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Fig. 5 | Genome Biology

Fig. 5

From: Gamete binning: chromosome-level and haplotype-resolved genome assembly enabled by high-throughput single-cell sequencing of gamete genomes

Fig. 5

Structural genome variations and meiotic recombination. Top: recombination landscape created with sliding windows of 500 kb at a step of 50 kb with COs detected in all single pollen nuclei (with coverage over 0.1x), coupled with SNP density and gene density. For x-axis, coordinates were based on the haploid assembly of “Currot” genotype. For y-axis, all features were scaled to 1.0, which stands for a maximum of 18 for recombination frequency (cM/Mb), 7410 for SNP density and 480 for gene density. Bottom: structural variations (> 50 kb) identified between the two haploid assemblies. In general, crossovers are almost completely absent in SVs, for example, at LG2:11.0–14.5 Mb (inversion case) and LG5:16.0–18.2 Mb (translocation case). Variants spanning over 500 kb are labeled as vxy, where x denotes the chromosome number and y the identifier of the variant in the chromosome. All these large variants were confirmed within Hi-C contact maps (Fig. 3e, Additional file 1: Figs. S9–16)

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