Transcriptomics,Genomics

Dataset Information

303

A high-resolution view of transcription and chromatin states across distinct metabolic states in budding yeast


ABSTRACT: Under continuous, glucose-limited conditions, budding yeast exhibit robust metabolic cycles associated with major oscillations of gene expression and metabolic state. However, how such fluctuations might be coordinately linked to changes in chromatin status is less well understood. Here, we examine the correlated genome-wide transcription and chromatin states across the yeast metabolic cycle (YMC) at unprecedented temporal resolution, revealing a "just in time supply chain" by which specific cellular processes such as ribosome biogenesis are coordinated in time with remarkable precision. We identify distinct chromatin and splicing patterns associated with different gene categories and determine the relative timing of chromatin modifications to maximal transcription. Additionally, we interrogate chromatin modifier occupancy and observe subtly distinct spatial and temporal patterns compared to the modifications themselves. Furthermore, we identify multiple lysine mutants in H3 or H4 tails that disrupt metabolic cycling, supporting a potentially cooperative role of histone modifications in the YMC. 16 time points RNA-seq and ChIP-seq of 8 histone marks over one metabolic cycle, 14 time points ChIP-seq of 3 chromatin modifiers over one metabolic cycle

ORGANISM(S): Saccharomyces cerevisiae  

SUBMITTER: Xuekui Zhang   Zheng Kuang  Benjamin P Tu  Ling Cai  Hongkai Ji  Jef D Boeke 

PROVIDER: E-GEOD-52339 | ArrayExpress | 2014-08-31

SECONDARY ACCESSION(S): SRP032970GSE52339PRJNA227448

REPOSITORIES: GEO, ArrayExpress, ENA

altmetric image

Publications

High-temporal-resolution view of transcription and chromatin states across distinct metabolic states in budding yeast.

Kuang Zheng Z   Cai Ling L   Zhang Xuekui X   Ji Hongkai H   Tu Benjamin P BP   Boeke Jef D JD  

Nature structural & molecular biology 20140831 10


Under continuous, glucose-limited conditions, budding yeast exhibit robust metabolic cycles associated with major oscillations of gene expression. How such fluctuations are linked to changes in chromatin status is not well understood. Here we examine the correlated genome-wide transcription and chromatin states across the yeast metabolic cycle at unprecedented temporal resolution, revealing a 'just-in-time supply chain' by which components from specific cellular processes such as ribosome biogen  ...[more]

Similar Datasets

2011-05-19 | E-GEOD-28734 | ArrayExpress
2015-12-31 | E-GEOD-65672 | ArrayExpress
2011-09-06 | E-GEOD-31890 | ArrayExpress
2011-05-27 | E-GEOD-29520 | ArrayExpress
2011-05-27 | E-GEOD-29517 | ArrayExpress
2011-09-06 | E-GEOD-31889 | ArrayExpress
2011-05-27 | E-GEOD-29518 | ArrayExpress
2013-05-10 | E-GEOD-41415 | ArrayExpress
2013-05-22 | E-GEOD-45427 | ArrayExpress
2016-04-04 | E-GEOD-77162 | ArrayExpress