Summary of Study ST001337
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 PR000913. The data can be accessed directly via it's Project DOI: 10.21228/M8P67T This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST001337 |
| Study Title | Global profiling for human feces |
| Study Summary | The aryl hydrocarbon receptor (AHR) is a ligand-activated transcription factor that responds to a variety of structurally diverse exogenous and endogenous small molecules. Gut microbiota utilizing tryptophan and indole metabolism as a reservoir, has been demonstrated to provide an abundant source of AHR ligands. So untargeted global profiling was performed to find the potential candidates of AHR activator in human feces. |
| Institute | Pennsylvania State University |
| Last Name | DONG |
| First Name | FANGCONG |
| Address | 314 Life Sciences Building, University Park, PA, 16802 |
| fxd93@psu.edu | |
| Phone | 8148637610 |
| Submit Date | 2020-03-26 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2020-10-13 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000913 |
| Project DOI: | doi: 10.21228/M8P67T |
| Project Title: | aryl hydrocarbon receptor-related compounds studies |
| Project Summary: | The aryl hydrocarbon receptor (AHR) is a ligand-activated transcription factor that responds to a variety of structurally diverse exogenous and endogenous small molecules. Gut microbiota utilizing tryptophan and indole metabolism as a reservoir, has been demonstrated to provide an abundant source of AHR ligands. So untargeted global profiling was performed to find the potential candidates of AHR activator in human feces. |
| Institute: | Pennsylvania State University |
| Last Name: | DONG |
| First Name: | FANGCONG |
| Address: | 314 Life Sciences Building, University Park, PA 16802 |
| Email: | fxd93@psu.edu |
| Phone: | 8148637610 |
Subject:
| Subject ID: | SU001411 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment |
|---|---|---|
| SA097555 | Human feces_ALA011 | defined diet |
| SA097556 | Human feces_ALA007 | defined diet |
| Showing results 1 to 2 of 2 |
Collection:
| Collection ID: | CO001406 |
| Collection Summary: | Feces were collected from individuals at risk for cardiovascular disease involved in a randomized, controlled, 3‐period, crossover, feeding trial. Following a 2‐week standard Western diet run‐in (12% saturated FAs [SFA], 7% polyunsaturated FAs, 12% monounsaturated FAs), participants consumed 3 isocaloric weight‐maintenance diets for 6 weeks each: a walnut diet (WD; 7% SFA, 16% polyunsaturated FAs, 3% ALA, 9% monounsaturated FAs); a walnut FA‐matched diet; and an oleic acid–replaced‐ALA diet (7% SFA, 14% polyunsaturated FAs, 0.5% ALA, 12% monounsaturated FAs), which substituted the amount of ALA from walnuts in the WD with oleic acid. |
| Sample Type: | Feces |
Treatment:
| Treatment ID: | TR001426 |
| Treatment Summary: | Feces were collected from individuals at risk for cardiovascular disease involved in a randomized, controlled, 3‐period, crossover, feeding trial. Following a 2‐week standard Western diet run‐in (12% saturated FAs [SFA], 7% polyunsaturated FAs, 12% monounsaturated FAs), participants consumed 3 isocaloric weight‐maintenance diets for 6 weeks each: a walnut diet (WD; 7% SFA, 16% polyunsaturated FAs, 3% ALA, 9% monounsaturated FAs); a walnut FA‐matched diet; and an oleic acid–replaced‐ALA diet (7% SFA, 14% polyunsaturated FAs, 0.5% ALA, 12% monounsaturated FAs), which substituted the amount of ALA from walnuts in the WD with oleic acid. |
Sample Preparation:
| Sampleprep ID: | SP001419 |
| Sampleprep Summary: | Freeze dried human stool (~ 30 mg) were mixed with 1 mL of ice cold 80% methanol (v/v) containing 0.1% formic acid (v/v). Each mixture was homogenized with 1 mm zirconium beads using a BeadBlasterTM 24 (Benchmark Scientific, Edison, NJ, USA) homogenizer. All samples were homogenized according to the program parameters: 6500 - 1×30 - 005 (×3). After vortexing, samples were sonicated for 20 min in an ice water bath, prior to centrifugation at 20,000 × g for 20 min at 4 ℃. The supernatants were collected, dried in a Savant SpeedVac (Thermo Scientific, Waltham, MA, USA), and reconstituted in 100 μL of 3% methanol (v/v) containing 1 µM chlorpropamide (internal standard). |
| Sampleprep Protocol Filename: | MS_protocol_for_global_profiling.pdf |
Combined analysis:
| Analysis ID | AN002231 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Vanquish UHPLC system |
| Column | Waters BEH C18 (100 x 2.1mm,1.7um) |
| MS Type | ESI |
| MS instrument type | Orbitrap |
| MS instrument name | Thermo Fusion Tribrid Orbitrap |
| Ion Mode | POSITIVE |
| Units | peak area |
Chromatography:
| Chromatography ID: | CH001637 |
| Instrument Name: | Vanquish UHPLC system |
| Column Name: | Waters BEH C18 (100 x 2.1mm,1.7um) |
| Flow Gradient: | The initial condition was 97% A and 3% B, increasing to 45% B at 10 min and 75% B at 12 min, where it was held at 75% B until 17.5 min before returning to the initial conditions. |
| Solvent A: | 100% water; 0.1% formic acid; |
| Solvent B: | 100% acetonitrile; 0.1% formic acid |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS002077 |
| Analysis ID: | AN002231 |
| Instrument Name: | Thermo Fusion Tribrid Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | Solvent A was HPLC-grade water with 0.1% formic acid, and solvent B was HPLC-grade acetonitrile with 0.1% formic acid. The initial condition was 97% A and 3% B, increasing to 45% B at 10 min and 75% B at 12 min, where it was held at 75% B until 17.5 min before returning to the initial conditions. |
| Ion Mode: | POSITIVE |
