Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

GNPS_GC-MS preliminary data_Trachymyrmex septentrionalis fungus garden

ABSTRACT: Preliminary data of volatiles from T. septentrionalis fungus gardens. Samples were obtained directly from their chambers maintained under laboratory. The samples correspond to an entire and healthy fungus garden and subcolonies of fungus garden inoculated with Trichoderma sp. A polydimethylsiloxane (PDMS) piece of approximately 1x2 cm was placed inside a fungus garden. Exposure of the SE was allowed for 3 h. Each sample was individually transferred to a clean 2 mL borosilicate vial using clean tweezers and capped with a crimp camp with silicone septum. The GC-MS analysis was carried out using the Agilent 7200 GC/QTOF equipped with robotic sampler system. The PDMS within each vial was heated for 20 minutes at 200 oC to desorb volatiles from the PDMS and 0.5 mL of headspace injected (injector temperature set at 250 oC) into the instrument with a headspace syringe heated to 145 oC. The GC parameters were set as it follows: starting temperature 45 oC; 50 oC/min oven ramp to 100 oC (hold of 0.1 min), 15 oC/min oven ramp to 300 oC (hold of 0.1 min), and 50 oC/min oven ramp to 320 oC to purge the column. The separation was conducted on HP-5MS column (30 m x 0.25mm x 0.25 um). The helium carrier gas was set to constant 1.2 mL/min flow and a splitless injection mode was applied. The scanned m/z range was 35-400 Th with the acquisition rate of 10 spectra/s.

INSTRUMENT(S): Agilent 7200 Accurate-Mass Q-TOF GC/MS

ORGANISM(S): Trichoderma Sp. Jks1884 Trachymyrmex Septentrionalis (ncbitaxon:34720)

SUBMITTER: Jonathan Klassen Marcy Balunas Pieter Dorrestein

PROVIDER: MSV000084401 | GNPS | Tue Oct 01 15:17:00 BST 2019

REPOSITORIES: GNPS

ACCESS DATA

Json Xml

Similar Datasets

GC/MS_Cotton_skin_Corona_UGent

Project description:All samples were collected on cotton then placed into 2 mL borosilicate vials. The GC MS analysis was carried out using the Agilent 7200 GC QTOF Agilent Technologies Santa Clara CA. equipped with a robotic sampler system. The separation was conducted on an HP 5MS column (30 m x 0.25 mm x 0.25 micro m). The patch within the vial was heated for 25 min. at 200 C to desorb volatiles from the patch and 0.5 mL of headspace injected (injector temperature set at 250 C) into the instrument with a headspace syringe heated to 145 C. The GC protocol analysis included starting temperature 45 C min oven ramp (hold of 2 min), 15 C per min oven ramp to 300 C (hold of 3 min), and 50 C per min oven ramp to 320 C purge the column. The helium carrier gas was set to constant 1.2 mL per min flow and a spitless injection mode was applied. The purge flow to split vent rate was 50 ml per min at 1 min. The scanned m z range was 35-400 with the acquisition rate of 10 spectra per s. The empty vial blanks were interspersed with the samples to assess the background signal.

2022-06-22 | MSV000089708 | MassIVE

GNPS_GC_bacteria_fungus_interaction

Project description:Volatiles from had space of the cultures of fungus, bacteria and interacting bacteria and fungus. The volatiles are collected from headspace with Polydimethylsiloxane/Divinylbenzene (PDMS/DVB) df 65 um SPME.

2019-01-03 | MSV000083294 | GNPS

Project description:Fungus garden metatranscriptomes

| PRJNA565936 | ENA

GNPS_GC_skin_sampling_methodology_testing_AAA_AM_MP_samples_all

Project description:GC data for three volunteers. The skin across several body sites was sampled with PDMS patch overnight. The volatiles were desorbed in vial at 200 C.

2018-11-12 | MSV000083131 | GNPS

GNPS_GC_ICL_breath_cancer_Study_2

Project description:The exhaled breath and blank TD tubes samples were analysed using TD-GC-MS. The TD tubes were desorbed using a Markes TD-100 thermal desorption unit (Markes International Ltd, Llantrisant, UK) using a two stage desorption programme, applying a constant flow of helium at 50 ml/min. In the primary desorption stage, TD tubes were dry-purged for 3 min and heated at 280C for 10 min. In the secondary desorption stage, the cold trap (U-T12ME-2S, Markes International Ltd, Llantrisant, UK) was rapidly (99 C/min) heated to from 10C to 290C. VOCs were transferred from the TD unit to the GC by means of a capillary line heated at 140C. GC-MS analysis was performed using an Agilent 7890B GC with 5977A MSD (Agilent Technologies Ltd, Santa Clara, USA) equipped with a ZB-642 capillary column (60m x 0.25mm ID x 1.40 um df; Phenomenex Inc, Torrance, USA) with helium used as the carrier gas (1.0 ml/min flow rate). The GC column temperature programme was set as follows: 4 min at 40C, ramp to 100C at 5C/min with a 1 min hold, ramp to 110C at 5C/min with a 1 min hold, ramp to 200C at 5C/min with a 1 min hold and finally ramp to 240C at 10C/min with a 4 min hold. The MS transfer line temperature was 240C and EI source conditions were 70 eV at 230C. Mass acquisition was carried out in the range 20-250 m/z with a rate of approximately 6 scans/s-1.

| MSV000084380 | GNPS

GNPS_GC_ICL_breath_cancer_Study_1

| MSV000084379 | GNPS

Bacteria

Project description:Fungus garden bacteria genomes

| PRJNA564151 | ENA

ant fungus garden metagenome

Project description:Atta cephalotes Fungus Garden Metagenome

| PRJNA62039 | ENA

ant fungus garden metagenome

Project description:Atta colombica Fungus Garden Metagenome

| PRJNA39805 | ENA

Passing the anaerobic threshold is associated with substantial changes in the gene expression profile in white blood cells

Project description:High and moderate intensity endurance exercise alters gene expression in human white blood cells (WBCs), but the understanding of how this effect occurs is limited. To increase our knowledge of the nature of this process, we investigated the effects of passing the anaerobic threshold (AnT) on the gene expression profile in WBCs of athletes. Nineteen highly trained skiers participated in a treadmill test with an incremental step protocol until exhaustion (ramp test to exhaustion; RTE). The average total time to exhaustion was 14:40 min and time after AnT was 4:50 min. Two weeks later, seven of these skiers participated in a moderate treadmill test (MT) at 80% peak O2 uptake for 30 min, which was slightly below their AnTs. Blood samples were obtained before and immediately after both tests. RTE was associated with substantially greater leukocytosis and acidosis than MT. Gene expression in WBCs was measured using whole genome microarray expression analysis before and immediately after each test. A total of 310 upregulated genes were found after RTE, and 69 genes after MT, of which 64 were identical to RTE. Both tests influenced a variety of known gene pathways related to inflammation, stress response, signal transduction and apoptosis. A large group of differentially expressed, and previously unknown, small nucleolar RNA and small Cajal body RNA was found. In conclusion, a 15 min test to exhaustion was associated with substantially greater changes of gene expression than a 30 min test just below the AnT. After a general medical checkup, the subjects performed a ramp-type progressive exercise test on a treadmill. Blood samples were taken from the antecubital vein using indwelling catheter before (T0) and immediately after ramp test to exaustion (T1), and before (T2) and immediately after moderate treadmill test (T3).

2011-04-09 | E-GEOD-28498 | 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