Budding Yeast Cap Analysis of Gene Expression Dataset of Two Cell Types

Genes Genet Syst. 2024 Mar 7. doi: 10.1266/ggs.24-00020. Online ahead of print.ABSTRACTThe budding yeast Saccharomyces cerevisiae is an excellent model organism for studying chromatin regulation with high-resolution genome-wide analyses. Since newly generated genome-wide data are often compared with publicly available datasets, expanding our dataset repertoire will be beneficial for the field. Information on transcription start sites (TSSs) determined at base pair resolution is essential for elucidating mechanisms of transcription and related chromatin regulation, yet no datasets that cover two different cell types are available. Here, we present a Cap Analysis of Gene Expression (CAGE) dataset for a-cells and α-cells grown in defined and rich media. Cell-type-specific genes were differentially expressed as expected, ensuring the reliability of the data. Some of the differentially expressed TSSs were medium-specific or detected due to unrecognized chromosome rearrangement. By comparing the CAGE data with a high-resolution nucleosome map, major TSSs were primarily found in +1 nucleosomes, with a peak approximately 30 bp from the promoter-proximal end of the nucleosome. The dataset is available at DDBJ/GEA.PMID:38447993 | DOI:10.1266/ggs.24-00020

Source: Genes and Genetic Systems - March 6, 2024 Category: Genetics & Stem Cells Authors: Kei Kawakami Shin-Ichi Maeda Yoshiko Tanimoto Mitsuhiro Shimizu Hiroaki Kato Source Type: research