Optimization of BSA-seq experiment for QTL mapping

被引:0
作者
Huang, Likun [1 ]
Tang, Weiqi [2 ]
Wu, Weiren [1 ]
机构
[1] Fujian Agr & Forestry Univ, Fujian Key Lab Crop Breeding Design, Fuzhou 350002, Fujian, Peoples R China
[2] Minjiang Univ, Inst Oceanog, Marine & Agr Biotechnol Ctr, Fuzhou 350108, Fujian, Peoples R China
来源
G3-GENES GENOMES GENETICS | 2021年 / 12卷 / 01期
关键词
BSA-seq; QTL; power; precision; influencing factor; experimental design; BOTRYTIS-CINEREA RESISTANCE; GENOMIC SELECTION; SHELF-LIFE; STRAWBERRY CULTIVARS; FRAGARIA-CHILOENSIS; DISEASE RESISTANCE; FRUIT ROT; SUSCEPTIBILITY; TOMATO; GENES;
D O I
暂无
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Deep sequencing-based bulked segregant analysis (BSA-seq) has become a popular approach for quantitative trait loci (QTL) mapping in recent years. Effective statistical methods for BSA-seq have been developed, but how to design a suitable experiment for BSA-seq remains unclear. In this paper, we show in theory how the major experimental factors (including population size, pool proportion, pool balance, and generation) and the intrinsic factors of a QTL (including heritability and degree of dominance) affect the power of QTL detection and the precision of QTL mapping in BSA-seq. Increasing population size can improve the power and precision, depending on the QTL heritability. The best proportion of each pool in the population is around 0.25. So, 0.25 is generally applicable in BSA-seq. Small pool proportion can greatly reduce the power and precision. Imbalance of pool pair in size also causes decrease of the power and precision. Additive effect is more important than dominance effect for QTL mapping. Increasing the generation of filial population produced by selfing can significantly increase the power and precision, especially from F2 to F3. These findings enable researchers to optimize the experimental design for BSA-seq. A web-based program named BSA-seq Design Tool is available at http://124.71.74.135/BSA-seqDesignTool/ and https://github.com/huanglikun/BSA-seqDesignTool.
引用
收藏
页数:10
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