Figure 3

Karyoscope maps of strains Lalvin ICV D254 (A) and J940915 (B). In order to visualize the gene copy number alterations along chromosomes and to have a global overview of the alterations detected by aCGH, the data was plotted along each chromosome, using the annotated ORF coordinates of S288C. Vertical bars represent the relative hybridization pattern relatively to the genome of strain S288C. Red bars correspond to amplified ORFs, green bars represent deleted ORFs and grey bars are statistically non-significant alterations (FDR <0.279). The horizontal lines indicate the hybridization ratios in logarithmic scale. Signals of repeated ORFs, such as those of Ty elements or repetitive sequences flanking Ty element insertion sites, correspond to the average signal rather than the individual signal dosage of that sequence. Clusters of altered ORFs contained roughly one third of Ty -ORFs and contributed to localization of the chromosome alterations following the genome coordinates of the S288C strain.