Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 1000

Native metabolomics of E.coli CutA with cell extracts of E.coli and S.elongatus WT and deltaCutA

ABSTRACT: E.coli CutA was flow injected against cell extracts (cell pellets - of exponential growing cultures- have been extracted with 20% or 80% MeOH) of E.coli BW24113 and Synechococcus elongatus sp. PCC 7942 WT or deltacutA

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Escherichia Coli (ncbitaxon:562)

SUBMITTER: Daniel Petras

PROVIDER: MSV000089480 | MassIVE | Mon May 16 05:01:00 BST 2022

REPOSITORIES: MassIVE

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Native metabolomics with CutA (E.coli) and cell extracts

Project description:Native and non-targeted metabolomics with E.coli CutA and cell extracts of E.coli and Synechococcus elongatus PCC 7942. Cell extraction with 20% or 80% MeOH.

2022-08-01 | MSV000090055 | MassIVE

GNPS Native metabolomics of E.coli CutA with cell extracts of E.coli and S.elongatus WT and deltaCutA

Project description:E.coli CutA was flow injected against cell extracts (cell pellets - of exponential growing cultures- have been extracted with 20% or 80% MeOH) of E.coli BW24113 and Synechococcus elongatus sp. PCC 7942 WT or deltacutA

2022-05-16 | MSV000089480 | GNPS

GNPS Native metabolomics with CutA (E.coli) and cell extracts

Project description:Native and non-targeted metabolomics with E.coli CutA and cell extracts of E.coli and Synechococcus elongatus PCC 7942. Cell extraction with 20% or 80% MeOH.

2022-08-01 | MSV000090055 | GNPS

Native metabolomics of CutA with Cell Extracts

Project description:Native metabolomics was performed using CutA proteins of Synechococcus elongatus sp. PCC 7942 or E.coli. Crude cell extract or a mix of co-purified polar compounds were offered as putative binding partners.

2023-08-04 | MSV000092597 | MassIVE

untargeted metabolomics with Synechococcus elongatus PCC 7942 and mutant of a PII like protein

Project description:Untargeted metabolomics with Synechococcus elongatus PCC 7942 and delta cutA::kan deletion strain. Cells were harvested in exponential and stationary phase. Cell pellets were extracted with 20% MeOH, dried, and resuspended in 50% MeOH + DMSO.

2023-07-12 | MSV000092427 | MassIVE

Circadian transcriptional profile of Synechococcus under the kaiA overexpression

Project description:In the unicellular cyanobacterium, Synechococcus elongatus PCC 7942, essentially all promoter activities are under the control of the circadian clock in continuous light (LL) conditions. Here, we employed high-density oligonucleotide arrays to investigate comprehensive profiles of genome-wide Synechococcus gene expression in kaiA-overexpressor (Ptrc::[GTG]kaiA) strains under LL. KaiC has been proposed to globally activate gene expression, our analysis revealed that dawn expressing genes were downregulated by kaiA-overexpression, such that the clock was arrested at subjective dawn. IPTG-inducible kaiA-overexpressor (oxA) S. elongatus PCC 7942 strains were analyzed under continuous light (LL) using Affymetrix high-density oligonucleotide microarrays (GeneChip CustomExpress Arrays) representing predicted 2,515 protein-coding genes on the genome of Synechococcus elongatus PCC 6301, which can be used also to the almost homologous strain, S. elongatus PCC 7942: a single experiment in oxA under LL in the presence or absence of an inducer, IPTG, from hour 24 to 48 in LL timecourse data (24~48 hours under continuous light) from Synechococcus elongatus PCC 7942 (inducible kaiA-overexpressor) strains

2013-12-31 | E-GEOD-47015 | biostudies-arrayexpress

A high resolution map of a cyanobacterial transcriptome

Project description:Previous molecular and mechanistic studies have identified several principles of prokaryotic transcription, but less is known about the global transcriptional architecture of bacterial genomes. Here we perform a comprehensive study of a cyanobacterial transcriptome, that of Synechococcus elongatus PCC 7942, generated by combining three high-resolution data sets: RNA sequencing, tiling expression microarrays, and RNA polymerase chromatin immunoprecipitation (ChIP) sequencing. We report absolute transcript levels, operon identification, and high-resolution mapping of 5' and 3' ends of transcripts. We identify several interesting features at promoters, within transcripts and in terminators relating to transcription initiation, elongation, and termination. Furthermore, we identify many putative non-coding transcripts. We provide a global analysis of a cyanobacterial transcriptome. Our results uncover insights that reinforce and extend the current views of bacterial transcription. RNA Sequencing of the cyanobacterium Synechococcus elongatus PCC 7942 RNA polymerase ChIP Sequencing of the cyanobacterium Synechococcus elongatus PCC 7942 Tiling Microarray of the cyanobacterium Synechococcus elongatus PCC 7942

2011-05-16 | E-GEOD-29264 | biostudies-arrayexpress

Nocturnal expression data of Synechococcus in WT and kaiABC-null strains

Project description:In the unicellular cyanobacterium, Synechococcus elongatus PCC 7942, most of genes are downregulated in the dark, while 10% of genes are upregulated. Here, we employed high-density oligonucleotide arrays to explore comprehensive profiles of genome-wide Synechococcus gene expression in wild type and kaiABC-null strains under continuous dark (DD) conditions. We found that expression profile of a subset of genes on the genome in DD was dramatically affected by kaiABC-nullification, and the magnitude of dark-induction was dependent on time when cells were transferred from light to DD Keywords: timecourse data (0-12 h) under continuous darkness after dark:light cycles from Synechococcus elongatus PCC 7942 wild type and kaiABC-null strains Wild type (WT) and kaiABC-null (DkaiABC) S. elongatus PCC 7942 strains were analyzed under continuous dark (DD) conditions after two 12h:12h light:dark (LD) cycles using Affymetrix high-density oligonucleotide microarrays (GeneChip CustomExpress Arrays) representing predicted 2,515 protein-coding genes on the genome of Synechococcus elongatus PCC 6301, which can be used also to the almost homologous strain, S. elongatus PCC 7942: Two independent experiments in WT and Dkai strains under DD (hours 0, 0.5, 1, 2, 4, 8 and 12).

2011-09-29 | E-GEOD-22468 | biostudies-arrayexpress

Circadian transcriptional profile of Synechococcus without KaiC phosphorylation cycling

Project description:In the unicellular cyanobacterium, Synechococcus elongatus PCC 7942, essentially all promoter activities are under the control of the circadian clock in continuous light (LL) conditions. Here, we employed high-density oligonucleotide arrays to investigate comprehensive profiles of genome-wide Synechococcus gene expression in the kaiCEE mutant strains in which the KaiC phosphorylation cycling is abolished under LL.. In the kaiCEE mutant strain more than 23% of transcripts significantly oscillated with a period of about 48 h. 409 cyclic genes were shared with the wild type strains. kaiCEE mutant strain was analyzed under continuous light (LL) using Affymetrix high-density oligonucleotide microarrays (GeneChip CustomExpress Arrays) representing predicted 2,515 protein-coding genes on the genome of Synechococcus elongatus PCC 6301, which can be used also to the almost homologous strain, S. elongatus PCC 7942: a single experiment in kaiCEE mutant under LL from hour 8 to 96 in LL timecourse data (8~96 hours under continuous light) from Synechococcus elongatus PCC 7942 (kaiCEE mutant) strains

2013-11-28 | E-GEOD-48901 | biostudies-arrayexpress

Circadian expression data of Synechococcus in WT, rpoD6-null, sasA-null and rpaA-null strains

Project description:In the unicellular cyanobacterium, Synechococcus elongatus PCC 7942, most genes show rhythmic expression controlled by the Kai-based clock under continuous light conditions (LL). We found that rpoD6-null mutants impaired expression of clock-controlled genes peaking at hours 8-10 in LL, while sasA-null or rpaA-null mutants each arrested the expression profiles at subjective dawn. Time-course data (0-24 h) of wild type (WT), rpoD6-null, sasA-null and rpaA-null S. elongatus PCC 7942 strains analyzed under continuous light (LL) conditions after two 12h:12h light:dark (LD) cycles using Affymetrix high-density oligonucleotide microarrays (GeneChip CustomExpress Arrays) representing 2,515 predicted protein-coding genes on the genome of Synechococcus elongatus PCC 6301, which can be used also for the almost homologous strain, S. elongatus PCC 7942.

2012-03-01 | E-GEOD-28430 | biostudies-arrayexpress

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