{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,24]],"date-time":"2025-10-24T07:58:32Z","timestamp":1761292712277},"reference-count":45,"publisher":"Wiley","issue":"4","license":[{"start":{"date-parts":[[2010,6,1]],"date-time":"2010-06-01T00:00:00Z","timestamp":1275350400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["The Plant Journal"],"published-print":{"date-parts":[[2010,8]]},"abstract":"<jats:title>Summary<\/jats:title><jats:p>Genome\u2010wide association studies rely upon segregating natural genetic variation, particularly the patterns of polymorphism and correlation between adjacent markers. To facilitate association studies in the model legume <jats:italic>Medicago truncatula<\/jats:italic>, we present a genome\u2010scale polymorphism scan using existing Affymetrix microarrays. We develop and validate a method that uses a simple information\u2010criteria algorithm to call polymorphism from microarray data without reliance on a reference genotype. We genotype 12 inbred <jats:italic>M.\u00a0truncatula<\/jats:italic> lines sampled from four wild Tunisian populations and find polymorphisms at approximately 7% of features, comprising 31\u2003419 probes. Only approximately 3% of these markers assort by population, and of these only 10% differentiate between populations from saline and non\u2010saline sites. Fifty\u2010two differentiated probes with unique genome locations correspond to 18 distinct genome regions. Sanger resequencing was used to characterize a subset of maker loci and develop a single nucleotide polymorphism (SNP)\u2010typing assay that confirmed marker assortment by habitat in an independent sample of 33 individuals from the four populations. Genome\u2010wide linkage disequilibrium (LD) extends on average for approximately 10\u2003kb, falling to background levels by approximately 500\u2003kb. A similar range of LD decay was observed in the 18 genome regions that assort by habitat; these LD blocks delimit candidate genes for local adaptation, many of which encode proteins with predicted functions in abiotic stress tolerance and are targets for functional genomic studies. Tunisian <jats:italic>M.\u00a0truncatula<\/jats:italic> populations contain substantial amounts of genetic variation that is structured in relatively small LD blocks, suggesting a history of migration and recombination. These populations provide a strong resource for genome\u2010wide association studies.<\/jats:p>","DOI":"10.1111\/j.1365-313x.2010.04267.x","type":"journal-article","created":{"date-parts":[[2010,6,2]],"date-time":"2010-06-02T01:43:50Z","timestamp":1275443030000},"page":"623-635","update-policy":"http:\/\/dx.doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":29,"title":["Population genomic analysis of Tunisian <i>Medicago truncatula<\/i> reveals candidates for local adaptation"],"prefix":"10.1111","volume":"63","author":[{"given":"Maren L.","family":"Friesen","sequence":"first","affiliation":[]},{"given":"Matilde A.","family":"Cordeiro","sequence":"additional","affiliation":[]},{"given":"R. Varma","family":"Penmetsa","sequence":"additional","affiliation":[]},{"given":"Mounawer","family":"Badri","sequence":"additional","affiliation":[]},{"given":"Thierry","family":"Huguet","sequence":"additional","affiliation":[]},{"given":"Mohamed E.","family":"Aouani","sequence":"additional","affiliation":[]},{"given":"Douglas R.","family":"Cook","sequence":"additional","affiliation":[]},{"given":"Sergey V.","family":"Nuzhdin","sequence":"additional","affiliation":[]}],"member":"311","published-online":{"date-parts":[[2010,8,12]]},"reference":[{"key":"e_1_2_7_2_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.0010060"},{"key":"e_1_2_7_3_1","doi-asserted-by":"publisher","DOI":"10.1017\/S0016672307008725"},{"key":"e_1_2_7_4_1","doi-asserted-by":"publisher","DOI":"10.1002\/j.1537-2197.1996.tb12776.x"},{"key":"e_1_2_7_5_1","doi-asserted-by":"publisher","DOI":"10.1046\/j.1365-294X.2001.01278.x"},{"key":"e_1_2_7_6_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.541303"},{"key":"e_1_2_7_7_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0705323104"},{"key":"e_1_2_7_8_1","volume-title":"Model Selection and Multimodel Inference: A Practical Information\u2010theoretic Approach","author":"Burnham K.P.","year":"2002"},{"key":"e_1_2_7_9_1","doi-asserted-by":"publisher","DOI":"10.1534\/genetics.104.038489"},{"key":"e_1_2_7_10_1","unstructured":"Chaulet E.andProsperi 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