Sequencing-based variant detection in the polyploid crop oilseed rape.

ABSTRACT:

Background

The detection and exploitation of genetic variation underpins crop improvement. However, the polyploid nature of the genomes of many of our most important crops represents a barrier, particularly for the analysis of variation within genes. To overcome this, we aimed to develop methodologies based on amplicon sequencing that involve the incorporation of barcoded amplification tags (BATs) into PCR products.

Results

A protocol was developed to tag PCR products with 5' 6-base oligonucleotide barcode extensions before pooling for sequencing library production using standard Illumina adapters. A computational method was developed for the de-convolution of products and the robust detection and scoring of sequence variants. Using this methodology, amplicons targeted to ge

SUBMITTER: Wells R 

PROVIDER: S-EPMC3750413 | biostudies-literature | 2013 Aug

REPOSITORIES: biostudies-literature