Fig. 2

Fine-scale analysis of sequence exchange events. a The number of COs and/or GCs recorded for each RIL in the Paragon × Chinese Spring population (GC/CO frequency per sample) as a frequency histogram. b Line plots separately for the number of COs (COs), GCs (GCs), and array SNPs per 20-Mbp window across the genome. All chromosomes are normalized to 500 Mbp in length to be displayed in a single plot. The moving average of each dataset is displayed (period = 15). c Schematic of methodology for calling gene conversions (GCs) and crossovers (COs) in the skim sequencing data using pre-defined Paragon and Chinese Spring-specific homozygous SNPs. d Immunolocalization of the chromosome axis protein ASY1 (blue) and yH2A.X (red) a marker for DNA DSB on hexaploid wheat leptotene male meiotic nuclei. Scale bar = 10 μM. e Original nuclei as per d; however, yH2A.X foci are marked that co-localize with ASY1. Mean number of yH2A.X foci across five replicates are shown from the displayed image n = 1673. f Line plots separately for the number of GCs 20 bp–2 kbp, 2–10 kbp, 10–500 kbp, and > 500 kbp in length per 20-Mbp window across the genome. Chromosomes are normalized as per b and the average frequency per window is displayed