Incorporating the speciation process into species delimitation.
PLoS Computational Biology, 2021 The "multispecies" coalescent (MSC) model that underlies many genomic species-delimitation approaches is problematic because it does not distinguish between genetic structure associated with species versus that of populations within species. Consequently,
Jeet Sukumaran +2 more
doaj +7 more sources
The BPP program for species tree estimation and species delimitation [PDF]
Current Zoology, 2016 This paper provides an overview and a tutorial of the BPP program, which is a Bayesian MCMC program for analyzing multi-locus genomic sequence data under the multispecies coalescent model. An example dataset of five nuclear loci from the East Asian brown
Yang, Z
core +6 more sources
To be or not to be… Integrative taxonomy and species delimitation in the daddy long-legs spiders of the genus Physocyclus (Araneae, Pholcidae) using DNA barcoding and morphology [PDF]
ZooKeys, 2022 Integrative taxonomy is crucial for discovery, recognition, and species delimitation, especially in underestimated species complex or cryptic species, by incorporating different sources of evidence to construct rigorous species hypotheses.
Samuel Nolasco +1 more
doaj +4 more sources
Hierarchical Heuristic Species Delimitation Under the Multispecies Coalescent Model with Migration. [PDF]
Syst Biol, 2023 The multispecies coalescent (MSC) model accommodates genealogical fluctuations across the genome and provides a natural framework for comparative analysis of genomic sequence data to infer the history of species divergence and gene flow.
Kornai D +4 more
europepmc +2 more sources
Ecology and Evolution, 2022 DNA taxonomy including barcoding and metabarcoding is widely used to explore the diversity in biodiversity hotspots. In most of these hotspot areas, chafers are represented by a multitude of species, which are well defined by the complex shape of male ...
Uda Gedara Sasanka Lakmali Ranasinghe +5 more
doaj +2 more sources
Ecology and Evolution, 2021 Species delimitation among closely related species is challenging because traditional phenotype‐based approaches, for example, using morphology, ecological, or chemical characteristics, may not coincide with natural groupings.
Jesse Jorna +13 more
doaj +2 more sources
Comparing the Efficiency of Single-Locus Species Delimitation Methods within Trochoidea (Gastropoda: Vetigastropoda). [PDF]
Genes (Basel), 2022 In the context of diminishing global biodiversity, the validity and practicality of species delimitation methods for the identification of many neglected and undescribed biodiverse species have been paid increasing attention.
Guo B, Kong L.
europepmc +2 more sources
Piikun: an information theoretic toolkit for analysis and visualization of species delimitation metric space [PDF]
BMC BioinformaticsBackground Existing software for comparison of species delimitation models do not provide a (true) metric or distance functions between species delimitation models, nor a way to compare these models in terms of relative clustering differences along a ...
Jeet Sukumaran, Marina Meila
doaj +2 more sources
Is population subdivision different from speciation? From phylogeography to species delimitation
Ecology and Evolution, 2020 Species‐level diversity and the underlying mechanisms that lead to the formation of new species, that is, speciation, have often been confounded with intraspecific diversity and population subdivision.
Jen‐Pan Huang
doaj +2 more sources
Genomic DNA barcodes provide novel insights into species delimitation in the complex Camellia sect. Thea (Theaceae) [PDF]
BMC Plant BiologyBackground Species delimitation within Camellia sect. Thea is taxonomically challenging due to its complex evolutionary history. This study aims to utilize nuclear and chloroplast data as genomic DNA barcodes to delimit species within this economically ...
Zongfang Shen +9 more
doaj +2 more sources