Summary of Study ST000019
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000018. The data can be accessed directly via it's Project DOI: 10.21228/M8Z59Q This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000019 |
| Study Title | Determine purity and quality of IROA labelled glucose |
| Study Type | NMR and MS analysis |
| Study Summary | We demonstrate the global metabolic analysis ofCaenorhabditis elegansstress responses using a mass-spectrometry-based technique called isotopic ratio outlier analysis (IROA). In an IROA protocol, control and experimental samples are isotopically labeled with 95 and 5%13C, and the two sample populations are mixed together for uniform extraction, sample preparation, and LC-MS analysis.To illustrate the utility of IROA for global metabolomics, we exposed wild-type (N2) worms to a heat shock (30 min heat shock at 33 C), which causes significant, widespread changes in metabolism. We collected and analyzed material from the exometabolome (all material that worms release in the supernatant) and the endometabolome (homogenized total extracts from the worm bodies). |
| Institute | University of Florida |
| Department | Biochemistry & Molecular Biology |
| Last Name | Stupp |
| First Name | Gregory |
| stuppie@ufl.edu | |
| Submit Date | 2013-12-10 |
| Study Comments | Determine purity and quality of IROA labelled glucose |
| Raw Data Available | Yes |
| Raw Data File Type(s) | ser |
| Uploaded File Size | 90 M |
| Analysis Type Detail | NMR |
| Release Date | 2014-03-05 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000018 |
| Project DOI: | doi: 10.21228/M8Z59Q |
| Project Title: | Isotopic Ratio Outlier Analysis Global Metabolomics ofCaenorhabditis elegans |
| Project Type: | IROA labeling study |
| Project Summary: | We demonstrate the global metabolic analysis ofCaenorhabditis elegansstress responses using a mass-spectrometry-based technique called isotopic ratio outlier analysis (IROA). In an IROA protocol, control and experimental samples are isotopically labeled with 95 and 5%13C, and the two sample populations are mixed together for uniform extraction, sample preparation, and LC-MS analysis.To illustrate the utility of IROA for global metabolomics, we exposed wild-type (N2) worms to a heat shock (30 min heat shock at 33 C), which causes significant, widespread changes in metabolism. We collected and analyzed material from the exometabolome (all material that worms release in the supernatant) and the endometabolome (homogenized total extracts from the worm bodies). |
| Institute: | University of Florida |
| Department: | Biochemistry & Molecular Biology |
| Laboratory: | Edison |
| Last Name: | Edison |
| First Name: | Arthur |
| Address: | R3-226 Academic Research Building, Department of Biochemistry & Molecular Biology, PO Box 100245, Gainesville, FL 32610-0245 |
| Email: | aedison@ufl.edu |
| Phone: | (352) 392-4535 |
Subject:
| Subject ID: | SU000036 |
| Subject Type: | Animal |
| Subject Species: | Caenorhabditis elegans |
| Taxonomy ID: | 6239 |
Factors:
Subject type: Animal; Subject species: Caenorhabditis elegans (Factor headings shown in green)
| mb_sample_id | local_sample_id | %13C |
|---|---|---|
| SA001189 | 5p | 0.05 |
| SA001190 | 95p | 0.95 |
| SA001191 | Blank | none |
| Showing results 1 to 3 of 3 |
Collection:
| Collection ID: | CO000019 |
| Collection Summary: | none |
| Sample Type: | Worms |
Treatment:
| Treatment ID: | TR001190 |
| Treatment Summary: | none |
Sample Preparation:
| Sampleprep ID: | SP000032 |
| Sampleprep Summary: | - |
| Sampleprep Protocol Filename: | IROAGlucoseNMR_Feb11_2014.txt |
| Sampleprep Protocol Comments: | 5%: 10.7 mg dissolved in 594 L of 99% D2O and 6 L of 111.11 mM d4-TSP in D2O 95%: 2.8 mg dissolved in 594 L of 99% D2O and 6 L of 111.11 mM d4-TSP in D2O Blank: 594 L of 99% D2O and 6 L of 111.11 mM d4-TSP in D2O |
Combined analysis:
| Analysis ID | AN000038 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Thermo Accela 1250 |
| Column | Thermo Scientific Gold aQ |
| MS Type | ESI |
| MS instrument type | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE |
| Units |
Chromatography:
| Chromatography ID: | CH000020 |
| Chromatography Comments: | 100% solvent A for 1 min followed by a linear gradient to 20% B in 6 min, a linear gradient to 60% B in 2 min, a linear gradient to 95% B in 4 min, held for 2 min, and a 3.5 min return to the starting composition |
| Instrument Name: | Thermo Accela 1250 |
| Column Name: | Thermo Scientific Gold aQ |
| Column Temperature: | 40C |
| Flow Rate: | 600 uL/min |
| Sample Injection: | 3 uL |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 100% acetonitrile; 0.1% formic acid |
| Analytical Time: | 18.5 min |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS000035 |
| Analysis ID: | AN000038 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | LCMSmethod.rtf |
| Ion Mode: | POSITIVE |
| Mass Accuracy: | 1.5 ppm |
| Spray Voltage: | 3kV |
| Resolution Setting: | 70000 |
