NDLI: Whole-genome association mapping in elite inbred crop varieties.

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Whole-genome association mapping in elite inbred crop varieties.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Waugh, Robbie Marshall, David Thomas, Bill Comadran, Jordi Russell, Joanne Close, Tim Stein, Nils Hayes, Pat Muehlbauer, Gary Cockram, James O'Sullivan, Donal Mackay, Ian Flavell, Andrew Ramsay, Luke
Organization	AGOUEB
Description	Country affiliation: United kingdom Author Affiliation: Waugh R ( Genetics, Scottish Crop Research Institute, Invergowrie, Dundee, Scotland DD2 5DA, UK. Robbie.Waugh@scri.ac.uk)
Abstract	We have previously shown that linkage disequilibrium (LD) in the elite cultivated barley (Hordeum vulgare) gene pool extends, on average, for <1-5 cM. Based on this information, we have developed a platform for whole genome association studies that comprises a collection of elite lines that we have characterized at 3060 genome-wide single nucleotide polymorphism (SNP) marker loci. Interrogating this data set shows that significant population substructure is present within the elite gene pool and that diversity and LD vary considerably across each of the seven barley chromosomes. However, we also show that a subpopulation comprised of only the two-rowed spring germplasm is less structured and well suited to whole genome association studies without the need for extensive statistical intervention to account for structure. At the current marker density, the two-rowed spring population is suited for fine mapping simple traits that are located outside of the genetic centromeres with a resolution that is sufficient for candidate gene identification by exploiting conservation of synteny with fully sequenced model genomes and the emerging barley physical map.
File Format	HTM / HTML
ISSN	08312796
e-ISSN	14803321
Journal	Genome
Issue Number	11
Volume Number	53
Language	English
Publisher	Canadian Science Publishing
Publisher Date	2010-11-01
Publisher Place	Canada
Access Restriction	Open
Subject Keyword	Discipline Genetics Chromosome Mapping Genome, Plant Genome-wide Association Study Hordeum Genetics Breeding Genetic Variation Linkage Disequilibrium Polymorphism, Single Nucleotide Quantitative Trait Loci Synteny Research Support, Non-u.s. Gov't Research Support, U.s. Gov't, Non-p.h.s.
Content Type	Text
Resource Type	Article
Subject	Genetics Medicine Molecular Biology Biotechnology

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