High-throughput genotyping by whole-genome resequencing
Chinese Academy of Sciences · National Center for Gene Research · +7 more institutions
Abstract
The next-generation sequencing technology coupled with the growing number of genome sequences opens the opportunity to redesign genotyping strategies for more effective genetic mapping and genome analysis. We have developed a high-throughput method for genotyping recombinant populations utilizing whole-genome resequencing data generated by the Illumina Genome Analyzer. A sliding window approach is designed to collectively examine genome-wide single nucleotide polymorphisms for genotype calling and recombination breakpoint determination. Using this method, we constructed a genetic map for 150 rice recombinant inbred lines with an expected genotype calling accuracy of 99.94% and a resolution of recombination…
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Authors
13- XHXuehui HuangCorresponding
Chinese Academy of Sciences, National Center for Gene Research, Shanghai Institutes for Biological Sciences, Center for Excellence in Molecular Plant Sciences
- QFQi Feng
Shanghai Jiao Tong University, Chinese Academy of Sciences, National Center for Gene Research, Shanghai Institutes for Biological Sciences, Center for Excellence in Molecular Plant Sciences
- QQQian Qian
Chinese Academy of Agricultural Sciences, China National Rice Research Institute
- QZQiang Zhao
Shanghai Jiao Tong University, Chinese Academy of Sciences, National Center for Gene Research, Shanghai Institutes for Biological Sciences, Center for Excellence in Molecular Plant Sciences
- LWLu Wang
Chinese Academy of Sciences, National Center for Gene Research, Shanghai Institutes for Biological Sciences, Center for Excellence in Molecular Plant Sciences
Topics & keywords
- Biology
- Genotyping
- Genome
- Genetics
- DNA sequencing
- Computational biology
- Locus (genetics)
- Reference genome