Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Atf1-mediated active gene response to H2O2 challenge.

ABSTRACT: Here we present the study on ChIP-chip mapping of the genomic binding sites for Sty1, Atf1, and the Atf1's binding partner Pcr1; the genome-wide transcriptional profiling of the atf1 and pcr1 strains in response to H2O2; and the phenotypic assessment of ~90 Atf1/Pcr1-bound or unbound genes for growth fitness under H2O2 conditions. ChIP-chip analysis shows that Atf1 and Pcr1 binding sites are overlapped in the genome and constitutively present before H2O2 stress. On the other hand, Sty1 recruitment primarily occurs at the Atf1/Pcr1 binding sites and is induced by H2O2. We found that Atf1/Pcr1 is clearly responsible for the high-level transcriptional response to H2O2. Furthermore, phenotypic assessment indicates that among the H2O2-induced genes, Atf1/Pcr1-bound genes exhibit a higher likelihood of functional requirement for growth fitness under the stress condition than the Atf1/Pcr1-unbound genes do. Notably, we found that the Atf1/Pcr1-bound genes regardless of their responsiveness to H2O2 show a high probability of requirement for growth fitness. .

ORGANISM(S): Schizosaccharomyces pombe

PROVIDER: GSE13053 | GEO | 2010/07/19

SECONDARY ACCESSION(S): PRJNA109969

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Atf1-mediated active gene response to H2O2 challenge.

Project description:Here we present the study on ChIP-chip mapping of the genomic binding sites for Sty1, Atf1, and the Atf1's binding partner Pcr1; the genome-wide transcriptional profiling of the atf1 and pcr1 strains in response to H2O2; and the phenotypic assessment of ~90 Atf1/Pcr1-bound or unbound genes for growth fitness under H2O2 conditions. ChIP-chip analysis shows that Atf1 and Pcr1 binding sites are overlapped in the genome and constitutively present before H2O2 stress. On the other hand, Sty1 recruitment primarily occurs at the Atf1/Pcr1 binding sites and is induced by H2O2. We found that Atf1/Pcr1 is clearly responsible for the high-level transcriptional response to H2O2. Furthermore, phenotypic assessment indicates that among the H2O2-induced genes, Atf1/Pcr1-bound genes exhibit a higher likelihood of functional requirement for growth fitness under the stress condition than the Atf1/Pcr1-unbound genes do. Notably, we found that the Atf1/Pcr1-bound genes regardless of their responsiveness to H2O2 show a high probability of requirement for growth fitness. . Expression level of genes in triplicates at 0min (without stress) is compared with that at 10, 30, 60, and 120min after stress treatment. ChIP-chip analyses is done for Atf1-HA, pcr1-HA, sty1-HA, Sty1-HA allele in the atf1D or pcr1D background without and with H2O2 (0.5mM for 30min).

2010-07-19 | E-GEOD-13053 | biostudies-arrayexpress

A phospho-mimicking Atf1 mutant bypasses the transcription activating function of the MAP kinase Sty1

Project description:The MAP kinase Sty1 of fission yeast accumulates in the nucleus upon stress, and stimulates expression of hundreds of genes, including atf1, via the constitutively nuclear transcription factor Atf1. The role on transcription of the signal-dependent phosphorylation of Atf1 by Sty1 is unclear. We have expressed the transcription factor and mutant derivatives from a constitutive promoter, to unchain Atf1 activity from its protein levels. Expression of a non-phosphorylatable Atf1 renders cells sensitive to oxidative stress, due to the impaired transcription of a subset of genes, those dependent on another transcription factor, Pap1. Cells expressing a phospho-mimicking mutant display enhanced resistance to stress, and while expression of the Pap1-dependent genes is still stress-dependent, a second subset of genes is constitutively expressed. Our study demonstrates that phosphorylation of Atf1 by Sty1 does not stimulate binding of the transcription factor to DNA but rather establishes a platform of interaction with the transcriptional machinery.

2017-07-10 | GSE97057 | GEO

Transcriptional profiling of Schizosaccharomyces pombe cells after deletion and overexpression of transcription factor Atf1 and Pcr1

Project description:The leads obtained in our analysis indicates how Atf1-Pcr1 can regulate the differential gene expression

2021-06-03 | GSE175982 | GEO

The transcription factors Pcr1 and Atf1 have distinct roles in stress- and Sty1-dependent gene regulation

Project description:Gene expression was monitored in the knockout of two transcription factors, Pcr1 and Atf1, in the presence and absence of oxidative stress induced by KCl.

2008-03-03 | E-TABM-447 | biostudies-arrayexpress

Sty1 kinase-dependent phosphosite mapping on Atf1

Project description:In the fission yeast Schizosaccharomyces pombe, heterochromatic silencing is quite stable at pericentromeres but unstable at the mating-type (mat) locus under chronic heat stress. We found that the compromised gene silencing at the mat locus at elevated temperature is linked to the phosphorylation status of Atf1 (a member of the ATF/CREB superfamily) by Sty1, one of the mitogen-activated protein kinases (MAPKs). To gain a full picture of Sty1-dependent phosphosite map of Atf1 under heat stress, we purified HA-Atf1 protein from cultures of wild type and sty1Δ strains shifted from 25℃ to either 30℃ or 37℃ for 5 hr followed by immunoprecipitation. Samples were separated by SDS-PAGE, and Coomassie blue-stained gel slices were excised and submitted for mass spectrometry analyses.

2024-02-15 | PXD048330 | Pride

A global non-coding RNA system modulates fission yeast protein levels in response to stress

Project description:Mitogen Activated Protein Kinase (MAPK) signaling cascades transduce information arising from events external to the cell, such as environmental stresses, to a variety of downstream effectors and transcription factors. The fission yeast stress activated MAP kinase (SAPK) pathway is conserved with the p38 and JNK pathways in humans, and comprises the MAPKKKs Win1, Wis4, the MAPKK Wis1, and the MAPK, Sty1. Sty1 and its main downstream effector Atf1 regulate a large set of core environmental stress response genes. The fission yeast genome encodes three other ATF proteins: Atf21, Atf31 and Pcr1. Among these, atf21 is specifically induced under conditions of high osmolarity. We have therefore instigated a programme to investigate the role played by non coding RNAs (ncRNAs) in response to osmotic stress challenge in wild type and atf21Δ cells. By integrating global proteomics and RNA sequencing data, we identified a systematic program in which elevated antisense RNAs arising both from ncRNAs and from 3'-overlapping convergent gene-pairs is directly associated with substantial reductions in protein levels throughout the fission yeast genome. We also found an extensive array of ncRNAs with trans associations that have the potential to influence different biological processes and stress responses in fission yeast, suggesting ncRNAs comprise additional components of the SAPK regulatory system.

2014-05-19 | PXD000894 | Pride

Comparative microarray analysis of S. pombe wild type, pka1-, pka1- rst2- and pka1- atf1- strains.

Project description:To identify common gene targets regulated by the Pka1-Rst2 and Sty1-Atf1 transcriptional branches involved in the glucose-dependent induction of autophagy at a global scale. DNA microarrays were used to comparatively measure the gene expression profile in wild type, pka1∆, pka1∆ rst2∆, and pka1∆ atf1∆ cells growing exponentially in glucose-rich medium. Data from two biological replicates were included for each strain genotype.

2022-06-28 | E-MTAB-11624 | biostudies-arrayexpress

A global non coding RNA system modulates fission yeast protein levels in response to stress

2014-05-19 | GSE56761 | GEO

Transcription profiling of stress treated fission yeast (stressors: compound: heavy metal, oxidation, alkylation and osmosis

Project description:Transcriptional profile of stress in fission yeast (S. pombe) cells. Five different types of stress were employed on wild type and mutant cells (sty1 and atf1 knock-out cells). The 5 stresses were heat, and four types of compound: heavy metal, oxidation, alkylation and osmosis.

2004-10-31 | E-MEXP-29 | biostudies-arrayexpress

A composite DNA element that functions as a maintainer required for epigenetic inheritance of heterochromatin

Project description:Epigenetic inheritance of heterochromatin requires sequence - independent propagation mechanisms and input from DNA sequence, but how DNA contributes to inheritance is not understood. Here, we identify a DNA element ( term ed the “maintainer” ) that is necessary and sufficient for epigenetic inheritance of preexisting histone H3 lysine 9 methylation (H3K9me) and heterochromatin i n the fission yeast Schizosaccharomyces pombe . In wild - type cells, d espite its requirement for maintenance of H3K9me, the maintainer cannot establish de novo gene silencing. The maintainer is a composite 1307 - base pair DNA element with binding sites for the Atf1/Pcr1 and Deb1 transcription factors and the O rigin R ecognition C omplex (ORC) and can be converted to a silencer in cells with lower rates of H3K9me turnover , suggesting that it participate s in recruiting the H3K9 methyltransferase Clr4 / Suv39h . T hese results suggest tha t histone H3K9me is only heritable when it can collaborate with maintainer - associated DNA - binding proteins that help recruit the enzyme responsible for its epigenetic deposition .

2021-08-09 | GSE169537 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data