GEO DataSets

(Submitter supplied) RNA-binding proteins constitute key factors of the posttranscriptional machinery. These regulatory proteins recognise specific elements within target transcripts to promote e.g. maturation, translation or stability of mRNAs. In Ustilago maydis, evidence is accumulating that posttranscriptional processes are important to determine pathogenicity. Deletion of khd4, encoding a predicted RNA-binding protein with five K homology (KH) domains, causes aberrant cell morphology and reduced virulence. more...

Organism:

Mycosarcoma maydis

Type:

Expression profiling by array

Platform:

GPL3681

4 Samples

Download data: CEL, CHP, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mycosarcoma maydis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33088

20 Samples

Download data: BEDGRAPH

(Submitter supplied) Fungal pathogens depend on sophisticated gene expression programs for successful infection. A crucial component is RNA regulation mediated by RNA-binding proteins. In the biotrophic fungal plant pathogen Ustilago maydis, loss of the multi KH domain containing RBP, Khd4, causes aberrant cell morphology, disturbed hyphal growth and impaired virulence. To investigate the role of Khd4 in the polar growth of infectious hyphae, we established the RNA-editing based hyperTRIBE method to detect in vivo mRNA targets.This technique is especially suited to investigate proteins of high molecular weight or low expression that are difficult to purify (McMahon et al., 2016, Xu et al., 2018, Rahman et al., 2018). more...

Organism:

Mycosarcoma maydis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33088

12 Samples

Download data: TXT

(Submitter supplied) Fungal pathogens depend on sophisticated gene expression programs for successful infection. A crucial component is RNA regulation mediated by RNA-binding proteins. In the biotrophic fungal plant pathogen Ustilago maydis, loss of the multi KH domain containing RBP, Khd4, causes aberrant cell morphology, disturbed hyphal growth and impaired virulence. To investigate the role of Khd4 in the polar growth of infectious hyphae, we established the RNA-editing based hyperTRIBE method to detect in vivo mRNA targets.This technique is especially suited to investigate proteins of high molecular weight or low expression that are difficult to purify (McMahon et al., 2016, Xu et al., 2018, Rahman et al., 2018). more...

Organism:

Mycosarcoma maydis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33088

8 Samples

Download data: BEDGRAPH

(Submitter supplied) The fungus Ustilago maydis is a biotrophic pathogen of corn. In its genome we have identified an ortholog of YAP1 from Saccharomyces cerevisae which regulates the oxidative stress response in this organism. yap1 mutants of U. maydis displayed higher sensitivity to H2O2 than wild type cells and their virulence was significantly reduced. U. maydis yap1 could partially complement the H2O2 sensitivity of a yap1 deletion mutant of S. more...

Organism:

Mycosarcoma maydis

Type:

Expression profiling by array

Platform:

GPL3681

6 Samples

Download data: CEL

(Submitter supplied) The basidiomycete Ustilago maydis is the causal agent of corn smut disease and induces tumor formation during biotrophic growth in its host plant maize. The Usilago maydis genome harbors a homolog to the GATA transcription factors Nit2 and AreA that act as global regulators of nitrogen catabolite repression in filamentous model fungi Neurospora crassa and Aspergillus nidulans, respectively. We aimed at resolving the role of the Ustilago maydis Nit2 homolog for the utilization of complex nitrogen sources and pathogenicity.

Organism:

Mycosarcoma maydis

Type:

Expression profiling by array

Platform:

GPL13456

14 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Saccharomyces cerevisiae; Neurospora crassa; Neurospora crassa OR74A

Type:

Expression profiling by array

Platforms:

GPL10697 GPL14949

28 Samples

Download data: GPR

(Submitter supplied) Affinity purification of S. cerevisiae or N. crassa Puf3 from S. cerevisiae cells and identification of associated RNAs by microarray

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL10697

9 Samples

Download data: GPR

(Submitter supplied) Gene expression profiling was performed to compare RNA abundances in mycelium of Puf knockout strains compared to that in mycelium of wild-type N. crassa

Organism:

Neurospora crassa OR74A; Neurospora crassa

Type:

Expression profiling by array

Platform:

GPL14949

19 Samples

Download data: GPR

(Submitter supplied) In mammalian cells RACK1 serves as a scaffold protein that has a role in integrating inputs from different signaling pathways and affects translation through association with ribosomes. U. maydis contains a seven-WD40 repeat motif protein designated Rak1, which shows 68% identity to RACK1 and is homologous to Asc1p of Saccharomyces cerevisiae. The asc1 mutant could be complemented by introduction of U. more...

Organism:

Mycosarcoma maydis

Type:

Expression profiling by array

Platform:

GPL3681

6 Samples

Download data: CEL, CHP

(Submitter supplied) Adr1 of Ustilago maydis is a protein kinase that is activated after separation from the regulatory subunit mediated by high cAMP levels. A copy of the gene under the control of the arabinose-inducible crg1 promotor was introduced into the Cbx locus of the wild type strain FB1 creating strain HE140. To monitor the transcriptional changes upon adr1 induction by arabinose, we conducted a time course experiment comparing the wild type transcriptional response before and 75 or 180 min after medium shift to complete medium containing arabinose, as well as the response of the mutant HE140 before and 75 or 180 min after induction of the additional copy of adr1 by arabinose. more...

Organism:

Mycosarcoma maydis

Type:

Expression profiling by array

Platform:

GPL3681

16 Samples

Download data: CEL

(Submitter supplied) Urbs1 of Ustilago maydis is a transcription factor that has been shown to repress its target genes (e.g. sid1, sid2) in the presence of iron. To identify additional genes regulated by Urbs1, we compared transcriptional profiles of the Ustilago maydis wild type strain FB1 grown in complete medium containing glucose with the addition of 10 µM FeSO4 to the Ustilago maydis urbs1 deletion mutant BW12 grown under the same conditions. more...

Organism:

Mycosarcoma maydis

Type:

Expression profiling by array

Platform:

GPL3681

4 Samples

Download data: CEL

(Submitter supplied) Identification of transcriptional changes of Ustilago maydis wild type strain FB1 grown in axenic culture in complete medium containing glucose without or with the addition of 10 µM FeSO4. Keywords: gene induction

Organism:

Mycosarcoma maydis

Type:

Expression profiling by array

Platform:

GPL3681

4 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array; Other

Platforms:

GPL8306 GPL8546

13 Samples

Download data

(Submitter supplied) Measure the relative changes of gene expression upon GIS2 overexpression; BY4741 cells bearing plasmid pBG1805-Slf1 or control plasmid pBG1805 were grown in SC ura- gal at 30 C for 6 or 24 hours. An overnight culture of cells was inoculated at an OD600 of 0.1 and further grown to an OD600 of 0.5- 0.7 in 60 ml SC Ura- Gal at 30 C. Cells were harvested by centrifugation, washed twice with 600 ul of ice-cold sterile water. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL8546

4 Samples

Download data

(Submitter supplied) To identify RNAs specifically associated with Slf1p and Sro9p, cells expressing TAP-tagged Slf1, Sro9 or Fpr1 (negative control) were grown to mid-log phase in synthetic complete medium and harvested by centrifugation. RNA affinity isolations were essentially performed as described (Gerber et al. 2004 PLoS Biol.). In brief, TAP-tagged protein were captured from cell extracts with IgG coupled agarose beads (Sigma) and released by incubation with a site-specific protease (AcTEV, Sigma). more...

Organism:

Saccharomyces cerevisiae

Type:

Other

Platform:

GPL8306

9 Samples

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