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Construction of Genetic Linkage Maps in Multiparental Populations.

Authors :
Zheng C
Boer MP
van Eeuwijk FA
Source :
Genetics [Genetics] 2019 Aug; Vol. 212 (4), pp. 1031-1044. Date of Electronic Publication: 2019 Jun 10.
Publication Year :
2019

Abstract

Construction of genetic linkage maps has become a routine step for mapping quantitative trait loci (QTL), particularly in animal and plant breeding populations. Many multiparental populations have recently been produced to increase genetic diversity and QTL mapping resolution. However, few software packages are available for map construction in these populations. In this paper, we build a general framework for the construction of genetic linkage maps from genotypic data in diploid populations, including bi- and multiparental populations, cross-pollinated (CP) populations, and breeding pedigrees. The framework is implemented as an automatic pipeline called magicMap, where the maximum multilocus likelihood approach utilizes genotypic information efficiently. We evaluate magicMap by extensive simulations and eight real datasets: one biparental, one CP, four multiparent advanced generation intercross (MAGIC), and two nested association mapping (NAM) populations, the number of markers ranging from a few hundred to tens of thousands. Not only is magicMap the only software capable of accommodating all of these designs, it is more accurate and robust to missing genotypes and genotyping errors than commonly used packages.<br /> (Copyright © 2019 by the Genetics Society of America.)

Details

Language :
English
ISSN :
1943-2631
Volume :
212
Issue :
4
Database :
MEDLINE
Journal :
Genetics
Publication Type :
Academic Journal
Accession number :
31182487
Full Text :
https://doi.org/10.1534/genetics.119.302229