A high-throughput pipeline for detecting locus-specific polymorphism in hexaploid wheat (Triticum aestivum L.).

ABSTRACT:

Background

Bread wheat (Triticum aestivum L., 2n = 6x = 42) is an allohexaploid with a huge genome. Due to the presence of extensive homoeologs and paralogs, generating locus-specific sequences can be challenging, especially when a large number of sequences are required. Traditional methods of generating locus-specific sequences are rather strenuous and time-consuming if large numbers of sequences are to be handled.

Results

To improve the efficiency of isolating sequences for targeted loci, a time-saving and high-throughput pipeline integrating orthologous sequence alignment, genomic sequence retrieving, and multiple sequence alignment was developed. This pipeline was successfully employed in retrieving and aligning homoeologous sequences and 83% of the primers designed base

SUBMITTER: Ma J 

PROVIDER: S-EPMC4524443 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature