Extended Data Figure 5: Genomic rearrangements and transcriptional dysregulation in rad21-K1.

a, Microarray comparative genomic hybridization profile of rad21-K1. Genomic DNA isolated from rad21-K1 and wild type was labelled with cy5-dCTP and cy3-dCTP, respectively. The log₂(cy5/cy3 signal ratio) was plotted to detect copy number differences between the two strains. Several copy number gains were identified in rad21-K1. All changes were flanked by highly homologous sequences. SPAC212.08c and SPAC212.12 share a 372-bp DNA stretch that shows 97% sequence similarity. SPAC27D7.09c and SPAC27D7.11c share a 560-bp DNA stretch that shows 88% sequence similarity. Pericentromeric heterochromatin contains a specific class of repeat elements, referred to as dg/dh repeats. b, Relative expression values (mutants/wild type) were plotted to detect read-through transcripts in the indicated strains. All pairs of convergent genes were aligned at the 3′ end of the second gene in the pair. Note that rad21-K1 cells show increased levels of read-through transcripts that were further enhanced in a pht1Δ rad21-K1 double mutant lacking the histone variant H2A.Z known to prevent their accumulation³⁵.