Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

32 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome comparison of rokA mutant to wild-type in the Streptococcus pneumoniae D39.

ABSTRACT: The Gram-positive human pathogen Streptococcus pneumoniae possesses an unusually high number of gene clusters specific for carbohydrate utilization. This provides it with the ability to use a wide array of sugars, which may aid during infection and survival in different environmental conditions present in the host. In this study, the regulatory mechanism of transcription of a gene cluster, SPD0424-28, putatively encoding a cellobiose/lactose-specific PTS, is investigated. Upstream of SPD0424 a gene was identified encoding a ROK-family transcriptional regulator (RokA: SPD0423). DNA microarray and transcriptional reporter analyses with a rokA mutant revealed that RokA acts as a transcriptional repressor of the SPD0424-28 operon. In conclusion, we have characterized the role of RokA on gene expression of S. pneumoniae. One condition design comparision of two strains including a dye swap

ORGANISM(S): Streptococcus pneumoniae D39

SUBMITTER: Sulman Shafeeq

PROVIDER: E-GEOD-41448 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Characterization of the ROK-family transcriptional regulator RokA of Streptococcus pneumoniae D39.

Shafeeq Sulman S Kloosterman Tomas G TG Rajendran Vijayanand V Kuipers Oscar P OP

Microbiology (Reading, England) 20121018 Pt 12

The Gram-positive human pathogen Streptococcus pneumoniae possesses an unusually high number of gene clusters specific for carbohydrate utilization. This provides it with the ability to use a wide array of sugars, which may aid during infection and survival in different environmental conditions present in the host. In this study, the regulatory mechanism of transcription of a gene cluster, SPD0424-8, putatively encoding a cellobiose/lactose-specific phosphotransferase system is investigated. We ...[more]

PMID: 23082033

Similar Datasets

Comparison of the Streptococcus pneumoniae D39 wild-type to the D39 galR mutant [GalM17]

Project description:We explored the regulatory mechanism of Leloir pathway genes in Streptococcus pneumoniae D39. Here, we demonstrate that the expression of galKT is galactose dependent. By microarray analysis and quantitative RT-PCR, we further show the role of the transcriptional regulator GalR, present upstream of galKT, as a transcriptional activator of galKT in the presence of galactose. Moreover, we predict a 19-bp regulatory site (5'-GATAGTTTAGTAAAATTTT-3' ) for the transcriptional regulator GalR in the promoter region of galK, which is also highly conserved in other streptococci. Growth comparison of Î galK with the D39 wildtype strain grown in the presence of galactose shows that galK is required for the proper growth of S. pneumoniae on galactose. Comparison of the Streptococcus pneumoniae D39 galR mutant compared to D39 wild type in M17 medium+ 0.5% (w/v) galactose (GalM17). One condition design comparison of two strains including a dye swap.

2015-10-30 | E-GEOD-74501 | biostudies-arrayexpress

Comparison of the Streptococcus pneumoniae D39 wild-type to the D39 galR mutant [GM17]

Project description:We explored the regulatory mechanism of Leloir pathway genes in Streptococcus pneumoniae D39. Here, we demonstrate that the expression of galKT is galactose dependent. By microarray analysis and quantitative RT-PCR, we further show the role of the transcriptional regulator GalR, present upstream of galKT, as a transcriptional activator of galKT in the presence of galactose. Moreover, we predict a 19-bp regulatory site (5'-GATAGTTTAGTAAAATTTT-3' ) for the transcriptional regulator GalR in the promoter region of galK, which is also highly conserved in other streptococci. Growth comparison of Î galK with the D39 wildtype strain grown in the presence of galactose shows that galK is required for the proper growth of S. pneumoniae on galactose. Comparison of the Streptococcus pneumoniae D39 galR mutant compared to D39 wild type in M17 medium+ 0.5% (w/v) glucose (GM17). One condition design comparison of two strains including a dye swap.

2015-10-30 | E-GEOD-74500 | biostudies-arrayexpress

ArgR1 and AhrC Mediate Arginine-Dependent Regulation of Arginine Acquisition- and Virulence Genes in the Human Pathogen Streptococcus pneumoniae

Project description:This SuperSeries is composed of the following subset Series: GSE33033: ahrC mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + 10 mM arginine GSE33034: argR1 mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + 10 mM arginine GSE33035: argR1-ahrC mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + 10 mM arginine GSE33036: Streptococcus pneumoniae D39 wild-type grown in CDM+10 mM arginine compared to D39 wild type grown in CDM + 0.05 mM arginine Refer to individual Series

2011-11-02 | E-GEOD-33043 | biostudies-arrayexpress

Comparison of the Streptococcus pneumoniae D39 ulaR Mutant compared to D39 wild-type

Project description:Comparison of the Streptococcus pneumoniae D39 ulaR mutant compared to D39 wild type in M17 medium + 10mM ascorbic acid (AM17) One condition design comparision of two strains including a dye swap

2014-10-28 | E-GEOD-61649 | biostudies-arrayexpress

Streptococcus pneumoniae bguR mutant vs wild-type D39

Project description:Transcriptome comparison of bguR mutant to wild-type in the Streptococcus pneumoniae D39 grown in GM17 The human pathogen Streptococcus pneumoniae has the ability to use the carbon- and energy source cellobiose due to the presence of a cellobiose-utilizing gene cluster (cel locus) in its genome. This system is regulated by the cellobiose-dependent transcriptional activator CelR, which has been previously shown to contribute to pneumococcal virulence. To get a broader understanding of the response of S. pneumoniae to cellobiose, we compared the pneumococcal transcriptome during growth on glucose as the main carbon source to that with cellobiose as the main carbon source. The expression of various carbon metabolic genes was altered, including a PTS operon (which we here denote as the bgu operon) that has high similarity with the cel locus. In contrast to the cel locus, the bgu operon is conserved in all sequenced strains of S. pneumoniae, indicating an important physiological function in the lifestyle of pneumococci. We next characterized the transcriptional regulation of the bgu operon in more detail. Its expression was increased in the presence of cellobiose, and decreased in the presence of glucose. A novel GntR-type transcriptional regulator (which we here denote as BguR) was shown to act as a transcriptional repressor of the bgu operon and its repressive effect was relieved in the presence of cellobiose. BguR-dependent repression was demonstrated to be mediated by a 20-bp DNA operator site (5M-bM-^@M-^Y-AAAAATGTCTAGACAAATTT-3M-bM-^@M-^Y) present in PbguA as verified by promoter truncation experiments. In conclusion, we have identified a new cellobiose-responsive PTS operon, together with its transcriptional regulator in S. pneumoniae. One condition design, comparison of two strains including a dye swap

2013-02-20 | E-GEOD-43342 | biostudies-arrayexpress

Comparison of the Streptococcus pneumoniae D39 ulaR2 Mutant compared to D39 wild-type

Project description:In this study, we have explored the impact of ascorbic acid on the transcriptome of Streptococcus pneumoniae D39. The expression of several genes and operons, including the ula operon (which has been previously shown to be involved in ascorbic acid utilization), the AdcR regulon (which has been previously shown to be involved in zinc transport and virulence) and a PTS operon (which we denote here as ula2 operon) were altered in the presence of ascorbic acid. The ula2 operon consists of five genes, including the transcriptional activator ulaR2. Our M-NM-2-galactosidase assay data and transcriptome comparison of the ulaR2 mutant with the wild-type demonstrated that the transcriptional activator UlaR2 in the presence of ascorbic acid activates the expression of the ula2 operon. We further predict a 16-bp regulatory site (5M-bM-^@M-^Y-ATATTGTGCTCAAATA-3M-bM-^@M-^Y) for UlaR2 binding in the Pula2. Furthermore, we have explored the effect of ascorbic acid on the expression of the AdcR regulon. Our ICP-MS analysis showed that addition of ascorbic acid to the medium causes zinc starvation in the cell that leads to the activation of the AdcR regulon. Comparison of the Streptococcus pneumoniae D39 ulaR2 mutant compared to D39 wild type in M17 medium+ 10mM ascorbic acid (AM17) One condition design comparision of two strains including a dye swap

2015-01-21 | E-GEOD-64106 | biostudies-arrayexpress

ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + Glucose at MID-log growth phase

Project description:Comparison of Streptococcus pneumoniae D39 ccpA mutant compared to D39 wild type in CDM with glucose as sole carbon source to define the regulon of carbon catabolite control protein CcpA under this condition Details described in Carvalho SM, Kloosterman TG, Neves AR, Kuipers OP. CcpA Ensures Optimal Metabolic Fitness of Streptococcus pneumoniae. Plos One 2011 One condition design comparision of two strains including a dye swap

2011-09-30 | E-GEOD-31815 | biostudies-arrayexpress

ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + GLucose at transition-phase of growth (TS)

2011-09-30 | E-GEOD-31816 | biostudies-arrayexpress

ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + galactose at transition-phase of growth (TS)

Project description:Comparison of Streptococcus pneumoniae D39 ccpA mutant compared to D39 wild type in CDM with galactose as sole carbon source to define the regulon of carbon catabolite control protein CcpA under this condition Details described in Carvalho SM, Kloosterman TG, Neves AR, Kuipers OP. CcpA Ensures Optimal Metabolic Fitness of Streptococcus pneumoniae. Plos One 2011 One condition design comparision of two strains including a dye swap

2011-09-30 | E-GEOD-31818 | biostudies-arrayexpress

ccpA mutant compared to D39 wild-type in Streptococcus pneumoniae in CDM + Galactose at MID-log growth phase

2011-09-30 | E-GEOD-31817 | biostudies-arrayexpress