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ARS Home » Northeast Area » Ithaca, New York » Robert W. Holley Center for Agriculture & Health » Plant, Soil and Nutrition Research » Research » Publications at this Location » Publication #232673

Title: An Arabidopsis haplotype map takes root

item Buckler, Edward - Ed

Submitted to: Nature Genetics
Publication Type: Review Article
Publication Acceptance Date: 7/13/2008
Publication Date: 8/31/2008
Citation: Buckler Iv, E.S., Gore, M. 2008. An Arabidopsis haplotype map takes root. Nature Genetics.39:1056-1057.

Interpretive Summary:

Technical Abstract: Laying the foundation for an A. thaliana haplotype map, Clark et al.1 conducted a thorough array resequencing of 20 diverse A. thaliana genomes at single-base resolution. This provided a powerful catalog of genetic diversity, with more than 1 million SNPs and hypervariable regions (50-bp to >10-kb deletions and SNP clusters). More than 100,000 amino changes were identified, along with nearly 2,500 polymorphisms that should radically alter transcript or protein structure. Overall, they discovered an average of one polymorphism every 166 bp. For comparison, this polymorphism rate is 11 times that found in a human haplotype map study done with a comparable platform3. This is a tremendous amount of functional variation, which has certainly had a role in the adaptation of A. thaliana to environments throughout the globe.