GEO DataSets

(Submitter supplied) Multiple S. mutans genes that are subject to SloR control are likely contributors to virulence. The regulation of these genes in response to metal ion limitation vs. availability in the oral cavity can significantly facilitate the caries-forming process and hence continued analysis of these data can reveal novel candidate genes for the purposes of therapeutic intervention and/or prevention. Keywords: Genetic modification, dose response, metalloregulation

Organism:

Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL6395

10 Samples

Download data: CEL

(Submitter supplied) Global transcriptional analysis of acid-inducible genes in Streptococcus mutans: multiple two-component systems involved in acid adaptation pH is a major environmental factor that regulates gene expression in many bacteria. Streptococcus mutans in dental biofilms is regularly exposed to cycles of acidic pH during the ingestion of fermentable dietary carbohydrates. The ability of S. mutans to tolerate low pH is crucial for its virulence and the pathogenesis in dental caries. more...

Organism:

Streptococcus mutans UA159; Streptococcus mutans

Type:

Expression profiling by array

Platform:

GPL8255

3 Samples

Download data: TXT

(Submitter supplied) Iron and manganese are micronutrientients that serve as important co-factors necessary for enzymatic function. In the host environment, access to metals can be highy restricted. Here, we wanted to identify the transcriptomic response when S. mutans UA159 is grown in media depleted of iron, manganese, or both.

Organism:

Streptococcus mutans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21130

12 Samples

Download data: CSV

(Submitter supplied) H2O2 is an oxidative stress agent known to trigger an upregulation in expression of detoxification genes in Streptococcus mutans. Following discovery of a spontaneously-occurring perR mutation, we wanted to compare the transcriptomic responses of H2O2 exposure in S. mutans strains bearing an intact perR or a perR deletion.

Organism:

Streptococcus mutans UA159

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29159

12 Samples

Download data: CSV, XLSX

(Submitter supplied) Streptococcus mutans, the organism most frequently associated with the development of dental caries, is able to utilize a diverse array of carbohydrates for energy metabolism. One such molecule is trehalose, a disaccharide common in human foods, which has recently been implicated in enhancing the virulence of epidemic strains of the pathogen, Clostridium difficile. In this study, deletion mutants of all three genes in the putative S. more...

Organism:

Streptococcus mutans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24591

18 Samples

Download data: TXT, XLSX

(Submitter supplied) CcpA is a global regulator of transcription in Gram-positive bacteria that controls gene expression in response to carbohydrate availability. Using the fructan hydrolase (fruA) gene of S. mutans as a model, we demonstrate that CcpA does indeed play a major role in carbohydrate catabolite repression. Using DNA microarrays, the expression of at least 170 genes differed in CcpA-deficient cells compared to the parental strains when cells are grown in the presence of glucose, but only 90 genes showed altered expression when cells were cultivated in the poorly-repressing substrate galactose. more...

Organism:

Streptococcus mutans

Type:

Expression profiling by array

Platform:

GPL4340

16 Samples

Download data: MEV

(Submitter supplied) In this report, codY mutant strains were constructed and used to demonstrate the relationship of (p)ppGpp synthesized by RelP and RelQ with the activation of CodY. In addition, because CodY has not been studied in S. mutans, we used microarrays to demonstrate that this protein function as a global regulator of gene expression in S. mutans. Keywords: stress response, gene knockout analysis

Organism:

Streptococcus mutans

Type:

Expression profiling by array

Platform:

GPL4340

8 Samples

Download data: MEV

(Submitter supplied) Whole genone expression profile comparing wild-type NZ131 to serR deletion mutant, grown in C-medium Mutants and interpretation are described further in the manuscript to be submitted: LaSarre and Federle, 2010. Title: Regulation and Consequence of Serine Catabolism in Streptococcus pyogenes.

Organism:

Streptococcus pyogenes NZ131

Type:

Expression profiling by genome tiling array

Platform:

GPL15576

2 Samples

Download data: CALLS, PAIR, TXT

(Submitter supplied) Transcriptional analysis of glucose shock vs. steady-state growth in the parent strain and an acid sensitive mutant strain of S. mutans

Organism:

Streptococcus mutans; Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL4339

24 Samples

Download data: MEV, TXT

(Submitter supplied) In this study we analyzed the transcriptional regulation of the operon (OBio) encoding the PTSBio and showed that it was repressed by NigR, a LacI-like transcriptional regulator. To elucidate the role of NigR in regulation of S. mutans carbohydrate transporters we performed full genome expression microarrays using custom Affymetrix chip. Expression microarray analysis was performed with ΔnigR grown in CDM supplemented with glucose and compared to that of WT grown under identical conditions. more...

Organism:

Streptococcus mutans UA159; Streptococcus mutans

Type:

Expression profiling by array

Platform:

GPL4769

4 Samples

Download data: CEL, CHP

(Submitter supplied) This study addresses the response of Streptococcus pneumoniae to zinc. The wild-type strain D39 was grown in GM17 and GM17 with 0.25 mM of ZnSO4. The transcriptome under these conditions was compared by using microarrays. Keywords: transcriptome analysis of D39 wild-type compared with its isogenic glnPA double mutant

Organism:

Streptococcus pneumoniae; Streptococcus pneumoniae TIGR4

Type:

Expression profiling by array

Platform:

GPL5023

4 Samples

Download data

(Submitter supplied) Transcriptional profiling of carolacton-treated Streptococcus mutans biofilm cells in comparison to untreated biofilms in a time series approach.

Organism:

Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL10540

22 Samples

Download data: TXT

(Submitter supplied) In vitro comparative transcriptome analysis was carried to determine genes that are differentially expressed in S. mutans biofilm compared with free-living cells. DNA-microarray analyses indicated that about 12 % of genes showed significant differential expression: 139 were activated and 104 were repressed in biofilm vs. planktonic environment. Keywords: cell type comparison

Organism:

Streptococcus mutans

Type:

Expression profiling by array

Platform:

GPL4745

3 Samples

Download data: GPR

(Submitter supplied) We used DNA microarrays to define the M. tuberculosis FurB regulon. For this porpouse we constructed a M. tuberculosis strain where furB was disrupted and its transcriptional profile was compared on DNA microarray with the transcriptional profile of its parental strain (H37Rv). A total of 32 genes included in 16 putative transcription units were shown to be up-regulated in the mutant relative to H37Rv. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL4057

6 Samples

Download data

(Submitter supplied) The glucose/mannose-PTS permease EIIMan encoded by manLMN in the dental caries pathogen Streptococcus mutans has a dominant influence on sugar-specific, CcpA-independent catabolite repression (CR). Mutations in manL affect energy metabolism and virulence-associated traits, including biofilm formation, acid tolerance and competence. Using promoter:reporter fusions, expression of the manLMN and the fruRKI operons, encoding a transcriptional regulator, a fructose-1-P kinase and a fructose-PTS permease EIIFru, respectively, was monitored in response to carbohydrate source and in mutants lacking CcpA, FruR, and components of EIIMan. more...

Organism:

Streptococcus mutans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21130

9 Samples

Download data: XLSX

(Submitter supplied) Campylobacter jejuni is a prevalent cause of bacterial gastroenteritis in humans worldwide. The mechanism by which C. jejuni survives stomach acidity remains unknown. Herein, we have demonstrated that C. jejuni with a fur deletion was more sensitive to acid than the wild-type strain. Profiling the acid stimulon of the C. jejuni ∆fur mutant allowed us to uncover Fur-regulated genes under acidic conditions. more...

Organism:

Campylobacter jejuni

Type:

Expression profiling by array

Platform:

GPL6293

27 Samples

Download data: CSV

(Submitter supplied) Oral streptococci metabolize carbohydrate to produce organic acids, which not only decrease the environmental pH, but also increase osmolality of dental plaque fluid due to tooth demineralization and consequent calcium and phosphate accumulation. Despite these unfavorable environmental changes, the bacteria continue to thrive. The aim of this study was to obtain a global view on strategies taken by Streptococcus mutans to deal with physiologically relevant elevated osmolality, and perseveres within a cariogenic dental plaque. more...

Organism:

Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL17184

6 Samples

Download data: PAIR, TXT

(Submitter supplied) Dental caries are closely associated with the virulence of Streptococcus mutans. The virulence expression of S. mutans is linked to its stress adaptation to the changes in the oral environment. In this work we used whole-genome microarrays to profile the dynamic transcriptomic responses of S. mutans during physiological heat stress. In addition, we evaluated the phenotypic changes, including initial biofilm formation, acid production and ATP turnover of S. more...

Organism:

Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL18933

21 Samples

Download data: TXT

(Submitter supplied) The purpose of this study was to determine what genes were differentially expressed in a Streptococcus sanguinis mutant deleted for the SsaACB manganese transporter, which underwent growth arrest upon shifting the pH to 6.2 with HCl vs. its wild-type parent, SK36, which continued to grow normally. The WT and mutant strain, JFP169, were grown in a fermenter with minimal aeration in BHI broth. RNA-seq was used to compare gene expression from samples taken 20 minutes prior to addition of HCl to samples taken 10, 25, and 50 min after addition. more...

Organism:

Streptococcus sanguinis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25823

32 Samples

Download data: CSV