Dense genotyping-by-sequencing linkage maps of two Synthetic W7984×Opata reference populations provide insights into wheat structural diversity

Wheat ( Triticum aestivum ) genetic maps are a key enabling tool for genetic studies. We used genotyping-by-sequencing-(GBS) derived markers to map recombinant inbred line (RIL) and doubled haploid (DH) populations from crosses of W7984 by Opata, and used the maps to explore features of recombinatio...

Full description

Saved in:
Bibliographic Details
Published in:Scientific reports 2019-02, Vol.9 (1), p.1793-1793, Article 1793
Main Authors: Gutierrez-Gonzalez, Juan J., Mascher, Martin, Poland, Jesse, Muehlbauer, Gary J.
Format: Article
Language:English
Subjects:
45
631/208/8
631/449/2491
Chromosomes
Epistasis
Gene mapping
Genetic diversity
Genomes
Genotyping
Goat grass
Humanities and Social Sciences
Hybridization
Inbreeding
multidisciplinary
Population
Quantitative trait loci
Recombination
Science
Science (multidisciplinary)
Wheat
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Wheat ( Triticum aestivum ) genetic maps are a key enabling tool for genetic studies. We used genotyping-by-sequencing-(GBS) derived markers to map recombinant inbred line (RIL) and doubled haploid (DH) populations from crosses of W7984 by Opata, and used the maps to explore features of recombination control. The RIL and DH populations, SynOpRIL and SynOpDH, were composed of 906 and 92 individuals, respectively. Two high-density genetic linkage framework maps were constructed of 2,842 and 2,961 cM, harboring 3,634 and 6,580 markers, respectively. Using imputation, we added 43,013 and 86,042 markers to the SynOpRIL and SynOpDH maps. We observed preferential recombination in telomeric regions and reduced recombination in pericentromeric regions. Recombination rates varied between subgenomes, with the D genomes of the two populations exhibiting the highest recombination rates of 0.26–0.27 cM/Mb. QTL mapping identified two additive and three epistatic loci associated with crossover number. Additionally, we used published POPSEQ data from SynOpDH to explore the structural variation in W7984 and Opata. We found that chromosome 5AS is missing from W7984. We also found 2,332 variations larger than 100 kb. Structural variants were more abundant in distal regions, and overlapped 9,196 genes. The two maps provide a resource for trait mapping and genomic-assisted breeding.
ISSN:2045-2322
2045-2322
DOI:10.1038/s41598-018-38111-3