Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of Ralstonia eutropha H16 with regard to PHA metabolism

ABSTRACT: Detection of genes that are differentially expressed during PHB metabolism.

ORGANISM(S): Ralstonia eutropha H16

SUBMITTER: Katja Peplinski

PROVIDER: E-MEXP-2440 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Genome-wide transcriptome analyses of the 'Knallgas' bacterium Ralstonia eutropha H16 with regard to polyhydroxyalkanoate metabolism.

Peplinski Katja K Ehrenreich Armin A Döring Christina C Bömeke Mechthild M Reinecke Frank F Hutmacher Carmen C Steinbüchel Alexander A

Microbiology (Reading, England) 20100415 Pt 7

Ralstonia eutropha H16 is probably the best-studied 'Knallgas' bacterium and producer of poly(3-hydroxybutyrate) (PHB). Genome-wide transcriptome analyses were employed to detect genes that are differentially transcribed during PHB biosynthesis. For this purpose, four transcriptomes from different growth phases of the wild-type H16 and of the two PHB-negative mutants PHB(-)4 and Delta phaC1 were compared: (i) cells from the exponential growth phase with cells that were in transition to stationar ...[more]

PMID: 20395272

Similar Datasets

Transcription profiling by array of Ralsonia eutropha H16 wild type and glucose-utilizing mutant G+1 cultivated in medium with fructose or glucose

Project description:In order to identify genes which contribute on the uptake of glucose into cells of the mutant R. eutropha G+1, a genome wide transcription analyses was done. Transcripts of strain H16 and the glucose-utilizing mutant R. eutropha G+1, cultivated in mineral salts medium supplemented with either fructose or glucose were compared.

2011-04-01 | E-MEXP-2662 | biostudies-arrayexpress

Transcription profiling by array of Ralstonia eutropha H16 grown with organic sulfur compounds TDP and DTDP

Project description:Catabolism of the organic sulfur compounds TDP and DTDP in Ralstonia eutropha and the accumulation of the copolymer poly(3HB-co-3MP)

2011-05-31 | E-MEXP-2744 | biostudies-arrayexpress

Fur in Clostridium acetobutylicum

Project description:Clostridium acetobutylicum is a Gram-positive, endospore-forming bacterium that is considered as a strict anaerobe. It ferments sugars to the organic acids acetate and butyrate or shifts to formation of the solvents - ethanol, butanol and acetone. In most bacteria the major regulator of iron homeostasis is Fur (ferric uptake regulator). Analysis of the genome of Clostridium acetobutylicum has revealed three genes encoding Fur-like proteins. The amino acid sequece of one of them showed 70% similarity to the Fur protein of the closely related Bacillus subtilis. Thus, to gain insight into the role of Fur and the mechanisms for maintenance of iron homeostasis in this strict anaerobic organism, we determined its transcriptional profile in response to iron limitation and inactivation of fur.

2012-03-30 | E-MEXP-3401 | biostudies-arrayexpress

Transcription profiling of continuous cultures of Clostridium acetobutylicum during the metabolic switch from acidogenesis to solventogenesis

Project description:effect of pH on continuous cultures of Clostridium acetobutylicum

2010-09-30 | E-MEXP-2314 | biostudies-arrayexpress

A transcriptional study of acidogenic chemostat cells of Clostridium acetobutylicum - cellular behavior in adaptation to n-butanol

Project description:Clostridium acetobutylicum is well-known for its butanol production. Butanol toxicity is a major drawback for the generation of high-butanol producing strains. Here, the transcriptional response a steady state, acidogenic (pH 6), phosphate-limited Clostridium acetobutylicum chemostat culture to different levels of n-butanol (0.25-1%) was investigated. For the butanol challenge experiments butanol (1-butanol) was added (a) to the supplying medium and (b) to the culture vessel to guarantee an immediate change in the butanol concentration. Addition of butanol to the culture was timed to match the supply of the new medium through the feedlines. The butanol concentration was increased stepwise in intervals of 66.6 h (5 volume changes) to moderate butanol concentrations of 0.25%, 0.5%, 0.75% and 1% (v/v).

2012-01-30 | E-MEXP-3571 | biostudies-arrayexpress

Transcription profiling by array of Clostridium acetobutylicum on glucose and xylose substrates under exponential, continuous and diauxie growth.

Project description:Clostridium acetobutylicum was grown in a batch-culture with minimal medium containing glucose and xylose as substrate. Diauxie growth was observed after glucose was consumed. Following the organism grows on xylose. Transcriptional analysis was done to pursue the cellular processes during the switch from growth on glucose to growth on xylose. We compared DNA-Microarray data from cells grown during the exponential phase on glucose (A), with cells growing during the start of diauxie growth lag (B), during the end of diauxie growth lag (C) and during exponential growth on xylose (D). We used cells grown in a continuous culture with glucose as substrate as common reference for the samples A-D.

2010-09-30 | E-MEXP-2613 | biostudies-arrayexpress

Transcription profiling of Clostridium acetobutylicum during acidogenesis and solventogenesis

Project description:Clostridium acetobutylicum is characterized by its acetone-butanol (AB) fermentation which can be reproducibly established under continuous grow conditions in a chemostat. At pH 5.7 cells show typical acidogenic metabolism and mainly produce the acids acetate and butyrate. After lowering and further control the external pH at 4.5 the exponentially growing cells switch towards stable solvent production with the dominating fermentation products acetone and butanol. Here we present a comprehensive comparison of proteome and transcriptome data of continuously growing cells of C. acetobutylicum in a chemostat culture under phosphate limitation at pH 5.7 (acidogenesis) and pH 4.5 (solventogenesis).

2010-11-10 | E-MEXP-2503 | biostudies-arrayexpress

A transcriptional study of acidogenic chemostat cells of Clostridium acetobutylicum following a single n-butanol pulse

Project description:In this study the transcriptional behavior of the natural solvent producing bacterium Clostridium acetobutylicum was investigated following n-butanol stress using DNA microarray analysis. Therefore, a phosphate-limited chemostat culture was established and n-butanol stress (0.9%) was added to acidogenic cells at pH 5.7.

2012-04-30 | E-MEXP-3264 | biostudies-arrayexpress

A transcriptional study of acidogenic chemostat cells of Clostridium acetobutylicum following a single n-butanol pulse_Exp2

Project description:In this study the transcriptional behavior of the natural solvent producing bacterium Clostridium acetobutylicum was investigated following n butanol stress using DNA microarray analysis. Therefore, a phosphate-limited chemostat culture was established and n-butanol stress (0.9%) was added to acidogenic cells at pH 5.7.

2012-04-30 | E-MEXP-3265 | biostudies-arrayexpress

Global transcriptional changes of Clostridium acetobutylicum cultures with increased butanol-acetone ratios

Project description:Artificial electron carriers have been widely used to shift the solvent ratio towards butanol in acetone-butanol-ethanol (ABE) fermentation of solventogenic clostridia according to decreased hydrogen production. In this study, first insights on the molecular level were gained to explore the effect of methyl viologen addition to cultures of Clostridium acetobutylicum. Employing batch fermentation in mineral salts medium, the butanol:acetone ratio was successively increased from 2.3 to 12.4 on a 100 ml scale in serum bottles and from 1.4 to 16.5 on a 1,300 ml scale in bioreactors, respectively. The latter cultures were used for DNA microarray analyses to provide new information on the transcriptional changes referring to methyl viologen exposure and thus, exhibing gene expression patterns according to the manipulation of the cellular redox balance.

2012-03-31 | E-MEXP-3417 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data