From reference genomes to population genomics: comparing three reference-aligned reduced-representation sequencing pipelines in two wildlife species
Background Recent advances in genomics have greatly increased research opportunities
for non-model species. For wildlife, a growing availability of reference genomes means that …
for non-model species. For wildlife, a growing availability of reference genomes means that …
Impact of reduced-representation sequencing protocols on detecting population structure in a threatened marsupial
Reduced-representation sequencing methods have wide utility in conservation genetics of
non-model species. Several methods are now available that reduce genome complexity to …
non-model species. Several methods are now available that reduce genome complexity to …
A fast, reproducible, high-throughput variant calling workflow for population genomics
CD Mirchandani, AJ Shultz… - Molecular Biology …, 2024 - academic.oup.com
The increasing availability of genomic resequencing data sets and high-quality reference
genomes across the tree of life present exciting opportunities for comparative population …
genomes across the tree of life present exciting opportunities for comparative population …
Reference-free population genomics from next-generation transcriptome data and the vertebrate–invertebrate gap
In animals, the population genomic literature is dominated by two taxa, namely mammals
and drosophilids, in which fully sequenced, well-annotated genomes have been available …
and drosophilids, in which fully sequenced, well-annotated genomes have been available …
Comparison of Target-Capture and Restriction-Site Associated DNA Sequencing for Phylogenomics: A Test in Cardinalid Tanagers (Aves, Genus: Piranga)
Restriction-site associated DNA sequencing (RAD-seq) and target capture of specific
genomic regions, such as ultraconserved elements (UCEs), are emerging as two of the most …
genomic regions, such as ultraconserved elements (UCEs), are emerging as two of the most …
Identifying hybridization and admixture using SNPs: application of the DArTseq platform in phylogeographic research on vertebrates
J Melville, ML Haines, K Boysen… - Royal Society …, 2017 - royalsocietypublishing.org
Next-generation sequencing (NGS) approaches are increasingly being used to generate
multi-locus data for phylogeographic and evolutionary genetics research. We detail the …
multi-locus data for phylogeographic and evolutionary genetics research. We detail the …
Reference genomes from distantly related species can be used for discovery of single nucleotide polymorphisms to inform conservation management
Threatened species recovery programmes benefit from incorporating genomic data into
conservation management strategies to enhance species recovery. However, a lack of …
conservation management strategies to enhance species recovery. However, a lack of …
Estimating and accounting for genotyping errors in RAD‐seq experiments
L Bresadola, V Link, CA Buerkle… - Molecular Ecology …, 2020 - Wiley Online Library
In non‐model organisms, evolutionary questions are frequently addressed using reduced
representation sequencing techniques due to their low cost, ease of use, and because they …
representation sequencing techniques due to their low cost, ease of use, and because they …
A beginner's guide to low‐coverage whole genome sequencing for population genomics
Low‐coverage whole genome sequencing (lcWGS) has emerged as a powerful and cost‐
effective approach for population genomic studies in both model and nonmodel species …
effective approach for population genomic studies in both model and nonmodel species …
Toward a genome sequence for every animal: Where are we now?
S Hotaling, JL Kelley… - Proceedings of the …, 2021 - National Acad Sciences
In less than 25 y, the field of animal genome science has transformed from a discipline
seeking its first glimpses into genome sequences across the Tree of Life to a global …
seeking its first glimpses into genome sequences across the Tree of Life to a global …