Harnessing the power of RADseq for ecological and evolutionary genomics

KR Andrews, JM Good, MR Miller, G Luikart… - Nature Reviews …, 2016 - nature.com
High-throughput techniques based on restriction site-associated DNA sequencing (RADseq)
are enabling the low-cost discovery and genoty** of thousands of genetic markers for any …

A genomic perspective on hybridization and speciation

BA Payseur, LH Rieseberg - Molecular ecology, 2016 - Wiley Online Library
Hybridization among diverging lineages is common in nature. Genomic data provide a
special opportunity to characterize the history of hybridization and the genetic basis of …

Stacks 2: Analytical methods for paired‐end sequencing improve RADseq‐based population genomics

NC Rochette, AG Rivera‐Colón… - Molecular ecology, 2019 - Wiley Online Library
For half a century population genetics studies have put type II restriction endonucleases to
work. Now, coupled with massively‐parallel, short‐read sequencing, the family of RAD …

dartR v2: An accessible genetic analysis platform for conservation, ecology and agriculture

JL Mijangos, B Gruber, O Berry… - Methods in Ecology …, 2022 - Wiley Online Library
Innumerable approaches to analyse genetic data are now available to guide conservation,
ecological and agricultural projects. However, streamlined and accessible tools are needed …

Deriving genotypes from RAD-seq short-read data using Stacks

NC Rochette, JM Catchen - Nature protocols, 2017 - nature.com
Restriction site-associated DNA sequencing (RAD-seq) allows for the genome-wide
discovery and genoty** of single-nucleotide polymorphisms in hundreds of individuals at …

TASSEL-GBS: a high capacity genoty** by sequencing analysis pipeline

JC Glaubitz, TM Casstevens, F Lu, J Harriman… - PloS one, 2014 - journals.plos.org
Genoty** by sequencing (GBS) is a next generation sequencing based method that takes
advantage of reduced representation to enable high throughput genoty** of large …

Genoty**-by-sequencing (GBS), an ultimate marker-assisted selection (MAS) tool to accelerate plant breeding

J He, X Zhao, A Laroche, ZX Lu, HK Liu… - Frontiers in plant …, 2014 - frontiersin.org
Marker-assisted selection (MAS) refers to the use of molecular markers to assist phenotypic
selections in crop improvement. Several types of molecular markers, such as single …

RAD capture (Rapture): flexible and efficient sequence-based genoty**

OA Ali, SM O'Rourke, SJ Amish, MH Meek, G Luikart… - Genetics, 2016 - academic.oup.com
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 …

Genoty**‐in‐Thousands by sequencing (GT‐seq): A cost effective SNP genoty** method based on custom amplicon sequencing

NR Campbell, SA Harmon… - Molecular ecology …, 2015 - Wiley Online Library
Genoty**‐in‐Thousands by sequencing (GT‐seq) is a method that uses next‐generation
sequencing of multiplexed PCR products to generate genotypes from relatively small panels …