Extended Data Fig. 5: QTL associated with the hypermutator phenotype span a chromosomal translocation.

(A) Nanopore whole-genome sequencing followed by synteny analysis was used to identify all indicated genomic rearrangements with respect to the reference strain H99. There is a chromosomal translocation between Chr3 and Chr11 unique to H99, and a translocation between H99 Chr1 and Chr13 unique to Bt65 and Bt81. Phylogenetic relationships of these strains are depicted in the top schematic, telomeric repeat sequences accurately identified in genomic assemblies are indicated by black half circles, and centromeres are indicated by white circles. (B) Haplotype maps of Bt65 x H99 crg1Δ F₁ progeny utilized for QTL mapping. For QTLs on Chr3 and Chr11, the haplotypes (x-axis) are inferred by SNP data per segregant (y-axis) and coloured blue or orange if inherited from H99 crg1Δ or Bt65, respectively. Segregants are sorted along the y-axis by their mutation rate; largest to smallest, top to bottom. Vertical red lines display boundaries of the QTL(s). Vertical black lines depict approximate location of the translocation between H99 and Bt65. Boundaries of the QTG, ZNF3, are depicted by vertical green lines. Vertical white spaces indicate approximate locations of centromeres.