Advances in the reconstruction of the Spider Tree of Life: a roadmap for spider systematics and comparative studies

S Kulkarni, HM Wood, G Hormiga - Cladistics, 2023 - Wiley Online Library
In the last decade and a half, advances in genetic sequencing technologies have
revolutionized systematics, transforming the field from studying morphological characters or …

MitoFinder: Efficient automated large‐scale extraction of mitogenomic data in target enrichment phylogenomics

R Allio, A Schomaker‐Bastos… - Molecular ecology …, 2020 - Wiley Online Library
Thanks to the development of high‐throughput sequencing technologies, target enrichment
sequencing of nuclear ultraconserved DNA elements (UCEs) now allows routine inference …

Understanding UCEs: a comprehensive primer on using ultraconserved elements for arthropod phylogenomics

YM Zhang, JL Williams, A Lucky - Insect Systematics and …, 2019 - academic.oup.com
Targeted enrichment of ultraconserved elements (UCEs) has emerged as a promising tool
for inferring evolutionary history in many taxa, with utility ranging from phylogenetic and …

Enriching the ant tree of life: enhanced UCE bait set for genome‐scale phylogenetics of ants and other Hymenoptera

MG Branstetter, JT Longino, PS Ward… - Methods in Ecology …, 2017 - Wiley Online Library
Targeted enrichment of conserved genomic regions (eg ultraconserved elements or UCEs)
has emerged as a promising tool for inferring evolutionary history in many organismal …

A critical appraisal of the placement of Xiphosura (Chelicerata) with account of known sources of phylogenetic error

JA Ballesteros, PP Sharma - Systematic Biology, 2019 - academic.oup.com
Horseshoe crabs (Xiphosura) are traditionally regarded as sister group to the clade of
terrestrial chelicerates (Arachnida). This hypothesis has been challenged by recent …

Phylogenetic systematics and evolution of the spider infraorder Mygalomorphae using genomic scale data

V Opatova, CA Hamilton, M Hedin… - Systematic …, 2020 - academic.oup.com
The infraorder Mygalomorphae is one of the three main lineages of spiders comprising over
3000 nominal species. This ancient group has a worldwide distribution that includes among …

Sequence capture phylogenomics of historical ethanol‐preserved museum specimens: Unlocking the rest of the vault

S Derkarabetian, LR Benavides… - Molecular ecology …, 2019 - Wiley Online Library
Natural history collections play a crucial role in biodiversity research, and museum
specimens are increasingly being incorporated into modern genetics‐based studies …

Identifying conserved genomic elements and designing universal bait sets to enrich them

BC Faircloth - Methods in Ecology and Evolution, 2017 - Wiley Online Library
Targeted enrichment of conserved genomic regions is a popular method for collecting large
amounts of sequence data from non‐model taxa for phylogenetic, phylogeographic and …

Interrogating genomic-scale data to resolve recalcitrant nodes in the spider tree of life

S Kulkarni, RJ Kallal, H Wood, D Dimitrov… - Molecular Biology …, 2021 - academic.oup.com
Genome-scale data sets are converging on robust, stable phylogenetic hypotheses for many
lineages; however, some nodes have shown disagreement across classes of data. We use …

An enhanced target-enrichment bait set for Hexacorallia provides phylogenomic resolution of the staghorn corals (Acroporidae) and close relatives

PF Cowman, AM Quattrini, TCL Bridge… - Molecular Phylogenetics …, 2020 - Elsevier
Targeted enrichment of genomic DNA can profoundly increase the phylogenetic resolution
of clades and inform taxonomy. Here, we redesign a custom bait set previously developed …