A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
Nature Biotechnology, 2018 Taxonomy is an organizing principle of biology and is ideally based on evolutionary relationships among organisms. Development of a robust bacterial taxonomy has been hindered by an inability to obtain most bacteria in pure culture and, to a lesser ...
Donovan H Parks +2 more
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Current Opinion in Genetics & Development, 1991 The avalanche of molecular sequence data from a wide variety of organisms and genes makes the construction and testing of evolutionary trees a widespread and demanding activity. We present the most recent advances in the interpretation of molecular data, as well as recent phylogenetic results affecting both molecular evolutionary biology and other ...
Sidow, Arend, Bowman, Barbara H
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Insights into the phylogeny and coding potential of microbial dark matter
Nature, 2013 Genome sequencing enhances our understanding of the biological world by providing blueprints for the evolutionary and functional diversity that shapes the biosphere.
Christian Rinke +2 more
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Model selection may not be a mandatory step for phylogeny reconstruction
Nature Communications, 2019 Determining the most suitable model for phylogeny reconstruction constitutes a fundamental step in numerous evolutionary studies. Over the years, various criteria for model selection have been proposed, leading to debate over which criterion is ...
Shiran Abadi, Dana Azouri, Tal Pupko
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Phage diversity, genomics and phylogeny
Nature Reviews Microbiology, 2020 Frank Oechslin, Sylvain Moineau
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Full-length 16S rRNA amplicon sequencing reveals the variation of epibiotic microbiota associated with two shrimp species of Alvinocarididae: possibly co-determined by environmental heterogeneity and specific recognition of hosts [PDF]
PeerJ, 2022 Shrimps of the family Alvinocarididae, endemic species to deep sea chemosynthetic ecosystems, harbor epibiotic microbes on gills which probably play important roles in the survival of the shrimps.
Min Hui +3 more
doaj +2 more sources
A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
Nature, 2016 Richard O Prum +2 more
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Complete mitochondrial genomes of four deep-sea echinoids: conserved mitogenome organization and new insights into the phylogeny and evolution of Echinoidea [PDF]
PeerJ, 2022 Echinoids are an important component in benthic marine environments, which occur at all depths from the shallow-water hard substrates to abyssal depths.
Shao’e Sun, Ning Xiao, Zhongli Sha
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Using PhyloSuite for molecular phylogeny and tree‐based analyses
iMeta, 2023 Phylogenetic analysis has entered the genomics (multilocus) era. For less experienced researchers, conquering the large number of software programs required for a multilocus‐based phylogenetic reconstruction can be somewhat daunting and time‐consuming ...
Chuan-Yu Xiang +8 more
semanticscholar +1 more source
Review of the genus Loimia Malmgren, 1866 (Annelida, Terebellidae) from China seas with recognition of two new species based on integrative taxonomy [PDF]
PeerJ, 2020 Specimens of the genus Loimia (Annelida, Terebellidae) deposited in the Marine Biological Museum of the Chinese Academy of Sciences (MBMCAS) together with materials newly collected from China seas were examined.
Weina Wang +3 more
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