Using genotype imputation to integrate Canola populations for genome-wide association and genomic prediction of blackleg resistance.

ABSTRACT:

Background

Integrating germplasm populations genotyped by different genotyping platforms via genotype imputation is a way to utilize accumulated genetic resources. In this study, we used 278 canola samples genotyped via whole-genome sequencing (WGS) at 10× coverage to evaluate the imputation accuracy of three imputation approaches. The optimal imputation methods were used to impute and integrate two Canola genotype datasets: a diverse canola collection genotyped by genotyping-by-sequencing via transcriptome (GBS-t) and a double haploid (DH) line collection genotyped with low-coverage WGS (skim-WGS). The genomic predictive ability (GP) and detection power of marker‒trait association (GWAS) of the combined population for blackleg resistance were evaluated.

Results

The empirica

SUBMITTER: Zhao H 

PROVIDER: S-EPMC11877698 | biostudies-literature | 2025 Mar

REPOSITORIES: biostudies-literature