Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription of photosynthetic genes in AAP5 during growth on solid and liquid media

ABSTRACT: Comparison of cells grown for 4 and 8 days on agar plates with cells from liquid cultures after reaching their maximum optical density.

ORGANISM(S): Sphingomonas sp. AAP5

PROVIDER: GSE147049 | GEO | 2020/06/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of Sinorhizobium meliloti strain 1021FDC5 grown in liquid, solid or semi-solid media

Project description:S. meliloti 1021FDC5 was grown at 30ºC in 20 ml of TY broth with shaking to late logarithmic phase (optical density at 600 nm = 1-1.2). After incubation, cells were pelleted, washed twice in MM and resuspended in 2 ml of the latter medium. For time course experiments in liquid, 0.5 ml of the inoculation culture was added to 50 ml of fresh MM. At various times, samples were removed for determining viable cells counts as well as for RNA isolation/preparation (7 and 14 hours). For experiments on plates, 20 ml of MM containing 0.7% (Semisolid) or 1.3% (Solid) agar was dispensed onto each Petri dish and allowed to gel. The plates were air dried at room temperature for 15 min. 0.1 ml of the inoculation culture was plated onto the surface of the plates and allowed to dry for 10 min. The plates were then inverted and incubated at 30ºC.

2009-04-03 | E-MEXP-1953 | biostudies-arrayexpress

Large-scale differences in gene expression, including genes encoding type IV pili-associated proteins, are seen when Clostridium perfringens is grown in liquid or on surfaces

Project description:Clostridium perfringens is a Gram-positive anaerobic pathogen that causes multiple diseases in humans and animals. C. perfringens lack flagella but have type IV pili (TFP) and can glide on agar surfaces by forming filaments of cells aligned end to end. When cells are placed on agar surfaces, they become elongated, flexible and have TFP on their surface. To understand the basis of these phenotypes, cells were grown in three types of liquid media and on agar plates with the same medium to compare gene expression using RNA-seq. Hundreds of genes were differentially expressed, including genes associated with TFP functions, which were higher on plates than in liquid. The gusA gene, encoding the enzyme β-glucuronidase, was inserted into the chromosome downstream of TFP promoters and expression measured in liquid and on plates. β-glucuronidase activity was proportional to the amount of transcripts seen with RNA-seq n liquid-grown cells, but not plate-grown cells, suggesting post-transcriptional regulation of these genes on surfaces. An sRNA adjacent to pilA1 (SR79) was expressed at higher levels on plates in all media; overexpression of this sRNA resulted in longer cells on plates and shorter lag times in liquid suggesting SR79 plays a role in adapting to surface growth.

2018-06-30 | GSE99224 | GEO

Transcriptome analysis of cold-shock response in rich liquid (YEME), supplemented minimal solid (SMM) and supplemented minimal liquid (SMMS) media

Project description:RNA-seq analysis of wild type prototrophic Streptomyces coelicolor A3(2) MT1110 strain to examine global transcriptional profile change when exposed to cold shock from 30°C to 10°C in rich liquid medium, minimal solid medium and in minimal liquid medium

2024-02-22 | GSE225850 | GEO

Transcription of photosynthetic genes in AAP5 during growth on solid and liquid media

Project description:Transcription of photosynthetic genes in AAP5 during growth on solid and liquid media

| PRJNA612850 | ENA

Transcription profiling of N. gonorrhoeae grown on solid media or on liquid media at different growth phases

Project description:A study of the transcriptional profiles of N. gonorrhoeae on solid or in liquid media and at different growth phases

2008-12-10 | E-MEXP-1384 | biostudies-arrayexpress

Transcription profiling of Bacillus subtilis in liquid and on solid media at different stages of culture growth

Project description:A study describing the consistency of transcriptional behaviours of B. subtilis in liquid and on solid media at different stages of culture growth

2008-12-10 | E-MEXP-1380 | biostudies-arrayexpress

solid-support dependent genes, Rhododoccus jostii RHA1 cells were grown on membrane filter placed on W minimal 2%-agar solid medium with vapor of biphenyl

Project description:Transcriptomic analysis of the cells grown on biphenyl on a filter placed on a minimal agar medium and those grown on biphenyl to mid-exponential phase in a liquid medium

2010-06-10 | GSE22239 | GEO

Transcription profiling of E. coli grown in liquid or on solid media, to determine conisistency of transcriptional behaviours

Project description:A study describing the consistency of transcriptional behaviours of E. coli in liquid and on solid media

2009-12-01 | E-MEXP-1379 | biostudies-arrayexpress

The infection cushion: a fungal weapon for plant-biomass destruction

Project description:Full transcriptomes of the Botrytis cinerea wild-type strain B0510, cultured in liquid medium or on cellophane sheets placed on PDB 1/4-agar plates, were compared to identify genes differentially expressed when infection cushions are formed from vegetative mycelium.

2020-12-31 | GSE141822 | GEO

della-regulation of salt stress responses-DELLAs contribute to salt stress responses

Project description:rs06-07_della - della-regulation of salt stress responses - Identification of DELLA-dependent dowtream targets in response to salt stress - Aim was to determine downstream target of DELLA proteins involved in salt stress tolerance. Wt, ga1-3, penta seeds were sterilized, sown on MS agar plates then put for stratification for 3 days at 4degreeC. Plates were placed in growth cabinet for 9 days. Seedlings were transferred to 24 well-plates, with 2 seedlings per well (0.5 ml MS liquid per well). Plates were placed in the same condition for 3 days. Finally, NaCl were added (final concentration 200 mM), except for the control. The salt treatment was applied for 30 min and 1h. Treatment was stopped by freezing in liquid nitrogen. Keywords: dose response,gene knock out,time course

2008-07-01 | GSE8556 | GEO

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