De novo assembly of the perennial ryegrass transcriptome using an RNA-Seq strategy.

ABSTRACT:

Background

Perennial ryegrass is a highly heterozygous outbreeding grass species used for turf and forage production. Heterozygosity can affect de-Bruijn graph assembly making de novo transcriptome assembly of species such as perennial ryegrass challenging. Creating a reference transcriptome from a homozygous perennial ryegrass genotype can circumvent the challenge of heterozygosity. The goals of this study were to perform RNA-sequencing on multiple tissues from a highly inbred genotype to develop a reference transcriptome. This was complemented with RNA-sequencing of a highly heterozygous genotype for SNP calling.

Result

De novo transcriptome assembly of the inbred genotype created 185,833 transcripts with an average length of 830 base pairs. Within the inbred reference tra

SUBMITTER: Farrell JD 

PROVIDER: S-EPMC4134189 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature