Genome-wilde expression profiling analysis of yeast cells lacking the decapping activator Scd6

To assess the role of the decapping activator Scd6 in mRNA decay, we used RNA-Seq to analyze the expression profile of yeast cells harboring a deletion of the SCD6 gene. Consistent with our recent model for decapping regulation, we found that Scd6 targets a small number of specific mRNAs in yeast cells. Interestingly, degradation of Scd6-targeted transcripts also requires the functions of the decapping activators Pat1, Lsm1, and Dhh1, suggesting that Scd6 functions together with Pat1, Lsm1, and Dhh1 in promoting mRNA decapping. Genome-wide expression profiles of the wild-type and scd6∆ strains were generated by RNA-Seq, in triplicate, using Illumina HiSeq4000. Transcripts differentially expressed in the scd6∆ strain were identified by comparing to the wild-type strain.