Cryptic species as a window into the paradigm shift of the species concept

C Fišer, CT Robinson, F Malard - Molecular Ecology, 2018 - Wiley Online Library
The species concept is the cornerstone of biodiversity science, and any paradigm shift in the
delimitation of species affects many research fields. Many biologists now are embracing a …

Practical considerations for plant phylogenomics

MR McKain, MG Johnson… - Applications in plant …, 2018 - Wiley Online Library
The past decade has seen a major breakthrough in our ability to easily and inexpensively
sequence genome‐scale data from diverse lineages. The development of high‐throughput …

ASAP: assemble species by automatic partitioning

N Puillandre, S Brouillet, G Achaz - Molecular Ecology …, 2021 - Wiley Online Library
Abstract Here, we describe Assemble Species by Automatic Partitioning (ASAP), a new
method to build species partitions from single locus sequence alignments (ie, barcode data …

Unearthing Neanderthal population history using nuclear and mitochondrial DNA from cave sediments

B Vernot, EI Zavala, A Gómez-Olivencia, Z Jacobs… - Science, 2021 - science.org
INTRODUCTION The study of hominin history has progressed through both archaeological
and genetic insights. Although DNA sequencing from hominin skeletal remains allows the …

Comparison of methods for molecular species delimitation across a range of speciation scenarios

A Luo, C Ling, SYW Ho, CD Zhu - Systematic Biology, 2018 - academic.oup.com
Species are fundamental units in biological research and can be defined on the basis of
various operational criteria. There has been growing use of molecular approaches for …

Unguided species delimitation using DNA sequence data from multiple loci

Z Yang, B Rannala - Molecular Biology and Evolution, 2014 - academic.oup.com
A method was developed for simultaneous Bayesian inference of species delimitation and
species phylogeny using the multispecies coalescent model. The method eliminates the …

From integrative taxonomy to species description: one step beyond

E Pante, C Schoelinck, N Puillandre - Systematic Biology, 2015 - academic.oup.com
MATERIALS AND METHODS We performed a literature survey using the Web of Science
research tool, limited to the scientific articles published between 2006 and 2013, and using …

A tenuis relationship: traditional taxonomy obscures systematics and biogeography of the 'Acropora tenuis' (Scleractinia: Acroporidae) species complex

TCL Bridge, PF Cowman, AM Quattrini… - Zoological Journal of …, 2023 - academic.oup.com
Molecular phylogenetics has fundamentally altered our understanding of the taxonomy,
systematics and biogeography of corals. Recently developed phylogenomic techniques …

Species delimitation in herpetology

DM Hillis - Journal of Herpetology, 2019 - meridian.allenpress.com
The discovery and delimitation of species has changed dramatically over time. Species
delimitation practices became more thorough and formal in the 1900s with the introduction …

Guidelines for DNA taxonomy, with a focus on the meiofauna

D Fontaneto, JF Flot, CQ Tang - Marine Biodiversity, 2015 - Springer
Describing biological diversity is a challenging endeavour, especially for the small, cryptic
animals that make up the meiofauna. The field of DNA taxonomy, ie, the use of DNA to …