Algorithms for Molecular Biology, 2012 Background Although taxonomy is often used informally to evaluate the results of phylogenetic inference and the root of phylogenetic trees, algorithmic methods to do so are lacking.
Matsen Frederick A, Gallagher Aaron
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Testing phylogenetic hypotheses of the subgenera of the freshwater crayfish genus Cambarus (Decapoda: Cambaridae). [PDF]
PLoS ONE, 2012 The genus Cambarus is one of three most species rich crayfish genera in the Northern Hemisphere. The genus has its center of diversity in the Southern Appalachians of the United States and has been divided into 12 subgenera.
Jesse W Breinholt +2 more
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Unified phylogenetic species concept: taking subspecies and race out of science: postmodern theory applied to the Potamophylax cingulatus group (Trichoptera, Limnephilidae) [PDF]
Opuscula Zoologica Instituti Zoosystematici et Oecologici Universitatis Budapestinensis, 2018 The subspecies of the biological species concept with incomplete reproductive isolation versus the incipient sibling species of the phylogenetic species concept with permeable reproductive barrier are still applied side by side in the everyday practice ...
Oláh, J. +8 more
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mSystems, 2021 A highly resolved taxonomy for ammonia-oxidizing archaea (AOA) based on the alpha subunit of ammonia monooxygenase (amoA) was recently established, which uncovered novel environmental patterns of AOA, challenging previous generalizations.
Haitao Wang +6 more
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Bringing order to a complex system: phenotypic and genotypic evidence contribute to the taxonomy of Tityus (Scorpiones, Buthidae) and support the description of a new species [PDF]
ZooKeys, 2021 We present a molecular phylogenetic analysis including a survey for overlooked phenotypic characters. Based on both analysis and characters a new cave-dwelling species is described: Tityus (Tityus) spelaeus sp. nov.
Jairo A. Moreno-González +2 more
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Polyphyly in 16S rRNA-based LVTree Versus Monophyly in Whole-genome-based CVTree
Genomics, Proteomics & Bioinformatics, 2018 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 ...
Guanghong Zuo, Ji Qi, Bailin Hao
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Phylogenetic placement and taxonomy of the genus Hederorkis (Orchidaceae). [PDF]
PLoS ONE, 2015 Three plastid regions, matK, rpl32-trnL and rpl16 intron and the ITS1-5.8S-ITS2 nuclear ribosomal DNA were used to demonstrate a phylogenetic placement of the genus Hederorkis (Orchidaceae) for the first time.
Joanna Mytnik-Ejsmont +4 more
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Automated assembly of a reference taxonomy for phylogenetic data synthesis
Biodiversity Data Journal, 2017 Taxonomy and nomenclature data are critical for any project that synthesizes biodiversity data, as most biodiversity data sets use taxonomic names to identify taxa.
Jonathan Rees, Karen Cranston
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Introgression evidence and phylogenetic relationships among three (Para)Misgurnus species as revealed by mitochondrial and nuclear DNA markers [PDF]
Archives of Biological Sciences, 2013 The taxonomy of (Para)Misgurnus genera is still debated. We therefore used mitochondrial and nuclear DNA markers to analyze the phylogenetic relationships among Misgurnus anguillicaudatus, Paramisgurnus dabryanus and Misgurnus fossilis ...
Jakovlić I. +4 more
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MycobiologyIn this study, we updated and revised the checklist of macrofungi, along with the distribution of phytogeographical regions and the regional conservation status in Mongolia.
Nyamsuren Kherlenchimeg +8 more
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