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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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The cohesin acetyltransferase Eco1 coordinates rDNA replication and transcription

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

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Chris Seidel

PROVIDER: E-GEOD-54743 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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The cohesin acetyltransferase Eco1 coordinates rDNA replication and transcription.

Lu Shuai S Lee Kenneth K KK Harris Bethany B Xiong Bo B Bose Tania T Saraf Anita A Hattem Gaye G Florens Laurence L Seidel Chris C Gerton Jennifer L JL

EMBO reports 20140314 5

Eco1 is the acetyltransferase that establishes sister-chromatid cohesion during DNA replication. A budding yeast strain with an eco1 mutation that genocopies Roberts syndrome has reduced ribosomal DNA (rDNA) transcription and a transcriptional signature of starvation. We show that deleting FOB1--a gene that encodes a replication fork-blocking protein specific for the rDNA region--rescues rRNA production and partially rescues transcription genome-wide. Further studies show that deletion of FOB1 c ...[more]

PMID: 24631914

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Microarray analysis comparing yeast Eco1 mutant W216G to mutants of FOB1 and RAD61

Project description:Eco1 is an acetyltransferase subunit of the cohesin complex and acts during DNA replication to establish cohesion between sister chromatids. However, cohesin has additional functions in gene expression, DNA damage repair, and higher-order organization of chromosomes. The eco1 mutant W216G disrupts acetyltansferase activity, and causes genome-wide transcriptional defects which can be suppressed by deletion of FOB1, a gene also involved in DNA replication. This experiment investigates gene expression differences between the eco1-W216G mutant, and mutants in FOB1, and RAD61 a gene involved in inhibition of cohesion establishment but mutation of which is able to suppress temperature sensitivity of the eco1-W216G mutant. Wt and mutant strains of yeast were grown to mid log phase in liquid culture in triplicate and harvested for comparison on Affymetrix microarrays. The following strains were compared: 1) eco1-W216G, 2) eco1-W216G fob1Δ, 3) eco1-W216G rad61Δ, 4) fob1Δ, 5) rad61Δ, and 6) WT.

2014-04-03 | E-GEOD-54741 | biostudies-arrayexpress

Mutations in cohesin-associated genes impair protein translation

Project description:The cohesin protein complex is well known for playing a role in chromosome segregation. However, it has additional less understood roles in transcription, DNA repair, and chromosome condensation. Mutants in two yeast orthologues (Eco1 and Scc2) of human cohesinopathy disease alleles were examined by transcriptional profiling in response to perturbation of the transcriptional program by amino acid starvation. Two cohesin mutants were compared to wt in a time course of amino acid starvation consisting of 4 time points, 3 replicates of each, for a total of 36 samples.

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Genomic analysis of the scc2-4 mutant in budding yeast

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

2015-06-15 | E-GEOD-55358 | biostudies-arrayexpress

Genome-wide replication analysis of a yeast eco1 mutant by deep sequencing.

Project description:Eco1 is the acetyltransferase that establishes sister-chromatid cohesion during DNA replication. Budding yeast with an eco1 mutation that genocopies Roberts syndrome displaysreduced ribosomal DNA (rDNA) transcription and a transcriptional signature of starvation. Weshow that deleting FOB1, a gene encoding a specific replication fork blocking protein for therDNA region, rescues rRNA production and partially rescues transcription genome-wide. This experiment examines the effect of eco1 mutation on replication genome-wide. Furtherstudies show that deletion of FOB1 corrects the genome-wide replication defects, nucleolarstructure, and rDNA segregation in an eco1 mutant. Our study highlights cohesin's central role atthe rDNA for global control of DNA replication and gene expression. DNA content in eco1-W216G mutant and wt yeast is measured in duplicate by sequencing at 0, 20, and 40 minutes following release from G1 arrest.

2014-04-03 | E-GEOD-54742 | biostudies-arrayexpress

The cohesin loader Scc2 regulates key regulatory genes critical for development

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2015-06-13 | E-GEOD-69826 | biostudies-arrayexpress

Widespread Co-translational RNA Decay Reveals Ribosome Dynamics

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2015-06-04 | E-GEOD-63120 | biostudies-arrayexpress

Transcriptome analyses of the response of C. glabrata wild type cells to iron excess, salt excess, cadmium treatment and iron starvation

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Functional interplay between Mediator and RSC chromatin remodeling complex in nucleosome-depleted region maintenance at promoters

Project description:ChIPseq of Mediator and RSC in wildtype or mutant context reveal their co-occupancy genome-wide. In addition MNAse-seq experiments in the same contexts shows the specific impact of the mutations on nucleosome positioning/remodelling.

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