ArticleMethods in molecular biology (Clifton, N.J.)2011
SNP discovery and genotyping for evolutionary genetics using RAD sequencing.
Article in Methods in molecular biology (Clifton, N.J.), 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 173 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
173 citing papers in PubMed.
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- Polymorphic microsatellite loci from ddRAD sequencing data in different Indian yak populations adapted to diverse climatic conditions.BMC genomics · 2025Article
- Spontaneous mutant in threespine stickleback connects endosome trafficking disorders and inflammatory bowel diseases via changes in the gut microbiome.bioRxiv : the preprint server for biology · 2025Article
- Climate Adaptation and Genetic Differentiation in the Mosquito Species Culex tarsalis.Genome biology and evolution · 2025Article
- A comprehensive catalog of single nucleotide polymorphisms (SNPs) from the black pepper (Piper nigrum L.) genome.BMC genomics · 2025Article
- The Genomic Signature and Transcriptional Response of Metal Tolerance in Brown Trout Inhabiting Metal-Polluted Rivers.Molecular ecology · 2025Article
- Genetic Foundation of Leaf Senescence: Insights from Natural and Cultivated Plant Diversity.Plants (Basel, Switzerland) · 2024Review
- Genome-Wide Association Study as an Efficacious Approach to Discover Candidate Genes Associated with Body Linear Type Traits in Dairy Cattle.Animals : an open access journal from MDPI · 2024Review
- Genetic-environment associations explain genetic differentiation and variation between western and eastern North Pacific rhinoceros auklet (Ecology and evolution · 2024Article
- Odd-Paired is Involved in Morphological Divergence of Snail-Feeding Beetles.Molecular biology and evolution · 2024Article
- Chromosomal inversions from an initial ecotypic divergence drive a gradual repeated radiation of Galápagos beetles.Science advances · 2024Article
- Ancestry dynamics and trait selection in a designer cat breed.Current biology : CB · 2024Article
- Population genomic analyses reveal that salinity and geographic isolation drive diversification in a free-living protist.Scientific reports · 2024Article
- New perspectives on the genetic structure of dotted gizzard shad (Marine life science & technology · 2024Article
- Genetic diversity and population structure of Piper nigrum (black pepper) accessions based on next-generation SNP markers.PloS one · 2024Article
- Recent parallel speciation in Antirrhinum involved complex haplotypes and multiple adaptive characters.Molecular ecology · 2023Article
- Genetic analysis of a phenotypic loss in the mechanosensory entrainment of a circalunar clock.PLoS genetics · 2023Article
- SAG-RAD: A Method for Single-Cell Population Genomics of Unicellular Eukaryotes.Molecular biology and evolution · 2023Article
- Different waves of postglacial recolonisation and genomic structure of bank vole populations in NE Poland.Heredity · 2023Article
113 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Next-generation sequencing technologies are revolutionizing the field of evolutionary biology, opening the possibility for genetic analysis at scales not previously possible. Research in population genetics, quantitative trait mapping, comparative genomics, and phylogeography that was unthinkable even a few years ago is now possible. More importantly, these next-generation sequencing studies can be performed in organisms for which few genomic resources presently exist. To speed this revolution in evolutionary genetics, we have developed Restriction site Associated DNA (RAD) genotyping, a method that uses Illumina next-generation sequencing to simultaneously discover and score tens to hundreds of thousands of single-nucleotide polymorphism (SNP) markers in hundreds of individuals for minimal investment of resources. In this chapter, we describe the core RAD-seq protocol, which can be modified to suit a diversity of evolutionary genetic questions. In addition, we discuss bioinformatic considerations that arise from unique aspects of next-generation sequencing data as compared to traditional marker-based approaches, and we outline some general analytical approaches for RAD-seq and similar data. Despite considerable progress, the development of analytical tools remains in its infancy, and further work is needed to fully quantify sampling variance and biases in these data types.
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