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KO comR vs. KO comX comparison

ABSTRACT: Transcriptional profiling of mutant Streptococcus thermophilus LMD-9 comR::lox72 (strain LF148) compared to mutant S. thermophilus LMD-9 DcomX (strain CB003) for the identification of the ComR regulon. Cells were grown in CDM medium supplemented with lactose 1% (CDML) and sampled at OD600 = 0.3~0.4 for mRNA extraction.

ORGANISM(S): Streptococcus thermophilus Streptococcus thermophilus LMD-9

PROVIDER: GSE35849 | GEO | 2014/02/15

SECONDARY ACCESSION(S): PRJNA151867

REPOSITORIES: GEO

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KO comR vs. KO comX comparison

Project description:Transcriptional profiling of mutant Streptococcus thermophilus LMD-9 comR::lox72 (strain LF148) compared to mutant S. thermophilus LMD-9 DcomX (strain CB003) for the identification of the ComR regulon. Cells were grown in CDM medium supplemented with lactose 1% (CDML) and sampled at OD600 = 0.3~0.4 for mRNA extraction. 2 LF148 biological replicates (one used as a technical replicate for a dye swap), 2 CB003 biological replicates (one used as a technical replicate for a dye swap).

2014-02-15 | E-GEOD-35849 | biostudies-arrayexpress

WT vs KO comX comparison

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WT vs KO comX comparison

Project description:Transcriptional profiling of S. thermophilus LMD-9 wild-type compared to the isogenic mutant strain CB003 (deletion of comX, STER_0189) for the identification of the ComX regulon. Cells were grown in CDM medium supplemented with lactose 1% (CDML) and sampled at OD600 = 0.4 for mRNA extraction wild-type vs knockout, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 KO biological replicates (one used as technical replicate for a dye swap)

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WT vs KO hdiR comparison

Project description:Transcriptional profiling of S. thermophilus LMD-9 wild-type compared to the isogenic mutant strain CB0082 (deletion of hdiR, STER_0918) for the identification of the HdiR regulon. Cells were grown in CDM medium supplemented with lactose 1% (CDML) and sampled at OD600 = 0.4 for mRNA extraction wild-type vs knockout, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 KO biological replicates (one used as technical replicate for a dye swap)

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WT vs KO mecA comparison

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WT vs WTmitomycinC comparison

Project description:Transcriptional profiling of S. thermophilus LMD-9 wild-type in the presence of mitomycin C. Cells were grown in CDM medium supplemented with lactose 1% (CDML), without or with mitomycin C 0.08 microg/ml, and sampled at OD600 = 0.4 for mRNA extraction. wild-type vs wild-type + mitomycin C, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 WT + mitomycin C biological replicates (one used as technical replicate for a dye swap)

2013-01-31 | E-GEOD-35518 | biostudies-arrayexpress

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Project description:Transcriptional profiling of S. thermophilus LMD-9 wild-type compared to the isogenic mutant strain CB052 (deletion of mecA, STER_0216) for the identification of the MecA regulon. Cells were grown in THB medium supplemented with glucose 1% (THBG) and sampled at OD600 = 0.4 for mRNA extraction wild-type vs knockout, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 KO biological replicates (one used as technical replicate for a dye swap)

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mRNA transcriptional profiles in Streptococcus thermophilus wild-type strain LMD-9 and 3 mutants deleted for the pptAB, eep and amiCDE genes.

Project description:In Gram-positive bacteria, the direct quorum sensing activation pathway involves sensing a autoinducing peptide (AIP) inside the cell after its maturation, export and re-internalization. Once internalized, the AIP interacts with a transcriptional regulator belonging to the RRNPP family. In Streptococcus thermophilus, AIPs are matured by a protease called Eep, exported by an ABC transporter called PptAB, and re-imported by another ABC transporter called Ami. We used a deep sequencing approach (RNAseq) to identify all genes whose expression is controlled by a quorum sensing mechanism involving the three partners PptAB, Eep and Ami. Thus, we studied the mRNA transcriptional profiles in Streptococcus thermophilus strain LMD-9 and 3 mutants deleted for the pptAB, eep and amiCDE genes. The four strains were also deleted for the comR gene in order to get rid off the genes whose expression is controlled by ComR. Indeed, ComR is a RRNPP regulator and its regulon has been already identified. The four strains were grown in a chemically defined medium and cell were harvested at the end of the exponential phase (OD600 1).

2020-10-01 | E-MTAB-9568 | biostudies-arrayexpress

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