Nov 5, 2011

Multiplexed array-based and in-solution genomic enrichment for flexible and cost-effective targeted next-generation sequencing

Nature Protocols
Magdalena HarakalovaEdwin P J G Cuppen

Abstract

The unprecedented increase in the throughput of DNA sequencing driven by next-generation technologies now allows efficient analysis of the complete protein-coding regions of genomes (exomes) for multiple samples in a single sequencing run. However, sample preparation and targeted enrichment of multiple samples has become a rate-limiting and costly step in high-throughput genetic analysis. Here we present an efficient protocol for parallel library preparation and targeted enrichment of pooled multiplexed bar-coded samples. The procedure is compatible with microarray-based and solution-based capture approaches. The high flexibility of this method allows multiplexing of 3-5 samples for whole-exome experiments, 20 samples for targeted footprints of 5 Mb and 96 samples for targeted footprints of 0.4 Mb. From library preparation to post-enrichment amplification, including hybridization time, the protocol takes 5-6 d for array-based enrichment and 3-4 d for solution-based enrichment. Our method provides a cost-effective approach for a broad range of applications, including targeted resequencing of large sample collections (e.g., follow-up genome-wide association studies), and whole-exome or custom mini-genome sequencing projects. This...Continue Reading

Mentioned in this Paper

Genome-Wide Association Study
Genome
Nucleic Acid Hybridization Procedure
Genetic Analysis
Genetic Screening Method
Nucleic Acid Amplification Tests
Gene Amplification Technique
DNA Resequencing
Genomics
Sequencing

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