Evaluation of nine statistics to identify QTLs in bulk segregant analysis using next generation sequencing approaches.

ABSTRACT:

Background

Bulk segregant analysis (BSA) combined with next generation sequencing is a powerful tool to identify quantitative trait loci (QTL). The impact of the size of the study population and the percentage of extreme genotypes analysed have already been assessed. But a good comparison of statistical approaches designed to identify QTL regions using next generation sequencing (NGS) technologies for BSA is still lacking.

Results

We developed an R code to simulate QTLs in bulks of F2 contrasted lines. We simulated a range of recombination rates based on estimations using different crop species. The simulations were used to benchmark the ability of statistical methods identify the exact location of true QTLs. A single QTL led to a shift in allele frequency across a large fra

SUBMITTER: de la Fuente Canto C 

PROVIDER: S-EPMC9258084 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature