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Originally published as Genetics Published Articles Ahead of Print on October 11, 2005.
Genetics, Vol. 172, 557-567, January 2006, Copyright © 2006
doi:10.1534/genetics.104.038489
Extreme Population-Dependent Linkage Disequilibrium Detected in an Inbreeding Plant Species, Hordeum vulgare
Katherine S. Caldwell*,
,1,
Joanne Russell*,
Peter Langridge,
and
Wayne Powell*,2
* Scottish Crop Research Institute, Invergowrie, Dundee DD2 5DA, Scotland, University of Adelaide, School of Agriculture and Wine, Glen Osmond, South Australia 5064, Australia and Australian Centre for Plant Functional Genomics, University of Adelaide, Glen Osmond, South Australia 5064, Australia
2 Corresponding author: NIAB, Huntingdon Rd., Cambridge CB3 0LE, United Kingdom.
E-mail: wayne.powell{at}niab.com
In human genetics a detailed knowledge of linkage disequilibrium (LD) is considered a prerequisite for effective population-based, high-resolution gene mapping and cloning. Similar opportunities exist for plants; however, differences in breeding system and population history need to be considered. Here we report a detailed study of localized LD in different populations of an inbreeding crop species. We measured LD between and within four gene loci within the region surrounding the hardness locus in three different gene pools of barley (Hordeum vulgare). We demonstrate that LD extends to at least 212 kb in elite barley cultivars but is rapidly eroded in related inbreeding ancestral populations. Our results indicate that haplotype-based sequence analysis in multiple populations will provide new opportunities to adjust the resolution of association studies in inbreeding crop species.
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