Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutants D. shibae Dshi_1135::Tn, D. shibae ppaA::Tn and D. shibae ppsR::Tn

ABSTRACT: Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutants D. shibae Dshi_1135::Tn, D. shibae ppaA::Tn and D. shibae ppsR::Tn

PROVIDER: PRJNA1022088 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutants D. shibae Dshi_1135::Tn, D. shibae ppaA::Tn and D. shibae ppsR::Tn

Project description:Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutants D. shibae Dshi_1135::Tn, D. shibae ppaA::Tn and D. shibae ppsR::Tn. Dinoroseobacter shibae DFL12T (DSM 16493T) and the transposonmutants D. shibae Dshi_1135::Tn, D. shibae ppaA::Tn and D. shibae ppsR::Tn were grown in artificial saltwater minimal medium (SWM) in baffled flasks shaking at 180 rpm and 30 °C and incubation was performed under light, dark and bluelight conditions. D. shibae wild type and mutant strain were grown under aerobic conditions up to the mid exponential growth phase (OD578 nM 0.5).

2023-10-01 | GSE244289 | GEO

Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutant D. shibae clpX::Tn

Project description:Transcriptomes of Dinoroseobacter shibae DSM16493 wild type and clpX knockout mutant were recorded under white and blue light and in dark.

2023-05-10 | GSE219285 | GEO

Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutant D. shibae clpX::Tn

Project description:Light dependent gene expression in D. shibae wildtype compared to the gene expression in the transposonmutant D. shibae clpX::Tn

| PRJNA907851 | ENA

Transcriptome of Dinoroseobacter shibae under changeing light regimes

Project description:D. shibae was cultivated under changing light regimes and samples for transcriptome and metabolome were taken.

2014-07-01 | GSE57164 | GEO

Effect of changing light regimes on Dinoroseobacter shibae DFL12 growth

Project description:This SuperSeries is composed of the following subset Series: GSE25579: Time series analysis of the transition from dark to light growth of Dinoroseobacter shibae DFL12 GSE25581: Time series analysis of the transition from light to dark growth of Dinoroseobacter shibae DFL12 Refer to individual Series

2010-12-03 | E-GEOD-25591 | biostudies-arrayexpress

Transcriptome of Dinoroseobacter shibae under changeing light regimes

Project description:D. shibae was cultivated under changing light regimes and samples for transcriptome and metabolome were taken. Two independent cultivations in a Chemostat have been performed. Each reactor was run for 3 light/dark-cycles of 12h/12h. Sampling started from the second cycle and continued to the third cycle.

2014-07-01 | E-GEOD-57164 | biostudies-arrayexpress

D. shibae luxI1

Project description:This SuperSeries is composed of the following subset Series: GSE42010: Comparative analysis of D. shibae wild-type vs. delta-luxI1 supplemented with different acetylated homoserine-lactones GSE42011: Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1 GSE42012: Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1 overexpressing luxI1 in trans Refer to individual Series

2012-11-03 | E-GEOD-42013 | biostudies-arrayexpress

Dinoroseobacter shibae

Project description:Dinoroseobacter shibae overview

| PRJNA35939 | ENA

Light-dark changes in the transcriptome of Dinoroseobacter shibae in co-culture with the dinoflagellate Prorocentrum minimum

Project description:Comparison of the transcriptome of D. shibae 5 h in the light versus 5 h in the dark after 12 days in co-culture with the dinoflagellate P. minimum.

2014-02-01 | GSE53846 | GEO

EXoO-Tn: Tag-n-Map the Tn Antigen in the Human Proteome

Project description:Tn antigen (Tn), a single N-acetylgalactosamine (GalNAc) monosaccharide attached to protein Ser and Thr residues, is found on most solid tumors yet rarely detected in adult tissues: featuring it one of the most distinctive signatures of cancers. Although it is prevalent in cancers, Tn-glycosylation sites are not entirely clear owing to the lack of suitable technology. Knowing the Tn-glycosylation sites will spur the development of the new vaccines, diagnostics, and therapeutics of cancers. Here, we report a novel technology named EXoO-Tn for large-scale mapping of Tn-glycosylation sites. EXoO-Tn utilizes glycosyltransferase C1GalT1 and isotopically-labeled UDP-Gal(13C6) to tag and convert Tn to Gal(13C6)-Tn. This exquisite Gal(13C6)-Tn structure is recognized by a human-gut-bacterial enzyme, called OpeRATOR, that specifically cleaves N-termini of the Gal(13C6)-Tn-occupied Ser and Thr residues to yield site-containing glycopeptides. The enzymes C1GalT1 and OpeRATOR could be used concurrently in one-pot. The effectiveness of EXoO-Tn was evaluated by analyzing Jurkat cells, where 947 Tn-glycosylation sites from 480 glycoproteins were mapped. Bioinformatic analysis of the identified site-specific Tn-glycoproteins revealed conserved motif, cellular localization, relative position in proteins, and mapped site-specific Tn-glycoproteome in different studies. Given the significance of Tn in cancers, EXoO-Tn is anticipated to have broad utilities in clinical study of cancers.

2022-02-15 | PXD014390 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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