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Binding and regulation of transcription by yeast Ste12 variants to drive mating and invasion phenotypes

ABSTRACT: Binding and regulation of transcription by yeast Ste12 variants to drive mating and invasion phenotypes

PROVIDER: PRJNA595929 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10704114_1.fastq.gz	Fastqsanger.gz
	SRR10704114_2.fastq.gz	Fastqsanger.gz
	SRR10704115_1.fastq.gz	Fastqsanger.gz
	SRR10704115_2.fastq.gz	Fastqsanger.gz
	SRR10704116_1.fastq.gz	Fastqsanger.gz

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Binding and regulation of transcription by yeast Ste12 variants to drive mating and invasion phenotypes

Project description:Here, we examine how six single amino acid variants in the DNA-binding domain of Ste12 – a yeast transcription factor regulating mating and invasion – alter Ste12 genome binding, motif recognition and gene expression to yield markedly different phenotypes. Using a combination of the calling card method, RNA sequencing , we find that variants with dissimilar binding and expression profiles can converge onto similar cellular behaviors.

2020-01-30 | GSE141713 | GEO

Binding and Regulation of Transcription by Yeast Ste12 Variants To Drive Mating and Invasion Phenotypes.

Project description:Amino acid substitutions are commonly found in human transcription factors, yet the functional consequences of much of this variation remain unknown, even in well-characterized DNA-binding domains. Here, we examine how six single-amino acid variants in the DNA-binding domain of Ste12-a yeast transcription factor regulating mating and invasion-alter Ste12 genome binding, motif recognition, and gene expression to yield markedly different phenotypes. Using a combination of the "calling-card" method, RNA sequencing, and HT-SELEX (high throughput systematic evolution of ligands by exponential enrichment), we find that variants with dissimilar binding and expression profiles can converge onto similar cellular behaviors. Mating-defective variants led to decreased expression of distinct subsets of genes necessary for mating. Hyper-invasive variants also decreased expression of subsets of genes involved in mating, but increased the expression of other subsets of genes associated with the cellular response to osmotic stress. While single-amino acid changes in the coding region of this transcription factor result in complex regulatory reconfiguration, the major phenotypic consequences for the cell appear to depend on changes in the expression of a small number of genes with related functions.

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Kar4 acts as a Ste12 regulator in Saccharomyces cerevisiae, promoting Ste12 binding to a specific DNA motif genome-wide [ChIP-exo]

Project description:Kar4 is a putative transcription factor essential for mating in the budding yeast Saccharomyces cerevisiae. Kar4 has been shown to function with Ste12, the master transcriptional regulator of the yeast mating pheromone response, to promote the transcription of a subset of Ste12 targets required for efficient mating. However, the mechanism by which Kar4 modulates Ste12 activity has remained uncertain. Here, we examine the effect of Kar4 on the mating pheromone response via ChIP-exo

2025-12-08 | GSE306667 | GEO

Kar4 acts as a Ste12 regulator in Saccharomyces cerevisiae, promoting Ste12 binding to a specific DNA motif genome-wide [RNA-seq]

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Transcription profiling of S. cerevisiae haploid Sigma1278b strains expressing different combinations and variants of TEC1 and STE12

Project description:We determined and classified Tec1-regulated genes in haploid strains of the Sigma1278b genetic background under vegetative growth conditions. For this purpose, we measured transcriptional profiles of five different haploid MATa yeast strains of the following relevant genotypes: (53 = YHUM1694) TEC1 STE12; (64 = YHUM1700) tec1? STE12; (66 = YHUM1701) tec1? ste12?; (10 = YHUM1676) (P)URA3-TEC1 ste12?; (42 = YHUM1642) (P)URA3-TEC1 1-280-STE12 1-688 tec1? ste12?. All strains were grown in duplicate in SC medium lacking leucine and histidine at 30 degree C to an optical density of 1.0 before extraction of total RNA and transcriptional profiling.

2010-05-22 | E-MEXP-2207 | biostudies-arrayexpress

Control of expression noise, fitness and gene aggregation by a component of the yeast pheromone response pathway

Project description:Cellular processes are subject to variability, or noise, yet mechanisms that promote cell-to-cell uniformity are poorly understood. We have identified such a role for Dig1, a redundant (with Dig2) MAPK-responsive inhibitor of the S. cerevisiae mating pathway transcription factor Ste12. Cells lacking Dig1, but not Dig2, exhibited increased variability in outputs of the mating pathway. dig1∆ mutants also displayed a Ste12-dependent defect in growth in the absence of mating pheromone and a quantitative defect in the process of mating, itself. In cells expressing two reporter genes driven by the same promoter, both intrinsic/uncorrelated and extrinsic/correlated noise were found to increase. Remarkably, the extrinsic noise phenotype in cells lacking Dig1 correlates with the aggregation of target genes: we observed subnuclear foci of Ste12 specifically in dig1∆ cells and, using a newly-developed method to immunoprecipitate a single locus from crosslinked chromatin, we found that Dig1 inhibits long-range interactions between Ste12 target genes in vivo. Dig1 may shield binding surfaces on Ste12 whose unmasking leads to inappropriate gene associations and increased gene expression noise. These studies reveal how investigations of variability modulation mechanisms can yield unexpected biological insights.

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Control of expression noise, fitness and gene aggregation by a component of the yeast pheromone response pathway

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Functions of STE12 in Trichoderma reesei

Project description:We investigated the function of the transcription factor STE12 and found an involvement in gene expression and growth in light and darkness

2023-11-02 | GSE222127 | GEO

K. lactis Ste12-myc ChIP-Seq in pheromone-responding a cells

Project description:The purpose of this experiment was to determine the genes directly regulated by Ste12 in K. lactis. The experiment was performed in a cells to determine if the a-specific genes were bound by Ste12. Ste12 was tagged with c-myc and was immunoprecipitated with a c-myc antibody. Cells were starved in SD media lacking phosphate for 2 hours, then treated with 10µg/mL K. lactis alpha factor for 2 hours before harvesting. A control untagged strain was processed in parallel. The experiment was repeated 3 times, and sequenced on an Illumina HiSeq 2500.

2015-07-06 | GSE65792 | GEO

K. lactis Ste12-myc ChIP-Seq in pheromone-responding a cells

2015-07-06 | E-GEOD-65792 | biostudies-arrayexpress