Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

10 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of wild type and ZakA and GskA knock-out Dictyostelium discoideum to investigate the Zak1-GSK-3 signalling pathway

ABSTRACT: GskA, the Dictyostelium GSK-3 orthologue, is modified and activated by the dual-specificity tyrosine kinase Zak1 and the two kinases form part of a signalling pathway that responds to extracellular cAMP. We identify potential cellular effectors for the two kinases by analysing their null mutants. There are proteins and mRNAs that are altered in abundance in only one or other of the two mutants, indicating that each kinase has some unique functions. However, proteomic and micro-array analysis respectively identified 3 proteins and 37 genes that are similarly mis-regulated in both mutant strains. The positive correlation between the array data and the proteomics data is consistent with the Zak1-GskA signalling pathway functioning by directly or indirectly regulating gene expression. The discoidin 1 genes are positively regulated by the pathway while the abundance of the H5 protein is negatively regulated. Two of the targets, H5 and discoidin 1, are well-characterised markers for early development, indicating that the Zak1-GskA pathway plays a role in development earlier than previously observed.

ORGANISM(S): Dictyostelium discoideum

SUBMITTER: Matloob Qureshi

PROVIDER: E-SGRP-4 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of Dictyostelium discoides mutant cell type aspidocyte induced by heavy meatals and antibiotics

Project description:We describe the serendipitous discovery and first characterization of a new resistant cell type from Dictyostelium, which we propose to call the aspidocyte (aspida: Greek for shield). These cells are induced from amoebae by a range of toxins including heavy metals and antibiotics, and were first detected by their striking resistance to detergent lysis. Aspidocytes are separate, rounded or irregular shaped cells that are immotile but remain fully viable; once the toxic stress is removed, they revert to amoeboid cells within an hour. Induction takes a few hours and is completely blocked by the protein synthesis inhibitor cycloheximide. Aspidocytes lack a cell wall and their resistance to detergent lysis is active, requiring continued energy metabolism, and may be assisted by a complete cessation of endocytosis, as measured by uptake of the dye FM1-43. Microarray analysis shows that aspidocytes have a distinct pattern of gene expression with a number of genes up-regulated that are predicted to be involved in lipid metabolism. Aspidocytes were initially detected in a hypersensitive mutant, in which the AMP deaminase gene is disrupted, suggesting that the inductive pathway involves AMP levels or metabolism. Since aspidocytes can also be induced from wild-type cells and are much more resistant than amoebae to a membrane disrupting antibiotic, it is possible that they are an adaptation allowing Dictyostelium cells to survive a sudden onslaught of toxins in the wild.

2007-02-06 | E-SGRP-5 | biostudies-arrayexpress

Methylation profiling of normal and cancerous human breast samples

Project description:To assess changes in DNA methylation state associated with breast cancer we analyzed DNA from normal and cancerous breast specimens on CpG islands microarray using methylation-sensitive enzyme McrBC for target preparation. Cy3 was used for McrBC cut sample, Cy5 was used for reference Mock sample.

2006-11-03 | E-MEXP-881 | biostudies-arrayexpress

Transcription profiling of Salmonella enterica serotype SL1344 wildtype, pSf-R27sfh and pSf-R27 at stationary and exponential growth phases, to investigate the role of the Sfh protein encoded by transmissible plasmids and involved in human typhoid

Project description:The Sfh protein is encoded by self-transmissible plasmids involved in human typhoid and is closely related to the global regulator H-NS. We have found that Sfh provides a stealth function that allows the plasmids to be transmitted to new bacterial hosts with minimal effects on their fitness. Introducing the plasmid without the sfh gene imposes a mild H-NS- phenotype and a severe loss of fitness due to titration of the cellular pool of H-NS by the A+T-rich plasmid. This stealth strategy seems to be used widely to aid horizontal DNA transmission and has important implications for bacterial evolution.

2007-01-15 | E-SGRP-7 | biostudies-arrayexpress

Transcription profiling of Salmonella enterica (I) serovar Typhi Ty2 wild type and ompR null strains in a strand-specific manner

Project description:Analysis of transcriptome in a strand-specific manner to further refine previous genome annotation; RNA-seq was also combined with microarray and proteome analysis to further define the S. Typhi ompR regulon and identify novel ompR regulated transcripts.

2009-03-03 | E-TABM-644 | biostudies-arrayexpress

Methylation profiling of normal and cancerous breast cells from human patients and cell lines in a 125 kB region of the HOXA cluster

Project description:To evaluate DNA methylation profile associated with breast cancer in 125 kB region of HOXA cluster we analyzed DNA from normal cancerous breast specimens and cell lines. Analysis was performed on the tiling array covering entire HOXA region with 500bp resolution. Immunoprecipitation with anti-methylcytosine antibody was for target preparation. Cy3 labeling was used for inmmunoprecipitated DNA, Cy5 labeling was used for reference input DNA.

2006-11-03 | E-MEXP-880 | biostudies-arrayexpress

Transcription profiling of E. coli SL2 cells treated with cycloheximide and LPS

Project description:E. coli lipopolysacharide was treated on SL2* cells for 1hr, 4 and 12hrs respectivly. cDNA from those cells was compared with control. For one sample, cyclohexamide was treated for 1hr and then LPS was treated for 4hrs. Then, compared with control.

2004-09-21 | E-MEXP-172 | biostudies-arrayexpress

Transcription profiling of wild type and L forms of Listeria monocytogenes

Project description:To understand gene expression of L forms

2010-05-12 | E-MTAB-116 | biostudies-arrayexpress

Methylation profiling of different stages of human mammary epithelial cells from pre-statis to cancer

Project description:To characterize early epigenetic events in breast carcinogenesis, we analyzed DNA methylation state of different stages of HMECs from pre-stasis to cancer cell lines using human promoter microarray

2009-01-01 | E-MEXP-1889 | biostudies-arrayexpress

The rpoS transcriptome of Pseudomonas protegens Pf-5 grown in rich medium

Project description:Transcriptomic profiling of an rpoS mutant of Pseudomonas protegens Pf-5 in comparison to the wild-type Pf-5 strain grown in nutrient broth supplemented with 1% glycerol to OD600=2.0-2.4 (early stationary phase). Two-condition experiment, the rpoS mutant compared to wild-type Pf-5 grown in nutrient broth supplemented with 1% glycerol to early stationary phase. There are three biological replicates and two flip-dye replicates for a total of six slides analyzed. Each slide contains three replicate spots per gene.

2012-12-31 | E-GEOD-38632 | biostudies-arrayexpress

Fra1 silencing in MDA-MB-231 cells

Project description:Fra1 silencing in MDA-MB-231 cells

2013-07-24 | E-MTAB-1230 | biostudies-arrayexpress