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Leo1 and Set1-mediated H3K4me3 contribute to sterol homeostasis in yeast

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE244789 | GEO | 2024/08/01

REPOSITORIES: GEO

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Leo1 and Set1-mediated H3K4me3 contribute to sterol homeostasis in yeast [ChIPseq]

Project description:Project Abstract : Trimethylation of histone H3 lysine 4 (H3K4me3) is predominantly associated with transcriptional start sites (TSSs) and is believed to facilitate transcription initiation. Furthermore, H3K4me3 plays a role in defining cell fate and specific cellular functions. Nevertheless, the precise function of H3K4me3 in transcription activation remains a topic of ongoing debate. The Polymerase-associated factor 1 complex (Paf1C), which is integral to various transcription-related cellular processes, consists of five highly conserved subunits: Paf1, Ctr9, Rtf1, Cdc73, and Leo1. While all subunits of Paf1C are indispensable for the maintenance of H3K4 methylation levels, it is noteworthy that strains lacking Leo1 exhibited unaltered levels of H3K4me3. To elucidate the role of H3K4me3, we conducted a transcriptome analysis coupled with ChIP-sequencing of H3K4me3 in cells lacking Leo1. Our research uncovers a distinctive role of Leo1 in yeast, whereby it plays a pivotal role in maintaining sterol homeostasis through the suppression of Upc2 expression. Importantly, this role stands apart from the functions of other Paf1C subunits. H3K4me3 is essential for promoting the expression of sterol uptake genes that are Upc2-dependent when Leo1 is absent. Additionally, Set1 contributes to sterol homeostasis by regulating iron metabolism and mitochondrial functions rather than directly suppressing Upc2 expression. Therefore, our findings reveal a novel role for Leo1 in sterol homeostasis and highlight the importance of H3K4me3 in promoting transcription of response genes required for sterol uptake.

2024-08-01 | GSE244733 | GEO

Leo1 and Set1-mediated H3K4me3 contribute to sterol homeostasis in yeast [RNA-seq]

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lincNORS: A Noncoding Regulator of the Cellular Sterol Homeostasis

Project description:This SuperSeries is composed of the SubSeries listed below.

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Genome-wide maps of Set1 and H3K4me3 in budding yeast

Project description:We report the application of ChIP-sequencing technology for high-throughput profiling of histone modifications in budding yeast. By obtaining over four billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide maps of Set1 and H3K4me3 in yeast cells. We find that Set1 and H3 lysine 4 trimethylation locate primarily in open reading frame of genes. In addition, we focus on the distribution of Set1 and H3K4me3 in histone gene clusters and found strong similar binding of Set1 and H3K4me3 on all histone genes.

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Paf1 complex factors, Leo1 and Paf1, promote local histone turnover to modulate chromatin states in fission yeast

Project description:This SuperSeries is composed of the SubSeries listed below.

2015-10-18 | GSE66941 | GEO

Set1 and Set3

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-10-27 | GSE152039 | GEO

Leo1 subunit of the yeast paf1 complex binds RNA and contributes to complex recruitment.

Project description:The Paf1 complex (Paf1C) affects RNA polymerase II transcription by coordinating co-transcriptional chromatin modifications and helping recruit mRNA 3' end processing factors. Paf1C cross-links to transcribed genes, but not downstream of the cleavage and polyadenylation site, suggesting that it may interact with the nascent mRNA. Paf1C purified from Saccharomyces cerevisiae binds RNA in vitro, as do the purified Leo1 and Rtf1 subunits of the complex. In vivo cross-linking and immunoprecipitation of RNA associated with Paf1C (RNA-IP) show that Leo1, but not Rtf1, is necessary for the complex to bind RNA. Cells lacking Leo1 have reduced Paf1C recruitment as well as decreased levels of histone H3 and trimethylated H3 Lys(4) within transcribed chromatin. Together, these results suggest that association of Paf1C with RNA stabilizes its localization at actively transcribed regions where it influences chromatin structure.

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Prrx1 labels stromal stem cells that contribute to the homeostasis and damage repair of the connective tissues

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-06-03 | GSE115300 | GEO

The yeast Snt2 protein helps coordinate the transcriptional response to hydrogen-peroxide mediated oxidative stress

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-07-24 | E-GEOD-43002 | biostudies-arrayexpress

Binding to RNA regulates Set1 function

Project description:This SuperSeries is composed of the SubSeries listed below.

2017-10-03 | GSE104486 | GEO