Figure 2

Changes in Gene Copy Number Shared by all Wine Strains: the "Commercial Wine Yeast Signature". A consensus plot pooling the results of all the wine strains relative to the lab strain S288C was generated by the program CGH-Miner [68]. This plot is similar to a karyoscope in that it displays values along each chromosome, and the chromosomes are shown in numerical order from top to bottom. However, in this plot, a determination of which regions were statistically significantly altered in copy number for each wine strain (i.e., averaged array values for each of the three isolates within a strain) relative to the laboratory S288C strain were determined. For each of these regions the number of wine strains showing a significant change were then added together to give a metric of how well-shared among the wine strains that particular change was. This is shown as tall red bars for significantly amplified regions among all wine yeast strains relative to the laboratory strain, and as tall green bars for significantly depleted regions in all the wine strains relative to the laboratory strain. Each gray "shadow line" above or below the chromosome represents 20% of the number of wine strains showing a significant change in that region (see legend). The group of changes comprising the tallest (>75%) red and green bars represents the "commercial wine strain signature"; these are listed in Table 2.