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Record number 508019
Title Molecular, genetic and evolutionary analysis of a paracentric inversion in Arabidopsis thaliana
Author(s) Fransz, Paul; Linc, Gabriella; Lee, Cheng Ruei; Aflitos, Saulo Alves; Lasky, Jesse R.; Toomajian, Christopher; Ali, Hoda; Peters, Janny; Dam, Peter van; Ji, Xianwen; Kuzak, Mateusz; Gerats, Tom; Schubert, Ingo; Schneeberger, Korbinian; Colot, Vincent; Martienssen, Rob; Koornneef, Maarten; Nordborg, Magnus; Juenger, Thomas E.; Jong, Hans de; Schranz, Eric
Source The Plant Journal 88 (2016)2. - ISSN 0960-7412 - p. 159 - 178.
DOI https://doi.org/10.1111/tpj.13262
Department(s) PRI BIOS Applied Bioinformatics
EPS
Groep KoornneefGroep Koornneef
Biosystematics
Publication type Refereed Article in a scientific journal
Publication year 2016
Keyword(s) Arabidopsis thaliana - Chromosome rearrangement - Haplotype pattern - Introgression - Phylogenetic relationship - Transposon
Abstract

Chromosomal inversions can provide windows onto the cytogenetic, molecular, evolutionary and demographic histories of a species. Here we investigate a paracentric 1.17-Mb inversion on chromosome 4 of Arabidopsis thaliana with nucleotide precision of its borders. The inversion is created by Vandal transposon activity, splitting an F-box and relocating a pericentric heterochromatin segment in juxtaposition with euchromatin without affecting the epigenetic landscape. Examination of the RegMap panel and the 1001 Arabidopsis genomes revealed more than 170 inversion accessions in Europe and North America. The SNP patterns revealed historical recombinations from which we infer diverse haplotype patterns, ancient introgression events and phylogenetic relationships. We find a robust association between the inversion and fecundity under drought. We also find linkage disequilibrium between the inverted region and the early flowering Col-FRIGIDA allele. Finally, SNP analysis elucidates the origin of the inversion to South-Eastern Europe approximately 5000 years ago and the FRI-Col allele to North-West Europe, and reveals the spreading of a single haplotype to North America during the 17th to 19th century. The 'American haplotype' was identified from several European localities, potentially due to return migration.

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