Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of fission yeast wild type and zinc regulatory null mutant grown in low zinc growth conditions

ABSTRACT: Transcription profile of low zinc growth condition in zinc regulatory null mutant

INSTRUMENT(S): Axon GenePix 4000B scanning hardware

ORGANISM(S): Schizosaccharomyces pombe

SUBMITTER: Stephen Watt

PROVIDER: E-TABM-427 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Response of Schizosaccharomyces pombe to zinc deficiency.

Dainty Samantha J SJ Kennedy Ciara A CA Watt Stephen S Bähler Jürg J Whitehall Simon K SK

Eukaryotic cell 20080118 3

A component of the cellular response to zinc deficiency operates via control of transcript abundance. Therefore, microarray analysis was employed to identify Schizosaccharomyces pombe genes whose mRNA levels are regulated by intracellular zinc status. A set of 57 genes whose mRNA levels were substantially reduced in response to zinc deficiency was identified, while the mRNA levels of 63 genes were increased by this condition. In order to investigate the mechanisms that control these responses, a ...[more]

PMID: 18203864

Similar Datasets

Transcription profiling of fission yeast Pht1 (H2A.Z) deletion mutants

Project description:Histone variant H2A.Z has a conserved role in genome stability, although it remains unclear how this is mediated. Here we demonstrate that the fission yeast Swr1 1 ATPase inserts H2A.Z (Pht1) into chromatin and Kat5 acetyltransferase (Mst1) acetylates it. Deletion or an unacetylatable mutation of Pht1 1 leads to genome instability, primarily caused by chromosome entanglement and breakage at anaphase. This leads to the loss of telomere-proximal markers, though telomere protection and repeat length are unaffected by the absence of Pht1. Strikingly, the chromosome entanglement in pht1? anaphase cells can be rescued by forcing chromosome condensation before anaphase onset. We show that the condensin complex, required for the maintenance of anaphase chromosome condensation, prematurely dissociates from chromatin in the absence of Pht1. This and other findings suggest an important role for H2A.Z in the architecture of anaphase chromosomes.

2010-11-05 | E-TABM-842 | biostudies-arrayexpress

Transcription profiling of fission yeast timecourse pmh1 mutant

Project description:The fission yeast Mcs6-Mcs2-Pmh1 complex (homologous to metazoan Cdk7-cyclin HMat1) performs dual functions: in cell cycle control, as a CDK-activating kinase; and in transcription by RNA polymerase (Pol) II, as part of TFIIH. It is unknown whether that linkage serves to coordinate gene expression with cell division. Mutants in mcs6 and pmh1 arrest with incomplete cell separation and decreased phosphorylation of the Pol II large subunit. Gene expression profiling by microarray hybridization revealed that a defined subset (~5%) of genes was repressed by Mcs6 complex impairment, whereas the majority was refractory. The repression signature included a cell-cycle cluster implicated in cytokinesis and cell separation, and overlapped with those of the cell-separation mutants sep1, sep10 and sep15 (relative to wild-type cells). The gene sep10 encodes the homolog of a protein found in metazoan Mediator-like complexes, and sep15 encodes an established component of the Mediator. In mcs6 or pmh1 mutants, sep10+, which also encodes a component of the transcriptional machinery, becomes essential for viability. Finally, mcs6+ also interacts genetically with sep1+, which encodes a forkhead transcription factor required for periodic transcription during mitosis and cell division. Thus, the Mcs6 complex (a direct activator of the cell-cycle engine) also helps govern the cell-cycle transcriptional program.

2004-11-01 | E-MEXP-191 | biostudies-arrayexpress

Transcription profiling of fission yeast timecourse mcs6 mutant

2004-11-01 | E-MEXP-192 | biostudies-arrayexpress

Transcription profiling of fission yeast mutants sep10 and sep15

2004-11-01 | E-MEXP-193 | biostudies-arrayexpress

Transcription profiling of fission yeast as telomeres shorten in trt1- strains, and to compare survivors with linear and circular chromosomes

Project description:Time course experiment to watch RNA expression profiles as telomeres shorten in trt1- strains, and to compare survivors with linear and circular chromosomes.

2005-03-01 | E-MEXP-201 | biostudies-arrayexpress

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 coordintate global control over cellular transcription

Project description:Although much is known about the regulation of eukaryotic transcription, the global controls which determine rates of total transcription within a cell are not well understood. We have investigated the effects that the DNA to protein ratio has on both total cellular transcription and the transcription of individual mRNA genes in the unicellular eukaryote fission yeast. Mutants altered in cell size and those blocked in cell cycle progression were used to vary the DNA to protein ratio over a fivefold range around the wild type value. We find that cells of sizes within twofold of wild type value regulate global transcription to maintain similar transcription rates per protein regardless of the cellular DNA content. These changes in total transcription were correlated with coordinated changes in gene occupancy by RNA polymerase II. In large cell cycle arrested mutants, when the DNA to protein ratio falls to a low level, total transcription rates plateau as DNA becomes limiting for transcription1. Unexpectedly, expression levels of individual genes remained tightly coordinated with each other over the entire range of cell sizes. We propose that there is a coordinated, global cellular control which determines the rate of transcription of most genes in the genome and that this control plays a role in regulating the overall growth rate of the cell. Normalized data generated using protocol P-TABM-1335 is available in file ZHURINSKY_NORMALISED_DATA.txt in the additional data archive.

2011-09-23 | E-TABM-1075 | biostudies-arrayexpress

Transcription profiling of fission yeast with deletion or overexpression of ste11 and changes in gene expression after nitrogen starvation of h plus, h minus, h90fus1 and h90ste11 cells to investigate control of gene expression during early sexual differentiation

Project description:Fission yeast cells belong to one of two specialized cell types, M or P. Specific environmental conditions trigger sexual differentiation, which leads to an internal program starting with pheromone signalling between M and P cells, followed by mating, meiosis and sporulation. The initial steps of this process are controlled by Ste11p, a master transcriptional regulator that activates the expression of cell type-specific genes (only expressed in either M or P cells) as well as genes expressed in both M and P cells. <br><br> Pheromone signalling is activated by Ste11p-dependent transcription, and in turn enhances some of this transcription in a positive feedback. To obtain a genome-wide view of Ste11p target genes, their cell-type specificity, and their dependence on pheromone, we used DNA microarrays along with different genetic and environmental manipulations of fission yeast cells.We directly compared the transcriptome of homothallic wild-type cells (h90 fus1) with that of ste11 delta mutants under conditions that induce sexual differentiation. To allow for indirect effects of the ste11 delta mutation, we took advantage of the fact that ectopic expression of ste11 can drive cells into sexual differentiation and therefore is expected to cause the expression of Ste11p targets. We thus defined Ste11p targets as those genes whose expression was significantly reduced in a ste11 delta mutant and significantly increased when ste11 is overexpressed in vegetative cells.<br> <br> This study looked at the effect of deletion or overexpression of ste11, and changes in gene expression after nitrogen starvation of h plus, h minus, h90fus1 and h90ste11 cells.

2006-09-22 | E-TABM-139 | biostudies-arrayexpress

Transcription profiling of wild type and mutant fission yeast exposed to different intensities of H202 and two other oxidants

Project description:We studied transcriptional responses of the fission yeast Schizosaccharomyces pombe to different intensities of H2O2 stress as well as two other oxidants: menadione sodium bisulfite and tert-butyl hydroperoxide. DNA microarrays were used to study the changes in expression profiles and the transcriptional regulation. We compare and contrast global expression and regulation of different intensities of H2O2 stress and different oxidants. The transcriptional response to low doses of H2O2 is very similar to menadione sodium bisulfite and the genes were controlled primarily by the transcription factor Pap1. The transcriptional response to medium and high doses of H2O2 is very similar to tert-butyl hydroperoxide and the genes were mostly regulated by the stress-activated MAP kinase Sty1p and the transcription factor Atf1p. We also compare global regulation of oxidative stress genes in fission and budding yeasts and discuss evolutionary implications.

2007-12-07 | E-MEXP-1083 | biostudies-arrayexpress

Effects of upf1delta on gene expression

Project description:The Upf1 RNA-binding protein is essential for nonsense-mediated decay (NMD). We compared wild type (ura4-D18 leu1-32 h-) and upfdelta (upf1delta::kanMX6 ura4-D18 leu1-32 h-) cells transcriptome under normal growth conditions

2013-07-17 | E-MTAB-931 | biostudies-arrayexpress

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