The effect of DNA polymorphisms and natural variation on crossover hotspot activity in Arabidopsis hybrids

Maja Szymanska-Lejman, Wojciech Dziegielewski, Julia Dluzewska, Nadia Kbiri, Anna Bieluszewska, R. Scott Poethig and Piotr A. Ziolkowski ()
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Maja Szymanska-Lejman: Adam Mickiewicz University
Wojciech Dziegielewski: Adam Mickiewicz University
Julia Dluzewska: Adam Mickiewicz University
Nadia Kbiri: Adam Mickiewicz University
Anna Bieluszewska: Adam Mickiewicz University
R. Scott Poethig: University of Pennsylvania
Piotr A. Ziolkowski: Adam Mickiewicz University

Nature Communications, 2023, vol. 14, issue 1, 1-16

Abstract: Abstract In hybrid organisms, genetically divergent homologous chromosomes pair and recombine during meiosis; however, the effect of specific types of polymorphisms on crossover is poorly understood. Here, to analyze this in Arabidopsis, we develop the seed-typing method that enables the massively parallel fine-mapping of crossovers by sequencing. We show that structural variants, observed in one of the generated intervals, do not change crossover frequency unless they are located directly within crossover hotspots. Both natural and Cas9-induced deletions result in lower hotspot activity but are not compensated by increases in immediately adjacent hotspots. To examine the effect of single nucleotide polymorphisms on crossover formation, we analyze hotspot activity in mismatch detection-deficient msh2 mutants. Surprisingly, polymorphic hotspots show reduced activity in msh2. In lines where only the hotspot-containing interval is heterozygous, crossover numbers increase above those in the inbred (homozygous). We conclude that MSH2 shapes crossover distribution by stimulating hotspot activity at polymorphic regions.

Date: 2023
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DOI: 10.1038/s41467-022-35722-3

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