Parent-progeny imputation from pooled samples for cost-efficient genotyping in plant breeding.

ABSTRACT: The increased usage of whole-genome selection (WGS) and other molecular evaluation methods in plant breeding relies on the ability to genotype a very large number of untested individuals in each breeding cycle. Many plant breeding programs evaluate large biparental populations of homozygous individuals derived from homozygous parent inbred lines. This structure lends itself to parent-progeny imputation, which transfers the genotype scores of the parents to progeny individuals that are genotyped for a much smaller number of loci. Here we introduce a parent-progeny imputation method that infers individual genotypes from non-barcoded pooled samples of DNA of multiple individuals using a Hidden Markov Model (HMM). We demonstrate the method for pools of simulated maize double haploids (DH) from

SUBMITTER: Technow F 

PROVIDER: S-EPMC5741258 | biostudies-literature | 2017

REPOSITORIES: biostudies-literature