Figure 1. Trichoderma reesei QM6a/CBS999.97(MAT1-1) hybrid meiosis generates interhomolog recombination products. (A) NGS-based mapping of meiotic recombination products. The first trace represents a graph of GC content (window size 5000 bp) for the telomere-to-telomere sequence of the first QM6a chromosome. Nucleotide sequences of QM6a (in blue), CBS999.97(MAT1-1) (in red) and the four representative F1 progeny are shown. Due to the short lengths of NGS reads, it is difficult to accurately assemble the nucleotide sequences of chromosome regions (in white) hosting repetitive and/or high AT-biased sequences. (B) TGS-based mapping of meiotic recombination products using the newly developed software program TSETA (https://pubmed.ncbi.nlm.nih.gov/33165796/). The first two horizontal rows of sequence data represent the full-length sequences of the third chromosomes (ChIII) of QM6a (in cyan) and CBS999.97(MAT1-1) (in magenta). The next four horizontal rows of sequence data represent full-length ChIII of the four representative F1 progeny, respectively. Nucleotide sequences identical to those of parental QM6a and CBS999.97(MAT1-1) are also indicated in cyan and magenta, respectively. COs are located where 2:2 markers undergo a reciprocal genotype change. The strain-specific or gapped (deletion) regions are colored \"white\". The positions of COs, 0:4, 1:3, 3:1 and 4:0 SNP or InDel markers, as well as RIP mutations, illegitimate mutations and illegitimate deletions (i.e., 1n:3, 2n:2, 3n:1 or 4n:0 segregation markers) are indicated by vertical lines.