ArticlePLoS genetics2016
Recombination Rate Heterogeneity within Arabidopsis Disease Resistance Genes.
Article in PLoS genetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed, 130 citations in OpenAlex.
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- The effect of DNA polymorphisms and natural variation on crossover hotspot activity in Arabidopsis hybrids.Nature communications · 2023Article
- DNA polymerase epsilon interacts with SUVH2/9 to repress the expression of genes associated with meiotic DSB hotspot inProceedings of the National Academy of Sciences of the United States of America · 2022Article
- Fast and Precise: How to Measure Meiotic Crossovers inMolecules and cells · 2022Review
- Meiosis in crops: from genes to genomes.Journal of experimental botany · 2021Review
- Natural variation identifies SNI1, the SMC5/6 component, as a modifier of meiotic crossover inProceedings of the National Academy of Sciences of the United States of America · 2021Article
- Selection for Plastic, Pathogen-Inducible Recombination in a Red Queen Model with Diploid Antagonists.Pathogens (Basel, Switzerland) · 2021Article
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Corrections and comments
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Authors and funding
14 authors at 4 institutions in 4 countries.
Funding
Abstract
Meiotic crossover frequency varies extensively along chromosomes and is typically concentrated in hotspots. As recombination increases genetic diversity, hotspots are predicted to occur at immunity genes, where variation may be beneficial. A major component of plant immunity is recognition of pathogen Avirulence (Avr) effectors by resistance (R) genes that encode NBS-LRR domain proteins. Therefore, we sought to test whether NBS-LRR genes would overlap with meiotic crossover hotspots using experimental genetics in Arabidopsis thaliana. NBS-LRR genes tend to physically cluster in plant genomes; for example, in Arabidopsis most are located in large clusters on the south arms of chromosomes 1 and 5. We experimentally mapped 1,439 crossovers within these clusters and observed NBS-LRR gene associated hotspots, which were also detected as historical hotspots via analysis of linkage disequilibrium. However, we also observed NBS-LRR gene coldspots, which in some cases correlate with structural heterozygosity. To study recombination at the fine-scale we used high-throughput sequencing to analyze ~1,000 crossovers within the RESISTANCE TO ALBUGO CANDIDA1 (RAC1) R gene hotspot. This revealed elevated intragenic crossovers, overlapping nucleosome-occupied exons that encode the TIR, NBS and LRR domains. The highest RAC1 recombination frequency was promoter-proximal and overlapped CTT-repeat DNA sequence motifs, which have previously been associated with plant crossover hotspots. Additionally, we show a significant influence of natural genetic variation on NBS-LRR cluster recombination rates, using crosses between Arabidopsis ecotypes. In conclusion, we show that a subset of NBS-LRR genes are strong hotspots, whereas others are coldspots. This reveals a complex recombination landscape in Arabidopsis NBS-LRR genes, which we propose results from varying coevolutionary pressures exerted by host-pathogen relationships, and is influenced by structural heterozygosity.
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