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 …

Key innovations and the diversification of Hymenoptera

BB Blaimer, BF Santos, A Cruaud, MW Gates… - Nature …, 2023 - nature.com
The order Hymenoptera (wasps, ants, sawflies, and bees) represents one of the most
diverse animal lineages, but whether specific key innovations have contributed to its …

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 …

Adapterama I: universal stubs and primers for 384 unique dual-indexed or 147,456 combinatorially-indexed Illumina libraries (iTru & iNext)

TC Glenn, RA Nilsen, TJ Kieran, JG Sanders… - PeerJ, 2019 - peerj.com
Massively parallel DNA sequencing offers many benefits, but major inhibitory cost factors
include:(1) start-up (ie, purchasing initial reagents and equipment);(2) buyin (ie, getting the …

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 …

[HTML][HTML] Combining transcriptomes and ultraconserved elements to illuminate the phylogeny of Apidae

S Bossert, EA Murray, EAB Almeida, SG Brady… - Molecular phylogenetics …, 2019 - Elsevier
Two increasingly popular approaches to reconstruct the Tree of Life involve whole
transcriptome sequencing and the target capture of ultraconserved elements (UCEs). Both …

Phylogeny, biogeography and diversification of the mining bee family Andrenidae

S Bossert, TJ Wood, S Patiny, D Michez… - Systematic …, 2022 - Wiley Online Library
The mining bees (Andrenidae) are a major bee family of over 3000 described species with a
nearly global distribution. They are a particularly significant component of northern …

The Chalcidoidea bush of life: evolutionary history of a massive radiation of minute wasps

A Cruaud, JY Rasplus, J Zhang, R Burks, G Delvare… - …, 2024 - Wiley Online Library
Chalcidoidea are mostly parasitoid wasps that include as many as 500 000 estimated
species. Capturing phylogenetic signal from such a massive radiation can be daunting …

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 …

Sequence capture and phylogenetic utility of genomic ultraconserved elements obtained from pinned insect specimens

BB Blaimer, MW Lloyd, WX Guillory, SG Brady - PloS one, 2016 - journals.plos.org
Obtaining sequence data from historical museum specimens has been a growing research
interest, invigorated by next-generation sequencing methods that allow inputs of highly …