Jun 18, 2011

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

Nature Reviews. Genetics
John W DaveyMark L Blaxter

Abstract

The advent of next-generation sequencing (NGS) has revolutionized genomic and transcriptomic approaches to biology. These new sequencing tools are also valuable for the discovery, validation and assessment of genetic markers in populations. Here we review and discuss best practices for several NGS methods for genome-wide genetic marker development and genotyping that use restriction enzyme digestion of target genomes to reduce the complexity of the target. These new methods -- which include reduced-representation sequencing using reduced-representation libraries (RRLs) or complexity reduction of polymorphic sequences (CRoPS), restriction-site-associated DNA sequencing (RAD-seq) and low coverage genotyping -- are applicable to both model organisms with high-quality reference genome sequences and, excitingly, to non-model species with no existing genomic data.

Mentioned in this Paper

Genome
Candidate Gene Identification
Genetic Markers
Genome Mapping
Genomics
Sequencing
Massively-Parallel Sequencing
Sequence Determinations, DNA
High-Throughput Nucleotide Sequencing
Digestion

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