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Fig. 2 | Genome Biology

Fig. 2

From: Meiotic crossovers are associated with open chromatin and enriched with Stowaway transposons in potato

Fig. 2

Validation of map construction and crossover resolution. a Seven deletion PCR markers were designed using the heterozygous parent US-W4. A random subset of individuals from the F1 population (n = 56) was used to screen these markers to validate the SNV-based haplotype map. Here, we illustrate a crossover event between the coordinates of 64 and 66 Mb for F1 individual 34 and PCR-based genotyping methodology for a subset of six genotypes. The genotype call is written above the bands for each individual as denoted by the F1 individual ID. The only individual with a change in its genotype call (due to a crossover) is the F1 individual 34. A single band within a lane represents a homozygote and two bands per lane indicates a heterozygote. Deletion markers were selected based on homozygosity in M6 and heterozygosity in US-W4. Red, haplotype 1 and genotype “A”; blue, haplotype 2 and genotype “B”. b Sanger sequencing of a fine-resolution crossover. The top two sequences are the two US-W4 haplotypes, differentiated by red and blue polymorphisms, respectively, while the bottom sequence is the result of Sanger sequencing a single crossover from one recombinant individual and is chimeric with respect to the two haplotypes

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