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Comparison of the expression profiles of R20291 strain : a wild type strain, a fliC mutant and a fliC mutant complemented after 14h of growth in PY and a wild type strain and a fliC mutant after 14h of mouse infection in vivo

ABSTRACT: Transcriptionnal profiling of C. difficile R20291 strain : a wild type strain, a fliC mutant and a fliC mutant complemented after 14h of growth in PY and a wild type strain and a fliC mutant after 14h of mouse infection in Vivo

ORGANISM(S): Clostridioides difficile

PROVIDER: GSE35727 | GEO | 2013/12/31

SECONDARY ACCESSION(S): PRJNA152131

REPOSITORIES: GEO

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Comparison of the expression profiles of R20291 strain : a wild type strain, a fliC mutant and a fliC mutant complemented after 14h of growth in PY and a wild type strain and a fliC mutant after 14h of mouse infection in vivo

Project description:Transcriptionnal profiling of C. difficile R20291 strain : a wild type strain, a fliC mutant and a fliC mutant complemented after 14h of growth in PY and a wild type strain and a fliC mutant after 14h of mouse infection in Vivo two-conditions experiments, R20291 strain : a wild type strain, a fliC mutant and a fliC mutant complemented in Vitro and a wild type strain and a fliC mutant in Vivo, 4 biological replicates for each condition, in an direct design.

2013-12-31 | E-GEOD-35727 | biostudies-arrayexpress

Comparison of the expression profiles of R20291 strain and a R20291 strain after 4h, 6h, 8h, 14h, 38h of growth in vivo

Project description:Transcriptionnal profiling of C. difficile R20291 strain vs a R20291 strain after4h 6h 8h 14h 38h of growth in Vivo

2016-01-31 | GSE35726 | GEO

Comparison of the expression profiles of the 630E strain and a sigE mutant after 14h of growth

Project description:Compartment-specific control of gene expression during Bacillus subtilis sporulation is governed by a cascade of four sigma factors, sigmaF and sigmaG in the forespore and sigmaE and sigmaK in the mother cell. In this work, we combined transcriptional analyses and transcriptional start site mapping to define the sigmaF, sigmaE, sigmaG and sigmaK regulons in Clostridium difficile. A total of about 225 genes were under the control of these sigma factors: 25 in the sigmaF regulon, 97 sigmaE-dependent genes, 50 sigmaG-governed genes and 56 genes specifically controlled by sigmaK. A significant fraction of genes in each regulon are of unknown function and we can propose new candidates for spore coat proteins synthesized under the control of sigmaE and sigmaK among proteins previously detected in the spore proteome (Lawley et al., 2009 (PMID 19542279)). Global analysis of developmental gene expression under the control of these sigma factors indicate deviations from the B. subtilis model regarding the communication between mother cell and forespore in C. difficile. We show that the expression of the sigmaE regulon in the mother cell is not strictly under the control of sigmaF despite the fact that the forespore product SpoIIR is required for the processing of pro-sigmaE. In addition, the sigmaK regulon is not controlled by sigmaG in C. difficile in connection with the lack of pro-sigmaK processing in this bacterium. However, a control of the forespore on sigmaK targets is maintained through a sigmaF-dependent regulation of sigmaK-controlled genes, a process that bypasses sigmaG. Here, transcriptional profiling of the Clostridium difficile 630E strain vs. a sigE mutant after 14h of growth in MS is performed. Two-condition experiment: 630E strain 14h vs. sigE mutant 14h. 4 biological replicates for each condition, including dye-swaps.

2014-02-20 | E-GEOD-43198 | biostudies-arrayexpress

Comparison of the expression profiles of the 630E strain and a sigF mutant after 14h of growth

Project description:Compartment-specific control of gene expression during Bacillus subtilis sporulation is governed by a cascade of four sigma factors, sigmaF and sigmaG in the forespore and sigmaE and sigmaK in the mother cell. In this work, we combined transcriptional analyses and transcriptional start site mapping to define the sigmaF, sigmaE, sigmaG and sigmaK regulons in Clostridium difficile. A total of about 225 genes were under the control of these sigma factors: 25 in the sigmaF regulon, 97 sigmaE-dependent genes, 50 sigmaG-governed genes and 56 genes specifically controlled by sigmaK. A significant fraction of genes in each regulon are of unknown function and we can propose new candidates for spore coat proteins synthesized under the control of sigmaE and sigmaK among proteins previously detected in the spore proteome (Lawley et al., 2009 (PMID 19542279)). Global analysis of developmental gene expression under the control of these sigma factors indicate deviations from the B. subtilis model regarding the communication between mother cell and forespore in C. difficile. We show that the expression of the sigmaE regulon in the mother cell is not strictly under the control of sigmaF despite the fact that the forespore product SpoIIR is required for the processing of pro-sigmaE. In addition, the sigmaK regulon is not controlled by sigmaG in C. difficile in connection with the lack of pro-sigmaK processing in this bacterium. However, a control of the forespore on sigmaK targets is maintained through a sigmaF-dependent regulation of sigmaK-controlled genes, a process that bypasses sigmaG. Here, transcriptional profiling of the Clostridium difficile 630E strain vs. a sigE mutant after 14h of growth in MS is performed. Two-condition experiment: 630E strain 14h vs. sigF mutant 14h. 4 biological replicates for each condition, including dye-swaps.

2014-02-20 | E-GEOD-43199 | biostudies-arrayexpress

Clostridioides difficile

Project description:Comparison of the expression profiles of R20291 strain : a wild type strain, a fliC mutant and a fliC mutant complemented after 14h of growth in PY and a wild type strain and a fliC mutant after 14h of mouse infection in vivo

| PRJNA152131 | ENA

Comparison of the expression profiles of the 630E strain and a sigF mutant after 14h of growth

2014-02-20 | GSE43199 | GEO

Comparison of the expression profiles of the 630E strain and a sigE mutant after 14h of growth

2014-02-20 | GSE43198 | GEO

Transcription profiling of the wild-type strain, mhy1Δ mutant and MHY1-overexpressing mutant strain.

Project description:To explore the cellular functions of Mhy1, how Mhy1 promotes filamentation, we wanted to identify genes that are transcriptionally controlled by Mhy1. To this end, RNA-Seq analysis was conducted in cells of wild-type strain, mhy1Δ mutant and wild-type strain overexpressing MHY1 grown in filament-inducing YNDC7 medium.

2020-09-30 | GSE133657 | GEO

Transcriptome of the NWMN_0641 deletion mutant strain and the wild-type Staphylococcus aureus Newman strain

Project description:To study the roles of NWMN_0641, we used microarray to compare the transcriptome of the NWMN_0641 deletion strain with that of the wild-type Staphylococcus aureus Newman strain. Transcriptome of the NWMN_0641 deletion mutant strain and the wild-type Newman strain

2014-11-04 | GSE57260 | GEO

P. aeruginosa PAO1 PA2663 mutant vs. wild type strain

Project description:P. aeruginosa PAO1 wild type and PA2663 mutant strains expression in biofilm cells relative to P. aeruginosa PAO1 wild type strain expression in biofilm cells. All samples cultured in LB with glass wool Keywords: Biofilm

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