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PMID: 24347547 Published · epublish English Journal Article Research Support, Non-U.S. Gov't

The genomic landscape of meiotic crossovers and gene conversions in Arabidopsis thaliana.

eLife ·Vol. 2 ·2013-12-17 ·Pages e01426

Wijnker E, Velikkakam James G, Ding J, Becker F, Klasen JR, Rawat V, Rowan BA, de Jong DF, de Snoo CB, Zapata L, Huettel B, de Jong H, Ossowski S, Weigel D, Koornneef M, Keurentjes JJ, Schneeberger K

Abstract

Knowledge of the exact distribution of meiotic crossovers (COs) and gene conversions (GCs) is essential for understanding many aspects of population genetics and evolution, from haplotype structure and long-distance genetic linkage to the generation of new allelic variants of genes. To this end, we resequenced the four products of 13 meiotic tetrads along with 10 doubled haploids derived from Arabidopsis thaliana hybrids. GC detection through short reads has previously been confounded by genomic rearrangements. Rigid filtering for misaligned reads allowed GC identification at high accuracy and revealed an ∼80-kb transposition, which undergoes copy-number changes mediated by meiotic recombination. Non-crossover associated GCs were extremely rare most likely due to their short average length of ∼25-50 bp, which is significantly shorter than the length of CO-associated GCs. Overall, recombination preferentially targeted non-methylated nucleosome-free regions at gene promoters, which showed significant enrichment of two sequence motifs. DOI: http://dx.doi.org/10.7554/eLife.01426.001.

Keywords
double strand break repair gene conversion meiotic recombination meiotic tetrads next generation sequencing
MeSH Terms
Arabidopsis/genetics Crossing Over, Genetic Gene Conversion Genome, Plant Haploidy Meiosis/genetics
Authors & Affiliations
17 authors, click to expand affiliations / ORCID
Wijnker Erik
Laboratory of Genetics, Wageningen University, Wageningen, Netherlands.
Velikkakam James Geo
Ding Jia
Becker Frank
Klasen Jonas R
Rawat Vimal
Rowan Beth A
de Jong Daniël F
de Snoo C Bastiaan
Zapata Luis
Huettel Bruno
de Jong Hans
Ossowski Stephan
Weigel Detlef
Koornneef Maarten
Keurentjes Joost Jb
Schneeberger Korbinian
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Article Info
Journal
eLife
Abbr.
Elife
ISSN
2050-084X
DOI
10.7554/eLife.01426
Published
2013-12-17
Epub
2013-00-17
Pages
e01426
Language
English
Region
England
NLM ID
101579614
PMCID
PMC3865688
Subset
IM
External Links
PubMed source DOI: 10.7554/eLife.01426 PMC Full Text View journal details
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