Ormamide. (PDF) Table S1 E-MAP profiles of rpb1-CTD11, 12, 13, 20 and full Met Inhibitor Compound length mutants. (XLSX) Table S2 Gene expression profile of strains containing 11 or 12 heptapeptide repeats with or devoid of deletion of CDK8 and strains containing 13 or 20 repeats or complete length CTD (see attached excel file). M value is definitely the log2 of your ratio amongst the two samples per gene. (XLSX) Table SSupporting InformationFigure S1 Sample genetic interaction network of CTD truncations mutants revealed CTD length-dependent genetic interactions. Subsets of genetic interaction profiles depicting genes involved in transcription and how they interacted using the CTD since it was progressively shortened. Blue and yellow represent aggravating and alleviating genetic interactions respectively. Gray boxes represent missing values. (PDF) Figure S2 Comparison of previously published Rpb3 genome-wide association profiles. (A) CHROMATRA plots of RNAPII XIAP Antagonist Storage & Stability occupancy [69]. Relative occupancy of previously published Rpb3 profiles across all transcripts sorted by their length and transcriptional frequency and aligned by their TSSs. Transcripts had been grouped into five classes according to their transcriptional frequency as per Holstege et al 1998. (B) Chromosome plot of a 55-kilobase pair area on chromosome 5 (genomic positions 50,00005,000). (PDF)Figure S3 Truncation of the RNAPII CTD results in changes in the genome-wide association of transcription association things. (A, B, C and D) CHROMATRA plots of relative occupancy of transcriptional linked components [69]. Relative occupancy of TFIIB, Cet1, Elf1 and H3K36me3 across all transcripts sorted by their length and transcriptional frequency and aligned by their TSSs. Transcripts have been grouped into five classes in accordance with their transcriptional frequency as per Holstege et al 1998. (PDF) Figure S4 Deletion of CDK8 suppressed CTD-associated growthBiological approach gene ontology terms enriched in genes with increased or decreased mRNA levels within the rpb1CTD11 mutant. (XLS)Table S4 Biological Process gene ontology terms enriched within the subset of genes with enhanced or decreased mRNA levels that were suppressed by loss of CDK8 in rpb1-CTD11 mutants. (XLS) Table S5 Strains made use of within this study.phenotypes. (A) The sensitivity of CTD truncation mutants containing 11 or 12 repeats to identified and novel growth conditions was suppressed by deleting CDK8. Ten-fold serial dilutions of strains containing the indicated CTD truncations with and with no deletion of CDK8 were plated and incubated on YPD media at 16, 30 and 37uC and YPD media containing the indicated concentrations of hydroxyurea or formamide. (B) Immunoblots of entire cell extracts with CTD phosphorylation certain antibodies. YN-18 detects the N-terminus of Rpb1 and was employed as a handle for Rpb1 protein levels. Rpb3 was used as a loading control. (PDF)Figure S(XLS)Table S6 Plasmids employed in this study.(XLS)Table S7 Primers applied in this study.(XLS)AcknowledgmentsWe thank Dr. A. Wang, G. Leung, Dr. J Archambault, Dr. C. J Ingles and Dr. Ivan Sadowski for essential readings and discussions from the manuscript. We thank Dr. Youming Xie (Wayne State University) for the Rpn4 plasmids.Genome-wide Cdk8 occupancy plots agreed with earlier reports. Average Cdk8 occupancy at all genes separated by transcriptional frequency revealed a preference of Cdk8 for binding towards the promoter of very transcribed genes (left) and confirmed that Cdk8 binding at coding regions was independent of transcriptiona.
