Summary of Study ST002628

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 PR001020. The data can be accessed directly via it's Project DOI: 10.21228/M8V97D 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 IDST002628
Study TitleMoTrPAC: Endurance exercise training study in young adult rats, Tissue:Plasma - Untargeted HILIC-Positive
Study SummaryThe goal of the endurance exercise training study in young adult rats (internal code: PASS1B-06) was to perform exercise training studies in adult (6 month) F344 rats, and from these rats collect as many tissues as feasible in order to provide high quality samples for detailed analysis by chemical analysis sites. Tissues were collected from 10-12 rats sedentary control rats concurrent with the collection of the 8-week training groups. The 8-week training group and controls were from the same cohort and same age at euthanasia (either 8). For the older age group, an additional set of controls (n=5-6) were collected with the 1-2 week training group. Rats were either sedentary or underwent an exercise training program. Rats were exercised on the rodent treadmill 5 days per week using a progressive training protocol designed to exercise the rats at approximately 70% of VO2max as outlined in the Table on the next page. Training was performed no earlier than 10:00 am and no later than 5:00 pm over 5 consecutive days per week. Training was initiated with the treadmill set at 70% of VO2 max (see tables) and 5 degrees grade for 20 minutes. The duration of exercise was increased by one minute each day until day 31 of training (start of week 7), when a duration of 50 min was reached. Speed and grade of each training session increased in larger increments due to treadmill parameters. The highest intensity and duration of training began on day 31. This intensity was maintained for the final 10 days of the protocol to ensure steady state had been achieved. If any rats were unable to perform at least 4 days of training per week they were removed from the study and euthanized. It is important to note that the starting treadmill speed varied depending on the sex and age of the rat. The initial and maximum speeds were based on VO2max measurements obtained during the pre-training testing of the compliant rats. Rats assigned to the control group followed a schedule similar to the training group. They were placed in one lane on the treadmill for 15 minutes/day, 5 days per week. The treadmill was set at 0 m/min at an incline that corresponded to the incline being used by the training group.
Institute
Broad Institute of MIT and Harvard
DepartmentMetabolomics Platform
LaboratoryClish
Last NameClish
First NameClary
Address415 Main St, Cambridge, MA 02142
Emailclary@broadinstitute.org
Phone(617) 714-7654
Submit Date2023-04-28
Raw Data AvailableYes
Raw Data File Type(s)TBD
Analysis Type DetailLC-MS
Release Date2023-10-06
Release Version1
Clary Clish Clary Clish
https://dx.doi.org/10.21228/M8V97D
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001020
Project DOI:doi: 10.21228/M8V97D
Project Title:MoTrPAC
Project Summary:MoTrPAC is a national research consortium designed to discover and perform preliminary characterization of the range of molecular transducers (the "molecular map") that underlie the effects of physical activity in humans. The program's goal is to study the molecular changes that occur during and after exercise and ultimately to advance the understanding of how physical activity improves and preserves health. Preclinical and clinical studies will examine the systemic effects of endurance and resistance exercise across a range of ages and fitness levels by molecular probing of multiple tissues before and after acute and chronic exercise. This program is the largest targeted NIH investment of funds into the mechanisms of how physical activity improves health and prevents disease. The MoTrPAC program is supported by the NIH Common Fund and is managed by a trans-agency working group representing multiple NIH institutes and centers, led by the NIH Office of Strategic Coordination, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institute of Diabetes and Digestive and Kidney Diseases, National Institute on Aging, and National Institute of Biomedical Imaging and Bioengineering. MoTrPAC Steering Committee: Wendy Kohrt, Chair, Russ Tracy, Co-Chair; NIH Program Manager, Concepcion Nierras. Euan Ashley and Matthew Wheeler are the PIs for the Motrpac Bioinformatics / Data Coordination Center.
Institute:MoTrPAC
Last Name:Ashley
First Name:Euan
Address:Falk Building CV267, 870 Quarry Road, Stanford, California 94305
Email:motrpac-data-deposition@lists.stanford.edu
Phone:(650) 725-1846

Subject:

Subject ID:SU002730
Subject Type:Mammal
Subject Species:Rattus norvegicus
Taxonomy ID:10116

Factors:

Subject type: Mammal; Subject species: Rattus norvegicus (Factor headings shown in green)

mb_sample_id local_sample_id Group Timepoint Sex Tissue
SA26168890245013104Control 8 weeks of training or control time Female Rat Plasma
SA26168990248013104Control 8 weeks of training or control time Female Rat Plasma
SA26169090252013104Control 8 weeks of training or control time Female Rat Plasma
SA26169190266013104Control 8 weeks of training or control time Female Rat Plasma
SA26169290265013104Control 8 weeks of training or control time Female Rat Plasma
SA26169390237013104Control 8 weeks of training or control time Male Rat Plasma
SA26169490229013104Control 8 weeks of training or control time Male Rat Plasma
SA26169590239013104Control 8 weeks of training or control time Male Rat Plasma
SA26169690217013104Control 8 weeks of training or control time Male Rat Plasma
SA26169790232013104Control 8 weeks of training or control time Male Rat Plasma
SA261698QC_PREFA03QC-DriftCorrection 0 hour - -
SA261699QC_PREFA01QC-DriftCorrection 0 hour - -
SA261700QC_PREFA02QC-DriftCorrection 0 hour - -
SA261701QC_PREFA04QC-DriftCorrection 0 hour - -
SA261702QC_PREFB02QC-Pooled 0 hour - -
SA261703QC_PREFB04QC-Pooled 0 hour - -
SA261704QC_PREFB01QC-Pooled 0 hour - -
SA261705QC_PREFB03QC-Pooled 0 hour - -
SA261706QC_Sed02QC-Reference 0 hour - -
SA261707QC_IPE01QC-Reference 0 hour - -
SA261708QC_IPE04QC-Reference 0 hour - -
SA261709QC_IPE03QC-Reference 0 hour - -
SA261710QC_Sed01QC-Reference 0 hour - -
SA261711QC_Sed04QC-Reference 0 hour - -
SA261712QC_IPE02QC-Reference 0 hour - -
SA261713QC_Sed03QC-Reference 0 hour - -
SA26171490564013104Training 1 week of training or control time Female Rat Plasma
SA26171590567013104Training 1 week of training or control time Female Rat Plasma
SA26171690559013104Training 1 week of training or control time Female Rat Plasma
SA26171790560013104Training 1 week of training or control time Female Rat Plasma
SA26171890571013104Training 1 week of training or control time Female Rat Plasma
SA26171990423013104Training 1 week of training or control time Male Rat Plasma
SA26172090426013104Training 1 week of training or control time Male Rat Plasma
SA26172190430013104Training 1 week of training or control time Male Rat Plasma
SA26172290421013104Training 1 week of training or control time Male Rat Plasma
SA26172390422013104Training 1 week of training or control time Male Rat Plasma
SA26172490578013104Training 2 weeks of training Female Rat Plasma
SA26172590587013104Training 2 weeks of training Female Rat Plasma
SA26172690581013104Training 2 weeks of training Female Rat Plasma
SA26172790585013104Training 2 weeks of training Female Rat Plasma
SA26172890576013104Training 2 weeks of training Female Rat Plasma
SA26172990449013104Training 2 weeks of training Male Rat Plasma
SA26173090444013104Training 2 weeks of training Male Rat Plasma
SA26173190439013104Training 2 weeks of training Male Rat Plasma
SA26173290450013104Training 2 weeks of training Male Rat Plasma
SA26173390441013104Training 2 weeks of training Male Rat Plasma
SA26173490406013104Training 4 weeks of training Female Rat Plasma
SA26173590420013104Training 4 weeks of training Female Rat Plasma
SA26173690410013104Training 4 weeks of training Female Rat Plasma
SA26173790412013104Training 4 weeks of training Female Rat Plasma
SA26173890416013104Training 4 weeks of training Female Rat Plasma
SA26173990280013104Training 4 weeks of training Male Rat Plasma
SA26174090281013104Training 4 weeks of training Male Rat Plasma
SA26174190289013104Training 4 weeks of training Male Rat Plasma
SA26174290292013104Training 4 weeks of training Male Rat Plasma
SA26174390283013104Training 4 weeks of training Male Rat Plasma
SA26174490251013104Training 8 weeks of training or control time Female Rat Plasma
SA26174590254013104Training 8 weeks of training or control time Female Rat Plasma
SA26174690267013104Training 8 weeks of training or control time Female Rat Plasma
SA26174790258013104Training 8 weeks of training or control time Female Rat Plasma
SA26174890259013104Training 8 weeks of training or control time Female Rat Plasma
SA26174990222013104Training 8 weeks of training or control time Male Rat Plasma
SA26175090218013104Training 8 weeks of training or control time Male Rat Plasma
SA26175190225013104Training 8 weeks of training or control time Male Rat Plasma
SA26175290227013104Training 8 weeks of training or control time Male Rat Plasma
SA26175390223013104Training 8 weeks of training or control time Male Rat Plasma
Showing results 1 to 66 of 66

Collection:

Collection ID:CO002723
Collection Summary:-
Sample Type:Plasma

Treatment:

Treatment ID:TR002739
Treatment Summary:-

Sample Preparation:

Sampleprep ID:SP002736
Sampleprep Summary:Plasma samples (10 µL) were extracted using 90 µL of 74.9:24.9:0.2 (v/v/v) acetonitrile/methanol/formic acid containing stable isotope-labeled internal standards (0.2 ng/µL valine-d8, Isotec; 0.2 ng/µL phenylalanine-d8, Cambridge Isotope Laboratories). The samples were centrifuged (10 min, 9000g, 4?C) and the supernatants were transferred to autosampler vials with de-activated inserts (Waters).
Sampleprep Protocol Filename:pass1b_experimental_design_metabolomics.pdf

Combined analysis:

Analysis ID AN004300
Analysis type MS
Chromatography type HILIC
Chromatography system Shimadzu Nexera X2
Column Waters Atlantis HILIC (150 x 2.1mm,3um)
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive Orbitrap
Ion Mode POSITIVE
Units peak area

Chromatography:

Chromatography ID:CH003206
Chromatography Summary:Extracts (10 µL) were injected onto a 150 x 2.1 mm Atlantis HILIC column (Waters). The column was eluted isocratically at a flow rate of 250 µL/min with 5% mobile phase A (10 mM ammonium formate and 0.1% formic acid in water) for 1 minute followed by a linear gradient to 40% mobile phase B (acetonitrile with 0.1% formic acid) over 10 minutes
Methods Filename:pass1b_hilicpos_methods.pdf
Instrument Name:Shimadzu Nexera X2
Column Name:Waters Atlantis HILIC (150 x 2.1mm,3um)
Column Temperature:-
Flow Gradient:The column was eluted isocratically at a flow rate of 250 µL/min with 5% mobile phase A for 1 minute followed by a linear gradient to 40% mobile phase B over 10 minutes
Flow Rate:250 µL/min
Solvent A:100% water; 0.1% formic acid; 10 mM ammonium formate
Solvent B:100% acetonitrile; 0.1% formic acid
Chromatography Type:HILIC

MS:

MS ID:MS004047
Analysis ID:AN004300
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:High resolution, accurate mass data were acquired using a system comprised of a Shimadzu Nexera X2 U-HPLC (Shimadzu Corp.; Marlborough, MA) coupled to a Q Exactive hybrid quadrupole orbitrap mass spectrometer (Thermo Fisher Scientific; Waltham, MA). MS analyses were carried out using electrospray ionization in the positive ion mode using full scan analysis over 70-800 m/z at 70,000 resolution and 3 Hz data acquisition rate. Other MS settings were: sheath gas 40, sweep gas 2, spray voltage 3.5 kV, capillary temperature 350°C, S-lens RF 40, heater temperature 300°C, microscans 1, automatic gain control target 1e6, and maximum ion time 250 ms. Raw data were processed using TraceFinder software (Thermo Fisher Scientific; Waltham, MA) and Progenesis QI (Nonlinear Dynamics; Newcastle upon Tyne, UK). The identities of 202 profiled metabolites were confirmed using reference standards.
Ion Mode:POSITIVE
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