GEO DataSets

(Submitter supplied) The transport of carbohydrates by Streptococcus mutans is accomplished by the phosphoenolpyruvate-phosphotrasferase system (PTS) and ATP-binding cassette (ABC) transporters. To undertake a global transcriptional analysis of all S. mutans sugar transporters simultaneously, we used a whole-genome expression microarray. Global transcription profiles of S. mutans UA159 were determined for several carbohydrates. more...

Organism:

Streptococcus mutans; Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL4769

48 Samples

Download data: CEL, EXP

(Submitter supplied) L. acidophilus cells, transferred at least five times in modified MRS medium (Barrangou et al, 2003) containing the carbohydrate of interest, were grown to an OD600 of 0.6, harvested and processed for microarray experiments (Azcarate-Peril et al, 2005). Keywords: other

Organism:

Lactobacillus acidophilus

Type:

Expression profiling by array

Platform:

GPL1401

28 Samples

Download data

(Submitter supplied) Investigation of whole genome gene expression levels in Clostridium acetobutylicum strain 824 grown individually on starch, galactose, lactose, mannose, fructose, glucose, arabinose, xylose, cellobiose, maltose, sucrose

Organism:

Clostridium acetobutylicum ATCC 824

Type:

Expression profiling by array

Platform:

GPL9387

33 Samples

Download data: PAIR

(Submitter supplied) In this study we showed that one PTS of S. mutans is specific for biofilm mode of growth in the presence of sucrose. Our data indicates that this PTS is involved in transport and metabolism of disaccharides and possibly oligosaccharides synthesized by GtfI and GtfSI.

Organism:

Streptococcus mutans UA159; Streptococcus mutans

Type:

Expression profiling by array

Platform:

GPL4769

22 Samples

Download data: CEL

(Submitter supplied) The phosphoenolpyruvate:sugar phosphotransferase system (PTS) is the major carbohydrate transport system in oral streptococci. The mannose-PTS of Streptococcus mutans, which transports mannose and glucose, is involved in carbon catabolite repression (CCR) and regulates the expression of known virulence genes. In this study, we investigated the role of EIIGlc and EIIABMan in sugar metabolism, gene regulation, biofilm formation, and competence. more...

Organism:

Streptococcus mutans

Type:

Expression profiling by array

Platform:

GPL4340

12 Samples

Download data: MEV

(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) 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) Identification of the major PEP-phosphotransferase systems (PTS) for glucose, mannose and cellobiose of Listeria monocytogenes, and their significance for extra- and intracellular growth. Transcriptional profile of prfA, the dependent genes and the PTS genes after growth in MM (minimal medium (Premaratne et al. 2001)) (supplemented with 10 mM Glucose). Listeria monocytogenes EGD-e possesses 86 pts genes encoding 29 complete and several incomplete PEP-dependent phosphotransferase systems (PTS) for the transport of carbohydrates and sugar alcohols. more...

Organism:

Listeria monocytogenes EGD-e; Listeria monocytogenes

Type:

Expression profiling by array

Platform:

GPL6554

24 Samples

Download data: TXT

(Submitter supplied) The global transcriptome of the wild type Lactobacillus acidophilus NCFM strain (NCK56) was measured during exponential growth on 11 prebiotic carbohydrates and glucose to identify the specific gene cluster differentially upregulated in response to each carbohydrate.

Organism:

Lactobacillus acidophilus NCFM

Type:

Expression profiling by array

Platform:

GPL7374

12 Samples

Download data: TXT

(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) For Streptococcus mutans, the major etiologic agent of human dental caries, sucrose is the carbohydrate that contributes in the most significant manner to establishment, persistence and virulence of the organism. However, because this organism produces multiple extracellular sucrolytic enzymes that can release hexoses from sucrose, it has not been possible to study the specific effects of sucrose transport and metabolism on gene expression in the absence of carbohydrates that by themselves can elicit catabolite repression and induce expression of multiple genes. more...

Organism:

Streptococcus mutans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21130

12 Samples

Download data: XLSX

(Submitter supplied) Transcriptional profiling to investigate the response of Streptococcus mutans biofilms to starch and sucrose at distinct stages of biofilm development.

Organism:

Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL8255

48 Samples

Download data: MEV

(Submitter supplied) Alkaline hemicellulytic bacteria Bacillus sp. N16-5 has abroad substrate spectrum and exhibits great growth ability on complex carbohydrates. In order to get insight into its carbohydrate utilization mechanism, global transcriptional profiles were separately determined for growth on glucose, fructose, mannose, galactose, arabinose, xylose, galactomannan, xylan, pectin and carboxymethyl cellulose by using one-color microarrays.

Organism:

Bacillus sp. N16-5

Type:

Expression profiling by array

Platform:

GPL15620

30 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caldicellulosiruptor saccharolyticus

Type:

Expression profiling by array

Platform:

GPL6681

15 Samples

Download data: TXT

(Submitter supplied) The co-utilization of hexoses and pentoses derived from lignocellulose is an attractive trait for in microorganisms considered for consolidated biomass processing to biofuels. This issue was examined for the H2-producing, extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus growing on oligosaccharides (composed of glucose and xylose) compared to monosaccharides. Based on the whole-genome transcriptional response analysis and comparative genomics, carbohydrate specificities for transport systems could be proposed for a number of the 24 putative carbohydrate ATP-binding cassette (ABC) transporters in the C. more...

Organism:

Caldicellulosiruptor saccharolyticus

Type:

Expression profiling by array

Platform:

GPL6681

5 Samples

Download data: TXT

(Submitter supplied) The co-utilization of hexoses and pentoses derived from lignocellulose is an attractive trait for in microorganisms considered for consolidated biomass processing to biofuels. This issue was examined for the H2-producing, extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus (Csac) growing on individual monosaccharides (arabinose, fructose, galactose, glucose, mannose and xylose), mixtures of these sugars. more...

Organism:

Caldicellulosiruptor saccharolyticus

Type:

Expression profiling by array

Platform:

GPL6681

10 Samples

Download data: TXT

(Submitter supplied) The genetic and phenotypic responses of Streptococcus mutans, an organism known to be strongly associated with the development of dental caries, to changes in carbohydrate availability were investigated. S. mutans UA159 or a derivative of UA159 lacking ManL, which is the EIIAB component (EIIABMan) of a glucose/mannose permease of the phosphoenolpyruvate:sugar phosphotransferase system (PTS) and a dominant effector of catabolite repression, were grown in continuous culture to steady-state in conditions of excess (100 mM) or limiting (10 mM) glucose. more...

Organism:

Streptococcus mutans; Streptococcus mutans UA159

Type:

Expression profiling by array

Platform:

GPL15711

6 Samples

Download data: MEV

(Submitter supplied) Roseburia inulinivorans is a recently identified motile representative of the Firmicutes that contributes to butyrate formation from a variety of dietary polysaccharide substrates in the human large intestine. Microarray analysis was used here to investigate substrate-driven gene expression changes in R. inulinivorans A2-194. A cluster of fructo-oligosaccharide (FOS)/inulin utilisation genes induced during growth on inulin included one encoding a b-fructofuranosidase protein that was prominent in the proteome of inulin-grown cells. more...

Organism:

Roseburia inulinivorans; Roseburia inulinivorans DSM 16841

Type:

Expression profiling by array

Platform:

GPL10020

4 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of Haloferax mediterranei DF50 and ΔdeoR2 with induction by fructose comparing with the strains without this induction. Goal was to explore the effect of induction by fructose on Haloferax mediterranei.

Organism:

Haloferax mediterranei

Type:

Expression profiling by array

Platform:

GPL16102

6 Samples

Download data: TXT

(Submitter supplied) In this study, we show that ManR (VC1825) activates the transcription of the mannose operon in M9 medium supplemented with fructose or mannose, and when manR is impaired Vibrio cholerae cells fail to colonize the intestine and host survival is significantly prolonged in a fruit fly Drosophila melanogaster infection model. To identify other target genes of ManR, transcriptome analysis was performed in wild-type V. more...

Organism:

Vibrio cholerae O1 biovar El Tor str. N16961

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31160

8 Samples

Download data: XLSX