Using genomic data to infer historic population dynamics of nonmodel organisms
AC Beichman, E Huerta-Sanchez… - Annual Review of …, 2018 - annualreviews.org
Genome sequence data are now being routinely obtained from many nonmodel organisms.
These data contain a wealth of information about the demographic history of the populations …
These data contain a wealth of information about the demographic history of the populations …
The utility of single nucleotide polymorphism (SNP) data in phylogenetics
Resolving the genealogy of life—the phylogenetic relationships that describe the
evolutionary history of species—remains one of the great challenges of systematic biology …
evolutionary history of species—remains one of the great challenges of systematic biology …
RAD capture (Rapture): flexible and efficient sequence-based genotyping
Massively parallel sequencing has revolutionized many areas of biology, but sequencing
large amounts of DNA in many individuals is cost-prohibitive and unnecessary for many …
large amounts of DNA in many individuals is cost-prohibitive and unnecessary for many …
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 …
has emerged as a promising tool for inferring evolutionary history in many organismal …
Misconceptions on missing data in RAD-seq phylogenetics with a deep-scale example from flowering plants
DAR Eaton, EL Spriggs, B Park… - Systematic …, 2017 - academic.oup.com
Restriction-site associated DNA (RAD) sequencing and related methods rely on the
conservation of enzyme recognition sites to isolate homologous DNA fragments for …
conservation of enzyme recognition sites to isolate homologous DNA fragments for …
Phylogenomics using formalin‐fixed and 100+ year‐old intractable natural history specimens
Museum specimens provide a wealth of information to biologists, but obtaining genetic data
from formalin‐fixed and fluid‐preserved specimens remains challenging. While DNA …
from formalin‐fixed and fluid‐preserved specimens remains challenging. While DNA …
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 …
amounts of sequence data from non‐model taxa for phylogenetic, phylogeographic and …
[HTML][HTML] A guide to carrying out a phylogenomic target sequence capture project
T Andermann, MF Torres Jiménez… - Frontiers in …, 2020 - frontiersin.org
High-throughput DNA sequencing techniques enable time-and cost-effective sequencing of
large portions of the genome. Instead of sequencing and annotating whole genomes, many …
large portions of the genome. Instead of sequencing and annotating whole genomes, many …
Using nuclear gene data for plant phylogenetics: Progress and prospects II. Next‐gen approaches
Single and low copy nuclear genes offer a larger number of, and more rapidly evolving,
characters than the chloroplast and nuclear ribosomal gene sequences that have dominated …
characters than the chloroplast and nuclear ribosomal gene sequences that have dominated …
Standardized nuclear markers improve and homogenize species delimitation in Metazoa
Species are the fundamental units of life and evolution. Their recognition is essential for
science and society. Molecular methods have been increasingly used for the identification of …
science and society. Molecular methods have been increasingly used for the identification of …