The Pattern of Polymorphism in Arabidopsis thaliana

• DOI: 10.1371/journal.pbio.0030196
• Publication Date: 2005-05-20T14:45:32Z
• Authors: Magnus Nordborg; Tina T Hu; Yoko Ishino; Jinal Jhaveri; Christopher Tooma...; Honggang Zheng; Erica Bakker; Peter Calabrese; Jean Gladstone; Rana Goyal; Mattias Jakobsson; Sung Kim; Yuri Morozov; Badri Padhukasaha...; Vincent Plagnol; Noah A Rosenberg; Chitiksha Shah; Jeffrey D Wall; Jue Wang; Keyan Zhao; Theodore Kalbfleisch; Vincent Schulz; Martin Kreitman; Joy Bergelson
• Keywords: Linkage Disequilibrium; Selfing

We resequenced 876 short fragments in a sample of 96 individuals Arabidopsis thaliana that included stock center accessions as well hierarchical from natural populations. Although A. is selfing weed, the pattern polymorphism general agrees with what expected for widely distributed, sexually reproducing species. Linkage disequilibrium decays rapidly, within 50 kb. Variation shared worldwide, although population structure and isolation by distance are evident. The data fail to fit standard neutral models several ways. There genome-wide excess rare alleles, at least partially due selection. too much variation between genomic regions level polymorphism. local negatively correlated gene density positively segmental duplications. Because do not theoretical null distributions, attempts infer selection will require surveys order identify anomalous regions. Despite this, our support utility model evolutionary functional genomics.