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Effect of rbf1 deletion during controlled expression of Ustilago maydis b-mating type locus genes bE1 and bW2

ABSTRACT: In the phytopathogenic Basidiomcete Ustilago maydis, sexual and pathogenic development are tightly connected and controlled via the b-mating type locus. The b-mating type locus encodes two homeodomain transcription factors, bE and bW, which form an active heterodimeric complex when they are derived from different b-alleles. Rbf1 encodes a zinc-finger transcription factor that is expressed upon formation of an active bE/bW heterodimer. To analyse the dependency of b and rbf1, changes in gene expression were monitored in strain AB31 (Brachmann et al., 2001, Mol Microbiol 42, 1047-1063) and in the derivative AB31Δrbf1 in which rbf1 was deleted. AB31 harbours the active combination bE1 and bW2 under the control of the arabinose-inducible crg1 promoter. Samples were taken 3h, 5h and 12h after induction of bE/bW gene expression. Strain AB32, which harbors the incompatible bE2 and bW2 combination, was used as control.

ORGANISM(S): Ustilago maydis

PROVIDER: GSE18754 | GEO | 2010/06/01

SECONDARY ACCESSION(S): PRJNA123841

REPOSITORIES: GEO

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Effect of rbf1 deletion during controlled expression of Ustilago maydis b-mating type locus genes bE1 and bW2

Project description:In the phytopathogenic Basidiomcete Ustilago maydis, sexual and pathogenic development are tightly connected and controlled via the b-mating type locus. The b-mating type locus encodes two homeodomain transcription factors, bE and bW, which form an active heterodimeric complex when they are derived from different b-alleles. Rbf1 encodes a zinc-finger transcription factor that is expressed upon formation of an active bE/bW heterodimer. To analyse the dependency of b and rbf1, changes in gene expression were monitored in strain AB31 (Brachmann et al., 2001, Mol Microbiol 42, 1047-1063) and in the derivative AB31Δrbf1 in which rbf1 was deleted. AB31 harbours the active combination bE1 and bW2 under the control of the arabinose-inducible crg1 promoter. Samples were taken 3h, 5h and 12h after induction of bE/bW gene expression. Strain AB32, which harbors the incompatible bE2 and bW2 combination, was used as control. Strains were grown to an OD600 of 0.4-0.6 at 28°C in liquid array medium: 6.25% (w/v) salt solution, 30 mM L-glutamine, 1% (w/v) glucose, pH 7.0 (filter-sterilized). For induction of the bE and bW genes, cells were inoculated in liquid array medium containing 1% (w/v) arabinose instead of glucose as a carbon source. For induction, cells were washed once with inducing medium; time point 0 h of the time course experiments corresponds to the first contact with inducing medium. Experiments were performed in two biological replicates for each time point.

2010-06-01 | E-GEOD-18754 | biostudies-arrayexpress

Rbf1 induced gene expression in Ustilago maydis

2010-06-01 | GSE18756 | GEO

Controlled expression of compatible and incompatible combinations of Ustilago maydis b-mating type locus genes bE and bW

2010-06-01 | GSE18750 | GEO

Controlled expression of compatible and incompatible combinations of Ustilago maydis b-mating type locus genes bE and bW

Project description:In the phytopathogenic Basidiomcete Ustilago maydis, sexual and pathogenic development are tightly connected and controlled via the b-mating type locus. The b-mating type locus encodes two homeodomain transcription factors, bE and bW, which form an active heterodimeric complex when they are derived from different b-alleles. To identify genes regulated by the bE/bW transcription factor, changes in gene expression were monitored during a 12-h time course (0h, 1h, 2h, 3h, 5h, 12h) in strains AB31 and AB33 that harbor the active combination bE1 and bW2 under the control of the arabinose-inducible crg1 promoter and the nitrate-inducible nar1 promoter, respectively (Brachmann et al., 2001, Mol Microbiol 42, 1047-1063). Induction of bE1/bW2 in these strains results in a filament that resembles the infectious dikaryotic hypha formed after fusion of compatible sporidia. Strains AB32 and AB34, which harbor the incompatible bE2 and bW2 combination, were used as controls. Strains were grown to an OD600 of 0.4-0.6 at 28°C in liquid array medium: 6.25% (w/v) salt solution, 30 mM L-glutamine, 1% (w/v) glucose, pH 7.0 (filter-sterilized). For induction of genes under control of the crg1 promoter (strains AB31 and AB32) cells were inoculated in liquid array medium containing 1% (w/v) arabinose instead of glucose as a carbon source. For induction of the nar1-promoter glutamine was exchanged by nitrate (3g KNO3/l) as the sole nitrogen source. For induction, cells were washed once with inducing medium; time point 0 h of the timecourse experiments corresponds to the first contact with inducing medium. Experiments were performed in two biological replicates for each time point.

2010-06-01 | E-GEOD-18750 | biostudies-arrayexpress

Transcription factor Rbf1 is the master regulator for b-mating type controlled pathogenic development in Ustilago maydis

Project description:This SuperSeries is composed of the following subset Series: GSE18750: Controlled expression of compatible and incompatible combinations of Ustilago maydis b-mating type locus genes bE and bW GSE18754: Effect of rbf1 deletion during controlled expression of of Ustilago maydis b-mating type locus genes bE1 and bW2 GSE18756: Rbf1 induced gene expression in Ustilago maydis Refer to individual Series

2010-06-01 | E-GEOD-18881 | biostudies-arrayexpress

Be1 and Be2 B cells are transcriptionally distinct

Project description:B cells cultured in the presence of Th1 CD4 T cells (Be1) or Th2 CD4 T cells (Be2) lead to distinct phenotypic outcomes. To determine when the phenotypic differences emerged, IgD positive and IgD negative Be1 and Be2 cells were isolated from cultures derived from 3 independent donors and RNA-seq performed. These data define the transcriptional differences of Be1 and Be2 cells ad distinct differentiation stages and show that Be1 B cells contain a pre-ASC signature that is absent from Be2 B cells.

2019-05-17 | GSE95282 | GEO

Tbet regulates the accessible chromatin of Be1 B cells

Project description:To investigate the role of Tbet in B cell differentiation to "effector-like" antibody secreting cells (ASC's) we utilized an ex vivo culture system to differentiate B cells in the presence of Th1 (Be1) or Th2 (Be2) polarized T cells. To determine the role of Tbet in Be1 cell differentiation we performed ATAC-seq on Wt Be1 and Tbet negative (TbetNeg) Be1 cells and Wt Be2 and Tbet negative (TbetNeg) Be2 cells. Collectively, these data show that T-bet serves as master regulator for the Be1 cell fate and is required to program chromatin accessibility during ASC differentiation in Be1 cells.

2019-04-29 | GSE118984 | GEO

Gene expression data comparing rbf1 mutant and PSC overexpressing Drosophila eye imaginal discs

2014-09-30 | GSE38430 | GEO

Effect of clp1 induction on rbf1-dependent gene regulation

Project description:The clp1 gene is a b-regulated gene that is required for clamp formation during the biotrophic growth phase of U. maydis. Interaction studies demonstrated that Clp1 imnteracts with Rbf1, the central regulator of pathogenciity. To exclude b-dependent effects the experiments were performed in a b-null background to analyze clp1-depndent effects on rbf controlled gene regulation Strains UKH156 (nitrate inducible Rbf1 expression) and UKH164 (arabinose-inducible Clp1 and and nitrate-inducible Rbf1 expression) were grown for 12h in liquid array medium/nitrate/arabinose.

2010-09-17 | E-GEOD-21121 | biostudies-arrayexpress

Gene expression data comparing rbf1 mutant and PSC overexpressing Drosophila eye imaginal discs

Project description:PSC overexpression can cause phenotypes specifically in an rbf1 mutant background, likely due to a sensitization to PSC-induced phenotypes. The goal of this study is to understand the interaction between rbf1 hypomorphic mutation and the overexpression of Polycomb group gene Posterior sex combs. We used Drosophila larval eye imaginal discs that were mutant for rbf1 or overexpressing PSC and compared these to control larval eye discs to assess changes in gene expression. We identified a common set of genes that are deregulated when rbf1 is mutated or when PSC is overexpressed. RNA was extracted from eye imaginal discs dissected from third instar Drosophila larvae. Samples were amplified and hybridized to Affymetrix Drosophila Genome 2.0 Array. To better understand the effects of rbf1 mutation and PSC overexpression, we compared the gene expression of rbf1 mutant eye discs and eye discs overexpressing PSC to control eye discs.

2014-09-30 | E-GEOD-38430 | biostudies-arrayexpress

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