Supplemental Material for Razzaq, et al., 2021

Supplemental figures, tables, and files for Genetics manuscript "The SAGA and NuA4 component Tra1 regulates Candida albicans drug resistance and pathogenesis - Supplemental files"<br><b>Figure S1. Regulatory associations of Sfp1 with the <i>tra1_Q3</i> differentially expressed genes in <i>S. cerevisiae</i>. </b>Sfp1<b> </b>associations with differentially expressed genes in the <i>tra1_Q3</i> strain assessed using YEASTRACT+. The experimental evidence underlying each regulatory association (solid lines for DNA-binding evidence; dashed lines for expression evidence), as well as the sign of the interaction—positive (green), negative (red), positive and negative (brown), or undefined (black) are displayed. <b>Figure S2. Characterization of <i>TRA1</i> mutant strains. (a) </b><i>tra1∆/∆</i> mutants were validated by PCR. Two PCRs (left panel) confirmed the absence of the <i>TRA1</i> open reading frame (ORF) via primers located inside the ORF, and up- or down-stream of the ORF. Two additional PCRs (right panel) confirmed the integration of the knockout cassette at the <i>TRA1</i> locus (left side), as well as integration of the CRISPR-Cas9 plasmid in the <i>C. albicans</i> genome (right side). For all PCRs, control strains were added that contain the <i>TRA1</i> ORF, which include fRS1 (SC5314 wild-type <i>C. albicans</i>), and fRS302 (fRS1 containing a non-targeting Cas9 plasmid integrated in the genome), as well as a no DNA template control. <i>tra1∆/∆</i> mutant strains ‘1’ and ‘2’ were selected for further phenotypic characterization.<i> </i><b>(b) </b>The <i>TRA1</i> deletion strain is severely impaired in growth. Deletion strains and corresponding wild-type strains were grown up overnight in liquid YPD media for 15.5 hours at 37˚C.<b> (c) </b><i>TRA1</i> deletion results in severely impaired growth on solid medium. <i>C. albicans</i> strains were serially diluted (1:10 dilutions) and spotted onto solid YPD agar media.<b> (d) </b><i>tra1_Q3</i> mutant strains are not defective in overall growth rate. Kinetic growth curves between <i>C. albicans</i> wild-type strain and <i>tra1_Q3</i> mutant strains indicate no differences in overall growth dynamics over time. <b> </b> <b>Figure S3. Limited overlap between the Tra1- and Gcn5-regulated genes in <i>C. albicans</i>. (a)</b> Volcano plot showing the distribution of the previously identified 336 differentially expressed genes in <i>gcn5Δ </i>(from (Shivarathri <i>et al.</i> 2019))<i> </i>within the <i>tra1_Q3</i> dataset. Genes significantly (log₂ fold change <i>tra1_Q3</i>/<i>TRA1</i> &gt; 1 and <i>P </i>&lt; 0.05) altered in expression are highlighted in blue (downregulated) and red (upregulated). <b>(b) </b>Differentially regulated Gcn5 targets in <i>tra1_Q3</i> dataset are listed in the table with both the log₂ fold change within the original <i>gcn5Δ<b> </b></i>and the <i>tra1_{Q3<b> </b>}</i>datasets.<br> <b></b><br>