A highly robust and optimized sequence-based approach for genetic polymorphism discovery and genotyping in large plant populations.

ABSTRACT:

Key message

This optimized approach provides both a computational tool and a library construction protocol, which can maximize the number of genomic sequence reads that uniformly cover a plant genome and minimize the number of sequence reads representing chloroplast DNA and rRNA genes. One can implement the developed computational tool to feasibly design their own RAD-seq experiment to achieve expected coverage of sequence variant markers for large plant populations using information of the genome sequence and ideally, though not necessarily, information of the sequence polymorphism distribution in the genome. Advent of the next generation sequencing techniques motivates recent interest in developing sequence-based identification and genotyping of genome-wide genetic variants in la

SUBMITTER: Jiang N 

PROVIDER: S-EPMC4983294 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature