Analysis of smaller swapped segments reveals multiple distinct effects on transcription, mRNA degradation and their coupling. (a) Scheme describing the generation of a series of sequential S. cerevisiae Swap strains by replacing the different fractions of the native S. cerevisiae promoter and 5' UTR with the orthologous sequences from S. paradoxus. (b,d) Log2-ratio of mRNA levels in the Swapped versus WT strains after transcriptional arrest of MRI1 (b) and YLR326W (d). Error bars reflect standard error among two or four biological replicates (see Materials and methods). (c,e) Differences in mRNA degradation rates estimated using the linear least square fits shown in (b,d). Swap strains were classified into clusters by starting from a single cluster for all strains and separating consecutive strains into distinct clusters if they are significantly different (P < 0.05) in mRNA levels and/or mRNA degradation; the significant changes are noted by arrows.
Dori-Bachash et al. Genome Biology 2012 13:R114 doi:10.1186/gb-2012-13-12-r114