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The Repertoire and Dynamics of Evolutionary Adaptations to Controlled Nutrient-Limited Environments in Yeast

Figure 2

SUL1 is amplified in multiple independent evolutions.

(A) Amplified fragments that include the gene SUL1 were identified in clones recovered from all sulfate evolutions. Amplicons, in red, span the length of the CGH signal deviation from wildtype ploidy (in gray). The height of the amplicon reflects the copy number relative to wildtype (gray bars, height scaled to haploid or diploid copy number as appropriate). The number of copies of amplified fragments was determined by averaging CGH data from two clones from each population, with the exception of populations S1 and S2, in which only one clone was used due to disagreement between the clones. We analyzed two of these amplicons in further detail using a high density overlapping tiling microarray. The breakpoints for SUL1 amplifications were precisely mapped in the haploid clone S2c1 (B) and the diploid clone S4c1 (C). Complete data are shown for the ratio between independent hybridizations of evolved and ancestral DNA for the 7356 probes that span chromosomal coordinates 780003-813512 of chromosome II. A running median was computed using the R function runmed with a median window width of 201 (red line).

Figure 2

doi: https://doi.org/10.1371/journal.pgen.1000303.g002