ArticleGenome biology2017
Meiotic crossovers are associated with open chromatin and enriched with Stowaway transposons in potato.
Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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46 citing papers in PubMed.
- On the origin of PRDM9-guided recombination hotspots.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Wild tomato genome assemblies reveal structural variants and repeat content act as recombination barriers.Nature communications · 2026Article
- Miniature inverted repeat transposable elements in the genome of sugar beet and their impact on gene expression.Scientific reports · 2025Article
- mop1 affects maize recombination landscapes by modulating methylation of MITEs near genes in open chromatin.Nature communications · 2025Article
- Direct detection of meiotic recombination events in the highly heterozygous amphioxus genome.Advanced biotechnology · 2025Article
- Genomic Divergence Shaped the Genetic Regulation of Meiotic Homologous Recombination in Brassica Allopolyploids.Molecular biology and evolution · 2025Article
- Rapid formation of stable autotetraploid rice from genome-doubled F1 hybrids of japonica-indica subspecies.Nature plants · 2025Article
- Exploring intra- and intergenomic variation in haplotype-resolved pangenomes.Plant biotechnology journal · 2025Article
- The Quest for thePotato research · 2025Article
- Alternating between even and odd ploidy levels switches on and off the recombination control, even near the centromeres.The Plant cell · 2024Article
- Diversity in Recombination Hotspot Characteristics and Gene Structure Shape Fine-Scale Recombination Patterns in Plant Genomes.Molecular biology and evolution · 2024Article
- Causes and consequences of a complex recombinational landscape in the antGenome research · 2024Article
- High prevalence of PRDM9-independent recombination hotspots in placental mammals.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Molecular mechanisms and regulation of recombination frequency and distribution in plants.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2024Review
- The effect of marker types and density on genomic prediction and GWAS of key performance traits in tetraploid potato.Frontiers in plant science · 2024Article
- Epigenetic regulation during meiosis and crossover.Physiology and molecular biology of plants : an international journal of functional plant biology · 2023Review
- Comprehensive dissection of meiotic DNA double-strand breaks and crossovers in cucumber.Plant physiology · 2023Article
- Genomic features of meiotic crossovers in diploid potato.Horticulture research · 2023Article
- Recombination hotspots in soybean [Glycine max (L.) Merr.].G3 (Bethesda, Md.) · 2023Article
- Crossover patterning in plants.Plant reproduction · 2023Review
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12 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundMeiotic recombination is the foundation for genetic variation in natural and artificial populations of eukaryotes. Although genetic maps have been developed for numerous plant species since the late 1980s, few of these maps have provided the necessary resolution needed to investigate the genomic and epigenomic features underlying meiotic crossovers.
resultsUsing a whole genome sequencing-based approach, we developed two high-density reference-based haplotype maps using diploid potato clones as parents. The vast majority (81%) of meiotic crossovers were mapped to less than 5 kb. The fine-scale accuracy of crossover detection was validated by Sanger sequencing for a subset of ten crossover events. We demonstrate that crossovers reside in genomic regions of "open chromatin", which were identified based on hypersensitivity to DNase I digestion and association with H3K4me3-modified nucleosomes. The genomic regions spanning crossovers were significantly enriched with the Stowaway family of miniature inverted-repeat transposable elements (MITEs). The occupancy of Stowaway elements in gene promoters is concomitant with an increase in recombination rate. A generalized linear model identified the presence of Stowaway elements as the third most important genomic or chromatin feature behind genes and open chromatin for predicting crossover formation over 10-kb windows.
conclusionsCollectively, our results suggest that meiotic crossovers in potato are largely determined by the local chromatin status, marked by accessible chromatin, H3K4me3-modified nucleosomes, and the presence of Stowaway transposons.
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