Journal
PLANT JOURNAL
Volume 102, Issue 3, Pages 480-492Publisher
WILEY
DOI: 10.1111/tpj.14640
Keywords
recombination bin mapping; tomato; crossover recombination; gene conversion; S; pimpinellifolium; recombination hot spots; recombination cold spots
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Funding
- MEICOM Marie Sklodowska-Curie Innovative training Network (ITN), H2020-MSCA-ITN-2017 Horizon 2020 Grant [765212]
- Marie Curie Actions (MSCA) [765212] Funding Source: Marie Curie Actions (MSCA)
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Genome wide screening of pooled pollen samples from a single interspecific F1 hybrid obtained from a cross between tomato, Solanum lycopersicum and its wild relative, Solanum pimpinellifolium using linked read sequencing of the haploid nuclei, allowed profiling of the crossover (CO) and gene conversion (GC) landscape. We observed a striking overlap between cold regions of CO in the male gametes and our previously established F6 recombinant inbred lines (RILs) population. COs were overrepresented in non-coding regions in the gene promoter and 5 ' UTR regions of genes. Poly-A/T and AT rich motifs were found enriched in 1 kb promoter regions flanking the CO sites. Non-crossover associated allelic and ectopic GCs were detected in most chromosomes, confirming that besides CO, GC represents also a source for genetic diversity and genome plasticity in tomato. Furthermore, we identified processed break junctions pointing at the involvement of both homology directed and non-homology directed repair pathways, suggesting a recombination machinery in tomato that is more complex than currently anticipated.
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