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A tetrasomic inheritance model and likelihood‐based method for mapping quantitative trait loci in autotetraploid species
Author(s) -
Chen Jing,
Leach Lindsey,
Yang Jixuan,
Zhang Fengjun,
Tao Qin,
Dang Zhenyu,
Chen Yue,
Luo Zewei
Publication year - 2021
Publication title -
new phytologist
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.742
H-Index - 244
eISSN - 1469-8137
pISSN - 0028-646X
DOI - 10.1111/nph.16413
Subject(s) - quantitative trait locus , biology , family based qtl mapping , genetic architecture , inheritance (genetic algorithm) , trait , population , genetics , computational biology , gene mapping , gene , computer science , chromosome , demography , sociology , programming language
Summary Dissecting the genetic architecture of quantitative traits in autotetraploid species is a methodologically challenging task, but a pivotally important goal for breeding globally important food crops, including potato and blueberry, and ornamental species such as rose. Mapping quantitative trait loci (QTLs) is now a routine practice in diploid species but is far less advanced in autotetraploids, largely due to a lack of analytical methods that account for the complexities of tetrasomic inheritance. We present a novel likelihood‐based method for QTL mapping in outbred segregating populations of autotetraploid species. The method accounts properly for sophisticated features of gene segregation and recombination in an autotetraploid meiosis. It may model and analyse molecular marker data with or without allele dosage information, such as that from microarray or sequencing experiments. The method developed outperforms existing bivalent‐based methods, which may fail to model and analyse the full spectrum of experimental data, in the statistical power of QTL detection, and accuracy of QTL location, as demonstrated by an intensive simulation study and analysis of data sets collected from a segregating population of potato ( Solanum tuberosum ). The study enables QTL mapping analysis to be conducted in autotetraploid species under a rigorous tetrasomic inheritance model.