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Comparison of the expression profiles of 630E strain and a sigD mutant after 6h of growth.

ABSTRACT: Transcriptionnal profiling of C. difficile 630E strain vs a sigD mutant after 6h of growth in BHI Two-conditions experiments, 630E strain 6h vs sigD mutant 6h, 4 biological replicates for each condition

ORGANISM(S): [Clostridium] difficile

SUBMITTER: Monot Marc

PROVIDER: E-GEOD-29275 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Comparison of the expression profiles of 630E strain and a sigD mutant after 6h of growth.

Project description:Transcriptionnal profiling of C. difficile 630E strain vs a sigD mutant after 6h of growth in BHI

2013-08-31 | GSE29275 | GEO

Comparison of the expression profiles of 630E strain after 4h and 10h of growth

Project description:Transcriptional profiling of C. difficile 630E strain after 4h vs 10h of growth Two-conditions experiments, 630E strain 4h vs 630E strain 10h, 4 biological replicates for each condition

2011-08-21 | E-GEOD-25474 | biostudies-arrayexpress

Comparison of the expression profiles of 630E strain and a sigH mutant after 10h of growth

Project description:Transcriptionnal profiling of C. difficile 630E strain vs a sigH mutant after 10h of growth in TY Two-conditions experiments, 630E strain 10h vs sigH mutant 10h, 4 biological replicates for each condition

2011-08-21 | E-GEOD-25475 | biostudies-arrayexpress

Comparison of the expression profiles of 630E JIR8094 strain and a ccpA mutant after 10h of growth in TY.

Project description:Transcriptionnal profiling of C. difficile 630E JIR8094 strain vs a ccpA mutant after 10h of growth in TY two-conditions experiments, WT strain vs ccpA mutant strain, 4 biological replicates for each condition, in an indirect design using a 8h TY RNA preparation as Reference

2012-10-02 | E-GEOD-35071 | biostudies-arrayexpress

Comparison of the expression profiles of 630E JIR8094 strain and a ccpA mutant after 10h of growth in TY with 0.5% glucose.

Project description:Transcriptionnal profiling of C. difficile 630E JIR8094 strain vs a ccpA mutant after 10h of growth in TY with 0.5% glucose two-conditions experiments, WT strain vs ccpA mutant strain, 4 biological replicates for each condition, in an indirect design using a 8h TY RNA preparation as Reference

2012-10-02 | E-GEOD-35070 | biostudies-arrayexpress

Effect of sigH in the growth phase transition of Clostridium difficile

Project description:This SuperSeries is composed of the following subset Series: GSE25474: Comparison of the expression profiles of 630E strain after 4h and 10h of growth GSE25475: Comparison of the expression profiles of 630E strain and a sigH mutant after 10h of growth This study is based on two microarray datasets, in one hand a phase transition comparison using the expression profiles of 630E strain after 4h and 10h of growth. In other hand a comparison at 10h of growth between a mutant of the sigH gene and the WT strains. This experimental procedure was designed to investigate the effect of sigH in the growth phase transition of Clostridium difficile. Refer to individual Series

2011-08-21 | E-GEOD-25521 | biostudies-arrayexpress

Comparison of the expression profiles of 630E JIR8094 strain and a ccpA mutant

Project description:This SuperSeries is composed of the following subset Series: GSE35070: Comparison of the expression profiles of 630E JIR8094 strain and a ccpA mutant after 10h of growth in TY with 0.5% glucose. GSE35071: Comparison of the expression profiles of 630E JIR8094 strain and a ccpA mutant after 10h of growth in TY. GSE35072: Clostridium difficile CD630E JIR8094: growth 10h with 0.5% glucose in TY vs growth 10h in TY GSE35073: Clostridium difficile mutant ccpA CD630E JIR8094: growth 10h with 0.5% glucose in TY vs growth 10h in TY Refer to individual Series

2012-10-02 | E-GEOD-35152 | biostudies-arrayexpress

Comparison of the expression profiles of 630E strain and an Hfq antisense after 7.5h of growth in Tyt

Project description:Transcriptional profiling of C. difficile 630E strain vs. an Hfq antisense after 7.5h of growth inTYt. Two-conditions experiments, 630E strain vs. Hfq antisense grown in TYt, 4 biological replicates for each condition.

2014-07-15 | E-GEOD-55273 | biostudies-arrayexpress

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 sigG mutant after 19h 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 sigG mutant after 19h of growth in MS is performed. Two-condition experiment: 630E strain 19h vs. sigG mutant 19h. 4 biological replicates for each condition, including dye-swaps.

2014-02-20 | E-GEOD-43200 | biostudies-arrayexpress

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