Unsupervised machine learning for species delimitation, integrative taxonomy, and biodiversity conservation

RA Pyron - Molecular Phylogenetics and Evolution, 2023 - Elsevier
Integrative taxonomy, combining data from multiple axes of biologically relevant variation, is
a major goal of systematics. Ideally, such taxonomies will derive from similarly integrative …

River Drainage Reorganization and Reticulate Evolution in the Two-Lined Salamander (Eurycea bislineata) Species Complex

TW Pierson, KH Kozak, TC Glenn… - Systematic …, 2024 - academic.oup.com
The origin and eventual loss of biogeographic barriers can create alternating periods of
allopatry and secondary contact, facilitating gene flow among distinct metapopulations and …

Next‐generation species delimitation and taxonomy: Implications for biogeography

M Vences, A Miralles, C Dufresnes - Journal of Biogeography, 2024 - Wiley Online Library
An accurate species‐level taxonomy is paramount for biogeographical research, and
conversely, biogeographical data are of importance for species delimitation. We here review …

Machine learning approaches delimit cryptic taxa in a previously intractable species complex

HLA Heine, S Derkarabetian, R Morisawa… - Molecular Phylogenetics …, 2024 - Elsevier
Cryptic species are not diagnosable via morphological criteria, but can be detected through
analysis of DNA sequences. A number of methods have been developed for identifying …

[HTML][HTML] Systematic revision of the Spotted and Northern Dusky Salamanders (Plethodontidae: Desmognathus conanti and D. fuscus), with six new species from the …

RA Pyron, DA Beamer - Zootaxa, 2023 - mapress.com
Abstract Spotted and Northern Dusky Salamanders (Desmognathus conanti and D. fuscus)
have a long and complex taxonomic history. At least 10 other currently recognized species …

[HTML][HTML] Systematics of the Ocoee Salamander (Plethodontidae: Desmognathus ocoee), with description of two new species from the southern Blue Ridge Mountains

RA Pyron, DA Beamer - Zootaxa, 2022 - mapress.com
The “mountain” dusky is a charismatic ecomorph of Dusky Salamander (Desmognathus):
smaller (~ 20–50mm SVL), more terrestrial and montane woodland species, typically with …

Discerning structure versus speciation in phylogeographic analysis of Seepage Salamanders (Desmognathus aeneus) using demography, environment, geography …

RA Pyron, A Kakkera, DA Beamer… - Molecular …, 2024 - Wiley Online Library
Numerous mechanisms can drive speciation, including isolation by adaptation, distance,
and environment. These forces can promote genetic and phenotypic differentiation of local …

Tracing evolutionary trajectories in the presence of gene flow in South American temperate lizards (Squamata: Liolaemus kingii group)

KI Sánchez, H Recknagel, KR Elmer, LJ Avila… - …, 2024 - academic.oup.com
Evolutionary processes behind lineage divergence often involve multidimensional
differentiation. However, in the context of recent divergences, the signals exhibited by each …

Understanding Species Boundaries that Arise from Complex Histories: Gene Flow Across the Speciation Continuum in the Spotted Whiptail Lizards

AJ Barley, A Nieto-Montes de Oca… - Systematic …, 2024 - academic.oup.com
Gene flow between diverging lineages challenges the resolution of species boundaries and
the understanding of evolutionary history in recent radiations. Here, we integrate …

Caught in the Act: Incipient Speciation at the Southern limit of Viburnum in the Central Andes

CA Maya-Lastra, PW Sweeney, DAR Eaton… - Systematic …, 2024 - academic.oup.com
A fundamental objective of evolutionary biology is to understand the origin of independently
evolving species. Phylogenetic studies of species radiations rarely are able to document …