Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

GNPS Non-targeted metabolomics with extracts of 20 cyanobacterial strains - contribution to microbeMASST

ABSTRACT: 20 different cyanobacterial strains were cultivated in shaking flasks and harvested by centrifugation. The supernatants were extracted via solid phase extraction (SPE), the cell pellets with 80% MeOH.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Cyanobacteria

SUBMITTER: Daniel Petras

PROVIDER: MSV000089884 | GNPS | Thu Jul 14 04:20:00 BST 2022

REPOSITORIES: GNPS

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Non-targeted metabolomics with extracts of 20 cyanobacterial strains

Project description:20 different cyanobacterial strains were cultivated in shaking flasks and harvested by centrifugation. The supernatants were extracted via solid phase extraction (SPE), the cell pellets with 80% MeOH.

2022-07-14 | MSV000089884 | MassIVE

Cyanobacterial

Project description:Metatranscriptome of cyanobacterial aggregates

| PRJNA359157 | ENA

Halobacterium NRC-1, EMS Stress Response

Project description:100mM EMS was added to mid-log phase Halobacterium NRC-1 cultures. After constant stress of EMS for 30 minutes, cultures were spun down and pellets were re-suspended in same volume of GN101 media. Cultures were then harvested by centrifugation and pellets were snap frozen on a dry-ice ethanol bath. Samples for RNA preparation were collected during recovery time points at 0, 10, 20, 30, 40, 60 and 120 minutes. Keywords: stress response, dose response

2008-01-03 | GSE7609 | GEO

Cyanobacterial bloom

Project description:Cyanobacterial bloom Other

| PRJNA657047 | ENA

Microarray of Ruminiclostridium cellulolyticum parental strain and mutants grown on cellulose

Project description:R. cellulolyticum strains (the parent strain, ΔccpA, ΔccpB and Δcph) were cultivated in defined VM medium with cellulose (10 g/L).Since ΔccpA and Δcph could not grow on cellulose, we performed an incubation experiment to understand how ΔccpA and Δcph respond to cellulose. Specifically, the parent strain, ΔccpA and Δcph were grown to an OD600 of 0.5-0.6 in 50 ml defined VM media with cellobiose as the carbon source. Each strain had three biological replicates. Bacterial cells from each biological replicate were then collected by centrifugation at 4000 g and washed twice with the defined VM medium (no carbon added). Finally, washed cells from each biological replicate were inoculated into the defined VM medium with 10 g/L cellulose. During shaking incubation at 34°C, samples were collected at five time points (0,1, 3, 6, 12 hours). After centrifugation at 4°C, 5000×g for 10 min, cell pellets were immediately flash frozen with liquid nitrogen and then stored at -80°C for further use. For ΔccpB, ΔccpB and the parent strain were cultivated with six biological replicates and collected at mid-exponential growth phase.

2022-06-19 | E-MTAB-11774 | biostudies-arrayexpress

Serum-free media supplements carry miRNAs that co-purify with extracellular vesicles (EVs)

Project description:With the goal to identify miRNAs and other small RNAs involved in EV-mediated oligodendrocyte-neuron communication, we performed deep sequencing (RNA-seq) of small RNAs derived from EVs isolated from culture supernatants of primary mouse oligodendrocytes by differential centrifugation. Oligodendrocytes were cultured and EVs harvested under serum-free conditions in presence of B27 supplement. We found that RNA isolated from EVs harvested from cells under serum-replacement conditions contains miRNA contaminants carried into the sample by defined media components.

2019-08-15 | GSE134096 | GEO

SINV-nsP3 mScarelt-tagged immunoprecipitation

Project description:1x107 cells HEK293 FLP-IN T-REX cells were infected with SINVnsP3-mScarlet (bait) or SINVwt (negative control) at 1 MOI. After 18 hours, cells were scrapped and spin down at 300 g 4°C for 10 mins. After the centrifugation, supernatants were discarded and cell pellet washed once with 1X PBS, followed by another centrifugation at 300xg 4°C for 10min. After discarding the supernatant, cell pellets were lysed with 200µL ice-cold lysis buffer (10mM Tris-Cl pH 7.5, 150mM NaCl, 0.5mM EDTA, 0.5% IGEPAL, benzonase(1U/mL) and 0.1mM AEBSF serine protease inhibitor) , and incubated on ice for 30min. Then, cell lysates were cleared by centrifugation 17,000xg for 10min at 4°C. The supernatants were transferred to new tubes and diluted 1:1 with the dilution buffer (10mM Tris-Cl pH 7.5 150mM NaCl 0.5mM EDTA 0.05% IGEPAL). Next, cell lysates were incubated with 15µL of RFP-Trap® Magnetic Particles M-270 (pre-washed once with the dilution buffer) for 1 hour at 4 °C with mild rotation. After the incubation, the magnetic beads were washed five times with wash buffer1 (10mM Tris/Cl pH 7.5, 150mM NaCl, 0.5mM EDTA and 0.25% IGEPAL), followed by two washes with the dilution buffer. The proteins elution from the beads was done twice at room temperature with shaking, the first elution with 45µL 0.2M glycine pH 2 solution and the second elution with 45µL 0.2M glycine pH 2 (supplemented with 1%SDS) solution. Finally combined protein eluates were neutralized with 10µL 1M Tris-base pH 10. For proteomic analysis three biological replicates were generated.

2024-12-19 | PXD054117 | Pride

Cyanobacterial Aggregates

Project description:Cyanobacterial Aggregates 16S rRNA Sequence

| PRJNA429935 | ENA

Cyanobacterial Aggregate

Project description:Cyanobacterial Aggregate Metagenome Raw Sequence

| PRJNA664872 | ENA

Cyanobacterial biofilms

Project description:Cyanobacterial biofilm Raw sequence reads

| PRJNA975129 | ENA