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Self-Confirmation and Ascertainment of the Candidate Genomic Regions of Complex Trait Loci - A None-Experimental Solution

文献类型： 外文期刊

作者： Wang, Lishi 1 ; Jiao, Yan 1 ; Wang, Yongjun 3 ; Zhang, Mengchen 4 ; Gu, Weikuan 1 ;

作者机构： 1.Univ Tennessee, Hlth Sci Ctr, Dept Orthoped Surg & BME, Campbell Clin, Memphis, TN 38163 USA

2.Mudanjiang Med Coll, Mudanjiang 157001, Heilongjiang, Peoples R China

3.Capital Med Univ, Beijing Tiantan Hosp, Dept Neurol, Beijing 100050, Peoples R China

4.Hebei Acad Agr & Forestry Sci, Natl Ctr Soybean Res, Inst Hebei Cereal & Oil Crops, Shijiazhuang 050011, Hebei, Peoples R China

5.Vet Affairs Med Ctr, Res Serv, 1030 Jefferson Ave, Memphis, TN 38104 USA

6.Inner Mongolia Med Univ, Dept Basic Res, Inner Mongolia 010110, Peoples R China

期刊名称：PLOS ONE （ 影响因子：3.24； 五年影响因子：3.788 ）

ISSN： 1932-6203

年卷期： 2016 年 11 卷 5 期

页码：

收录情况： SCI

摘要： Over the past half century, thousands of quantitative trait loci (QTL) have been identified by using animal models and plant populations. However, the none-reliability and imprecision of the genomic regions of these loci have remained the major hurdle for the identification of the causal genes for the correspondent traits. We used a none-experimental strategy of strain number reduction for testing accuracy and ascertainment of the candidate region for QTL. We tested the strategy in over 400 analyses with data from 47 studies. These studies include: 1) studies with recombinant inbred (RI) strains of mice. We first tested two previously mapped QTL with well-defined genomic regions; We then tested additional four studies with known QTL regions; and finally we examined the reliability of QTL in 38 sets of data which are produced from relatively large numbers of RI strains, derived from C57BL/6J (B6) X DBA/2J (D2), known as BXD RI mouse strains; 2) studies with RI strains of rats and plants; and 3) studies using F2 populations in mice, rats and plants. In these cases, our method identified the reliability of mapped QTL and localized the candidate genes into the defined genomic regions. Our data also suggests that LRS score produced by permutation tests does not necessarily confirm the reliability of the QTL. Number of strains are not the reliable indicators for the accuracy of QTL either. Our strategy determines the reliability and accuracy of the genomic region of a QTL without any additional experimental study such as congenic breeding.

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