限制性两阶段多位点全基因组关联分析法（RTM-GWAS）的特点、常见提问与应用前景

doi:10.3864/j.issn.0578-1752.2020.09.001

Abstract

Abstract:

Restricted two-stage multi-locus genome-wide association analysis (RTM-GWAS) is a novel GWAS procedure which provides a way to identify the QTL system with various multiple alleles in natural and bi- or multi-parental derived populations. The major purposes and its two major characteristics of the RTM-GWAS procedure were presented, including the establishment of the SNPLDB markers with multiple alleles fitting the property of the natural and bi- or multi-parental derived populations and the establishment of multi-locus model GWAS procedure with the total genetic contribution controlled within heritability value. Generally, the readers and editors do not doubt about the methods and principles, the multiple allele markers and the multi-locus model, but have questions and queries on the large amount of detected QTLs many more than those from single locus MLM-GWAS procedure and on the general significance level without correction used in RTM-GWAS. These doubts were carefully and seriously explained and relieved. Furthermore, the potential usefulness of the RTM-GWAS procedure in genetic and evolutionary studies were summarized, including usefulness in relatively thorough identification of the QTL-allele system in populations and major gene finding and cloning, usefulness in relatively thorough identification of the QTL-allele system in bi-and multi-parental derived populations, usefulness in studies on population genetic differentiation and evolution and usefulness in breeding by genetic design.

Key words: restricted two-stage multi-locus genome-wide association analysis (RTM-GWAS), SNP linkage disequilibrium block (SNPLDB), multiple alleles, multi-locus model, QTL-allele matrix, false positive, model significance

JunYi GAI,JianBo HE. Major Characteristics, Often-Raised Queries and Potential Usefulness of the Restricted Two-Stage Multi-Locus Genome-Wide Association Analysis[J].Scientia Agricultura Sinica, 2020, 53(9): 1699-1703.

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Major Characteristics, Often-Raised Queries and Potential Usefulness of the Restricted Two-Stage Multi-Locus Genome-Wide Association Analysis

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