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Indel variation in the mitochondrial ND5 region supports monophyly of the tribe Hippoglossoidini (sensu Vinnikov et al. 2018) within the family Pleuronectidae
Indel (insertion–deletion) events observed in the genome represent irreversible mutational processes, making indel regions crucial characteristics...
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Multigene analyses with a broad sampling in Phytophthora and related genera provide evidence for the monophyly of downy mildews
Downy mildews are the most species-rich group of oomycetes, with more than 700 known species. The relationships within the main downy mildew lineages...
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Genomic reconsideration of fish non-monophyly: why cannot we simply call them all ‘fish’?
Extant ‘fishes’ belong to jawless, cartilaginous, actinopterygian, or sarcopterygian fish lineages. They comprise a non-monophyletic group of...
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Challenges of applying monophyly in the phylogenetic shallows: taxonomic reappraisal of the Dactylorhiza maculata group
The first study of the taxonomically critical European orchid genus Dactylorhiza to use next-generation DNA sequencing generated the statistically...
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A phylogenomic study of Steganinae fruit flies (Diptera: Drosophilidae): strong gene tree heterogeneity and evidence for monophyly
BackgroundThe Drosophilidae family is traditionally divided into two subfamilies: Drosophilinae and Steganinae. This division is based on...
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The Phylogeny and Classification of Predaceous Diving Beetles (Coleoptera: Dytiscidae)
The phylogenetics and higher (family-group) classification of extant members of the beetle family Dytiscidae (Coleoptera), or predaceous diving...
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Developmental gene expression as a phylogenetic data class: support for the monophyly of Arachnopulmonata
Despite application of genome-scale datasets, the phylogenetic placement of scorpions within arachnids remains contentious between two different...
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Characterization of the complete mitochondrial genome of Ergasilus anchoratus Markevich, 1946 (Ergasilidae) and phylogeny of Copepoda
The mitochondrial (mt) genome can provide data for phylogenetic analyses and evolutionary biology. Herein, we sequenced and annotated the complete mt...
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Molecular phylogeny and historical biogeography of Iranian murids (Rodentia: Muridae)
The family Muridae represents the largest, most diverse and successful of all groups of mammals. Here we infer the phylogenetic relationships and...
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A Genomic Conceptualization of Species
Species concepts have been defined through a number of lenses, but are almost entirely empirical in nature. Fundamentally linked to various existing...
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Species delimitation and intraspecific diversification in recently diverged South American foxes
The divergence between the Andean fox ( Lycalopex culpaeus ) and the South American gray fox ( L. griseus ) represents a recent speciation event in South...
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Why the monophyly of Nymphaeaceae currently remains indeterminate: an assessment based on gene-wise plastid phylogenomics
The monophyly of Nymphaeaceae (water lilies) represents an important, but controversial aspect in the effort to understand the evolutionary history...
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Phylogenomics resolves the higher-level phylogeny of herbivorous eriophyoid mites (Acariformes: Eriophyoidea)
BackgroundEriophyoid mites (Eriophyoidea) are among the largest groups in the Acariformes; they are strictly phytophagous. The higher-level phylogeny...
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A phylogeny of the evening primrose family (Onagraceae) using a target enrichment approach with 303 nuclear loci
BackgroundThe evening primrose family (Onagraceae) includes 664 species (803 taxa) with a center of diversity in the Americas, especially western...
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Phylogenomic analysis with improved taxon sampling corroborates an Alydidae + Hydarinae + Pseudophloeinae clade (Heteroptera: Coreoidea: Alydidae, Coreidae)
Recent phylogenomic analyses within the insect superfamily Coreoidea (Hemiptera: Heteroptera) have begun to challenge previous phylogenetic...
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Phylogenomic resolution of Imparidentia (Mollusca: Bivalvia) diversification through mitochondrial genomes
Despite significant advances in the phylogenomics of bivalves over the past decade, the higher-level phylogeny of Imparidentia (a superorder of...
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Overcoming Challenges to Extracting and Sequencing Historical DNA to Support Primate Evolutionary Research and Conservation, with an Application to Galagos
The availability of genetic data from wild populations limits our understanding of primate evolution and conservation, particularly for small...
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Paraphyly of the Pipistrelles (Pipistrellus; Vespertilionidae) is Confirmed by the Analysis of the Nuclear Gene Markers
AbstractThere are evidences that the genus Pipistrellus (true pipistrelles) in its current understanding may be paraphyletic. We have studied for...
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DNA barcoding reveals cryptic diversification and taxonomic discordance among bats and birds within Sub-Saharan Africa
Cryptic species present a challenge for conservation, as species diversity may remain undetected. In zoological research, DNA barcoding of the...
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Systematics of the Tribe Astronieae Based on Morphology: Prospects for Resurrecting Bamlera and Incorporating Tessmannianthus
The Astronieae, as traditionally circumscribed, comprise 136 woody species in four genera, Astrocalyx, Astronia, Astronidium, and Beccarianthus, and...