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CovR-regulated genes in Streptococcus mutans strain UA159

ABSTRACT: The goal of the study was to identify subsets of the genes, which are up-regulated and down-regulated by CovR regulator in UA159 strain.

ORGANISM(S): Streptococcus mutans UA159 Streptococcus mutans

PROVIDER: GSE16500 | GEO | 2011/01/01

SECONDARY ACCESSION(S): PRJNA116121

REPOSITORIES: GEO

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CovR-regulated genes in Streptococcus mutans strain UA159

Project description:The goal of the study was to identify subsets of the genes, which are up-regulated and down-regulated by CovR regulator in UA159 strain. Two independently isolated RNA samples from each of the wild-type UA159 strain and its covR mutant strain grown until mid-exponential phase were analyzed. Each sample was hybridized with 5 blocks of NimbleGen arrays.

2011-01-01 | E-GEOD-16500 | biostudies-arrayexpress

Modulation of covR expression in Streptococcus mutans UA159.

Project description:The biofilm-forming Streptococcus mutans is a gram-positive bacterium that resides in the human oral cavity and is considered to be the primary etiological agent in the formation of dental caries. The global response regulator CovR, which lacks a cognate sensor kinase, is essential for the pathogenesis and biofilm formation of this bacterium, but it is not clear how covR expression is regulated in S. mutans. In this communication, we present the results of our studies examining various factors that regulate the expression of covR in S. mutans UA159. The results of Southern hybridization and PCR analysis indicated that CovR is an orphan response regulator in various isolates of S. mutans. The transcriptional start site for covR was found to be 221 base pairs upstream of the ATG start codon, and site-directed mutagenesis of the upstream TATAAT box confirmed our findings. The expression of covR is growth phase dependent, with maximal expression observed during exponential-growth phase. While changes to the growth temperature did not significantly affect the expression of covR, increasing the pH or the concentration of Mg(2+) in the growth medium leads to an increase in covR expression. The results of semiquantitative reverse transcriptase PCR analysis and in vivo transcriptional-fusion reporter assays indicated that CovR autoregulates its own expression; this was verified by the results of electrophoretic mobility shift assays and DNase I protection assays, which demonstrated direct binding of CovR to the promoter region. Apparently, regulation by Mg(2+) and the autoregulation of covR are not linked. A detailed analysis of the regulation of CovR may lead to a better understanding of the pathogenesis of S. mutans, as well as providing further insight into the prevention of dental caries.

| S-EPMC2446802 | biostudies-literature

Streptococcus mutans

Project description:CovR-regulated genes in Streptococcus mutans strain UA159

| PRJNA116121 | ENA

Streptococcus mutans UA159 control vs. Streptococcus mutans UA159 supplemented with 20 uM 4,5-dihydroxy-2,3-pentadione (DPD) at 3 different pH values

Project description:Transcriptional profiling of early logarithmic phase culture (O.D=0.2-0.3) of Streptococcus mutans UA159 comparing control of untreated Streptococcus mutans UA159 bacteria with Streptococcus mutans UA159 bacteria spplemented with 20µM synthetic DPD (pre-AI-2) which regulates gene expression via AI-2 quorum sensing system.Three compairisons were performed at pHs of 7,6 and 5.

2010-07-29 | GSE23159 | GEO

Streptococcus mutans UA159 vs. fabT mutant strain, pH5 vs. pH7

Project description:Transcriptional analysis of the regulator FabT in S. mutans RNA was extracted from 4 replicate samples of S. mutans UA159 and MU1591 (M-bM-^HM-^FfabT) grown in continuous culture to steady-state pH values of 7 and 5. RNA was labeled with Cy3. For each replicate, labeled RNA was hybridized to slides along with Cy5-labeled reference RNA, extracted from S. mutans UA159 cultures grown to mid-log.

2012-05-31 | E-GEOD-36960 | biostudies-arrayexpress

Streptococcus mutans UA159 with or without 8.4% oxygen vs. nox mutant strain. pH7

Project description:Transcriptional analysis of the effects of oxygen concentraion in S. mutans RNA was extracted from 3 or 4 replicate samples of S. mutans UA159, UA159 grown in 8.4 % oxygen concentration and MU1020 (M-bM-^HM-^Fnox) grown in continuous culture to steady-state pH values of 7. RNA was labeled with Cy3. For each replicate, labeled RNA was hybridized to slides along with Cy5-labeled reference RNA, extracted from S. mutans UA159 cultures grown to mid-log.

2012-10-04 | E-GEOD-38803 | biostudies-arrayexpress

Streptococcus mutans UA159 with or without 8.4% oxygen vs. nox mutant strain. pH5

Project description:Transcriptional analysis of the effects of oxygen concentraion in S. mutans RNA was extracted from 3 or 4 replicate samples of S. mutans UA159, UA159 grown in 8.4 % oxygen concentration and MU1020 (M-bM-^HM-^Fnox) grown in continuous culture to steady-state pH values of 5. RNA was labeled with Cy3. For each replicate, labeled RNA was hybridized to slides along with Cy5-labeled reference RNA, extracted from S. mutans UA159 cultures grown to mid-log.

2014-04-01 | E-GEOD-56118 | biostudies-arrayexpress

Streptococcus mutans UA159 vs. fabM mutant strain (UR117), pH7 vs. pH5/5.5

Project description:Transcriptional analysis of glucose shock vs. steady-state growth in the parent strain and an acid sensitive mutant strain of S. mutans RNA was extracted from 4 replicate samples of S. mutans UA159 and UR117 (fabM mutant strain) grown in continuous culture to a steady-state pH value of 7. The cultures were exposed to a glucose shock (200mM) and samples were collected upon achieving culture pH value of 5.5. pH control was re-established and cultures were allowed to grow to a steady-state pH value of 5 (for UA159) and 5.5 (for fabM mutant). RNA was labeled with Cy3. For each replicate, labeled RNA was hybridized to slides along with Cy5-labeled reference RNA, extracted from S. mutans UA159 cultures grown to mid-log.

2015-02-15 | E-GEOD-64236 | biostudies-arrayexpress

Streptococcus mutans UA159 vs. spx mutant strains

Project description:Transcriptional profiling to investigate the regulatory roles of SpxA and SpxB of S. mutans. RNA was extracted from four replicate samples of each strain of interest (spxA mutant, spxB mutant, spxAB double-mutant, UA159 wild type) and labeled with Cy3. For each replicate, labeled RNA was hybridized to slides along with Cy5-labeled reference RNA, extracted from S. mutans UA159 cells grown to mid-log.

2010-05-16 | E-GEOD-19656 | biostudies-arrayexpress

Streptococcus mutans UA159

Project description:Streptococcus mutans UA159 Raw sequence reads

| PRJNA357631 | ENA