Summary of Study ST002462

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 PR001589. The data can be accessed directly via it's Project DOI: 10.21228/M89H8W 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.

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Study IDST002462
Study TitleTryptophan metabolites in human sera on a defined diet
Study SummaryTrp metabolites circulating in serum could provide insight into homeostatic activity of AHR, and we wished to know if the observations in mice could be replicated in humans. Previous work by our group identified AHR activators in human feces, yet it is not clear if these activators are also present in circulation. To address this question, we quantified Trp metabolites in human serum. To mitigate the variable effect of diet on metabolite profiles, we analyzed sera samples collected from study participants fed a defined diet. As with the previously discussed mouse sera, targeted metabolomics was performed on serum samples using LC-MS.
Institute
Pennsylvania State University
Last NameDONG
First NameFANGCONG
Address309 Life Sciences Building, University Park, PA 16802
Emailfxd93@psu.edu
Phone8146990203
Submit Date2023-01-27
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2023-02-06
Release Version1
FANGCONG DONG FANGCONG DONG
https://dx.doi.org/10.21228/M89H8W
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001589
Project DOI:doi: 10.21228/M89H8W
Project Title:Tryptophan metabolites in human serum
Project Type:MS quantitative study
Project Summary:Trp metabolites circulating in serum could provide insight into homeostatic activity of AHR, and we wished to know if the observations in mice could be replicated in humans. Previous work by our group identified AHR activators in human feces, yet it is not clear if these activators are also present in circulation. To address this question, we quantified Trp metabolites in human serum. To mitigate the variable effect of diet on metabolite profiles, we analyzed sera samples collected from study participants fed a defined diet. As with the previously discussed mouse sera, targeted metabolomics was performed on serum samples using LC-MS.
Institute:The Pennsylvania State University
Last Name:DONG
First Name:FANGCONG
Address:309 Life Sciences Building, State college, PA, 16802, USA
Email:fxd93@psu.edu
Phone:8146990203

Subject:

Subject ID:SU002552
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 diluted factor
SA246379std51
SA246380std31
SA246381std11
SA246382std61
SA246383std21
SA246384std41
SA246385std71
SA246386std101
SA246387std91
SA246388std81
SA24638916DP12.5
SA24639030DP12.5
SA24639162DP12.5
SA24639240DP32.5
SA24639351DP12.5
SA24639463DP32.5
SA24639563DP22.5
SA24639630DP22.5
SA24639760DP32.5
SA24639847DP12.5
SA24639929DP22.5
SA24640014DP12.5
SA24640112DP12.5
SA24640252DP32.5
SA24640325DP22.5
SA24640462DP32.5
SA24640529DP12.5
SA24640658DP32.5
SA24640758DP22.5
SA24640837DP22.5
SA24640920DP22.5
SA24641017DP12.5
SA24641114DP22.5
SA24641252DP12.5
SA24641325DP32.5
SA24641412DP32.5
SA24641554DP32.5
SA24641661DP22.5
SA24641760DP22.5
SA24641847DP22.5
SA24641917DP22.5
SA24642020DP32.5
SA24642155DP12.5
SA24642261DP12.5
SA24642337DP32.5
SA24642454DP22.5
SA24642555DP22.5
SA24642640DP12.5
SA24642750DP32.5
SA24642816DP32.5
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Collection:

Collection ID:CO002545
Collection Summary:human sera were processed by ice-cold methanol.
Sample Type:Blood (serum)

Treatment:

Treatment ID:TR002564
Treatment Summary:Thawed on ice, 25 µL of serum sample, was mixed with 100 µL extraction solvent of ice-cold methanol containing indole-3-acetic acid-d4 and kynurenic acid-d5. Mixture was vortexed and incubated at −20 °C for 30 min. Following centrifugation at 12,000 × g for 15 min at 4℃, 90 µL supernatant was collected and subsequently evaporated to dryness (Thermo Scientific, Waltham, MA) and dissolved in 45 µL of 10% acetonitrile containing 1 µM chlorpropamide. After centrifugation at 12,000 × g for 15 min at 4℃, supernatants were transferred to autosampler vials for LC-MS analysis.

Sample Preparation:

Sampleprep ID:SP002558
Sampleprep Summary:40 selected trial participants were fed a standardized isocaloric diet (representative of an average American macronutrient intake) to achieve weight maintenance for four weeks At the end of the diet period and following a 12 h fast (and avoidance of over-the-counter medication), serum was collected, stored at -80℃ and subjected to analysis by metabolomics.

Combined analysis:

Analysis ID AN004017
Analysis type MS
Chromatography type Reversed phase
Chromatography system Shimadzu 20AD
Column Waters ACQUITY UPLC BEH C18 (100 x 2.1mm,1.7um)
MS Type ESI
MS instrument type Triple TOF
MS instrument name ABI Sciex 5600 TripleTOF
Ion Mode POSITIVE
Units uM

Chromatography:

Chromatography ID:CH002967
Instrument Name:Shimadzu 20AD
Column Name:Waters ACQUITY UPLC BEH C18 (100 x 2.1mm,1.7um)
Column Temperature:55
Flow Gradient:The initial condition were 97% A and 3 % B, increasing to 45% B at 10 min, 75% B at 12 min where it was held at 75% B until 17.5 min before returning to the initial conditions.
Flow Rate:0.25 mL/min
Solvent A:100% water; 0.1% formic acid
Solvent B:100% acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS003764
Analysis ID:AN004017
Instrument Name:ABI Sciex 5600 TripleTOF
Instrument Type:Triple TOF
MS Type:ESI
MS Comments:Peakview was used for data analysis
Ion Mode:POSITIVE
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