Journal article
Genotyping by genome reducing and sequencing for outbred animals
PloS one, Vol.8(7), pp.e67500-e67500
2013
Handle:
https://hdl.handle.net/2376/107619
PMCID: PMC3715491
PMID: 23874423
Abstract
Next-generation sequencing (NGS) approaches are widely used in genome-wide genetic marker discovery and genotyping. However, current NGS approaches are not easy to apply to general outbred populations (human and some major farm animals) for SNP identification because of the high level of heterogeneity and phase ambiguity in the haplotype. Here, we reported a new method for SNP genotyping, called genotyping by genome reducing and sequencing (GGRS) to genotype outbred species. Through an improved procedure for library preparation and a marker discovery and genotyping pipeline, the GGRS approach can genotype outbred species cost-effectively and high-reproducibly. We also evaluated the efficiency and accuracy of our approach for high-density SNP discovery and genotyping in a large genome pig species (2.8 Gb), for which more than 70,000 single nucleotide polymorphisms (SNPs) can be identified for an expenditure of only $80 (USD)/sample.
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Details
- Title
- Genotyping by genome reducing and sequencing for outbred animals
- Creators
- Qiang Chen - School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, ChinaYufang MaYumei YangZhenliang ChenRongrong LiaoXiaoxian XieZhen WangPengfei HeYingying TuXiangzhe ZhangChangsuo YangHongjie YangFuqing YuYoumin ZhengZhiwu ZhangQishan WangYuchun Pan
- Publication Details
- PloS one, Vol.8(7), pp.e67500-e67500
- Academic Unit
- Crop and Soil Sciences, Department of
- Publisher
- United States
- Identifiers
- 99900546809601842
- Language
- English
- Resource Type
- Journal article