An ultra-high density genetic linkage map of perennial ryegrass (Lolium perenne) using genotyping by sequencing (GBS) based on a reference shotgun genome assembly | Zendy

Janaki Velmurugan | Zendy; Ewan Mollison | Zendy; Susanne Barth | Zendy; David Marshall | Zendy; Linda Milne | Zendy; Christopher J. Creevey | Zendy; Bridget Lynch | Zendy; Helena Meally | Zendy; Matthew S. McCabe | Zendy; Dan Milbourne | Zendy

Open Access

An ultra-high density genetic linkage map of perennial ryegrass (Lolium perenne) using genotyping by sequencing (GBS) based on a reference shotgun genome assembly

Author(s) -

Janaki Velmurugan,

Ewan Mollison,

Susanne Barth,

David Marshall,

Linda Milne,

Christopher J. Creevey,

Bridget Lynch,

Helena Meally,

Matthew S. McCabe,

Dan Milbourne

Publication year - 2016

Publication title -

annals of botany

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 1.567

H-Index - 176

eISSN - 1095-8290

pISSN - 0305-7364

DOI - 10.1093/aob/mcw081

Subject(s) - biology , reference genome , sequence assembly , genetics , contig , population , shotgun sequencing , genome , illumina dye sequencing , lolium , single nucleotide polymorphism , gene , genotype , botany , transcriptome , gene expression , demography , poaceae , sociology

High density genetic linkage maps that are extensively anchored to assembled genome sequences of the organism in question are extremely useful in gene discovery. To facilitate this process in perennial ryegrass (Lolium perenne L.), a high density single nucleotide polymorphism (SNP)- and presence/absence variant (PAV)-based genetic linkage map has been developed in an F2 mapping population that has been used as a reference population in numerous studies. To provide a reference sequence to which to align genotyping by sequencing (GBS) reads, a shotgun assembly of one of the grandparents of the population, a tenth-generation inbred line, was created using Illumina-based sequencing.

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