes; (2) the 16S rRNA analysis exemplified by the All-Species Living Tree with 366 archaeal sequences; and (3) the Second Edition of Bergey's Manual of Systematic Bacteriology complemented by some current literature. A high degree of agreement is reached at these ranks. From the newly proposed archaeal phyla, Korarchaeota, Thaumarchaeota, Nanoarchaeota and Aigarchaeota, to the recent suggestion to divide the class Halobacteria into three orders, all gain substantial support from CVTree. In addition, the CVTree helped to determine the taxonomic position of some newly sequenced genomes without proper lineage information. A few discrepancies between the CVTree and the 16S rRNA approaches call for further investigation.
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