Summary of Study ST002660

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 IDST002660
Study TitleMoTrPAC: Endurance exercise training study in young adult rats, Tissue:Gastrocnemius - Targeted Acyl-CoA
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
Duke University
DepartmentDuke Molecular Physiology Institute
LaboratoryMetabolomics Core Laboratory
Last NameNewgard
First NameChristopher
Address300 N Duke St, Durham, NC 27701
Emailchris.newgard@duke.edu
Phone(919) 668-6059
Submit Date2023-04-25
Raw Data AvailableYes
Raw Data File Type(s)TBD
Analysis Type DetailLC-MS
Release Date2023-10-06
Release Version1
Christopher Newgard Christopher Newgard
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:SU002762
Subject Type:Mammal
Subject Species:Rattus norvegicus
Taxonomy ID:10116
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Group Timepoint Sex
SA26410290248015514Control 8 weeks of training or control time Female
SA26410390266015514Control 8 weeks of training or control time Female
SA26410490252015514Control 8 weeks of training or control time Female
SA26410590265015514Control 8 weeks of training or control time Female
SA26410690245015514Control 8 weeks of training or control time Female
SA26410790237015514Control 8 weeks of training or control time Male
SA26410890232015514Control 8 weeks of training or control time Male
SA26410990229015514Control 8 weeks of training or control time Male
SA26411090217015514Control 8 weeks of training or control time Male
SA26411190239015514Control 8 weeks of training or control time Male
SA26411280009825502_2QC-ExternalStandard 0 hour -
SA26411380008815502_2QC-ExternalStandard 0 hour -
SA26411480008815502_3QC-ExternalStandard 0 hour -
SA26411580008815502_4QC-ExternalStandard 0 hour -
SA26411680009825502_4QC-ExternalStandard 0 hour -
SA26411780009825502_3QC-ExternalStandard 0 hour -
SA26411880008815502_1QC-ExternalStandard 0 hour -
SA26411980009825502_1QC-ExternalStandard 0 hour -
SA26412090560015514Training 1 week of training or control time Female
SA26412190567015514Training 1 week of training or control time Female
SA26412290564015514Training 1 week of training or control time Female
SA26412390559015514Training 1 week of training or control time Female
SA26412490571015514Training 1 week of training or control time Female
SA26412590422015514Training 1 week of training or control time Male
SA26412690430015514Training 1 week of training or control time Male
SA26412790421015514Training 1 week of training or control time Male
SA26412890423015514Training 1 week of training or control time Male
SA26412990426015514Training 1 week of training or control time Male
SA26413090587015514Training 2 weeks of training Female
SA26413190585015514Training 2 weeks of training Female
SA26413290576015514Training 2 weeks of training Female
SA26413390581015514Training 2 weeks of training Female
SA26413490578015514Training 2 weeks of training Female
SA26413590439015514Training 2 weeks of training Male
SA26413690441015514Training 2 weeks of training Male
SA26413790444015514Training 2 weeks of training Male
SA26413890450015514Training 2 weeks of training Male
SA26413990449015514Training 2 weeks of training Male
SA26414090410015514Training 4 weeks of training Female
SA26414190420015514Training 4 weeks of training Female
SA26414290412015514Training 4 weeks of training Female
SA26414390406015514Training 4 weeks of training Female
SA26414490416015514Training 4 weeks of training Female
SA26414590289015514Training 4 weeks of training Male
SA26414690280015514Training 4 weeks of training Male
SA26414790283015514Training 4 weeks of training Male
SA26414890292015514Training 4 weeks of training Male
SA26414990281015514Training 4 weeks of training Male
SA26415090267015514Training 8 weeks of training or control time Female
SA26415190259015514Training 8 weeks of training or control time Female
SA26415290254015514Training 8 weeks of training or control time Female
SA26415390251015514Training 8 weeks of training or control time Female
SA26415490258015514Training 8 weeks of training or control time Female
SA26415590223015514Training 8 weeks of training or control time Male
SA26415690218015514Training 8 weeks of training or control time Male
SA26415790227015514Training 8 weeks of training or control time Male
SA26415890225015514Training 8 weeks of training or control time Male
SA26415990222015514Training 8 weeks of training or control time Male
Showing results 1 to 58 of 58

Collection:

Collection ID:CO002755
Collection Summary:-
Sample Type:Gastrocnemius

Treatment:

Treatment ID:TR002771
Treatment Summary:-

Sample Preparation:

Sampleprep ID:SP002768
Sampleprep Summary:500 ul of tissue homogenate preprared at 50 mg/ml in 50% acetonitrile/0.3% formic acid are spiked with C17 Acyl CoA. The acyl CoAs are purified by solid phase extraction using 2-(2-pyridyl) ethyl functionalized Silica gel (Sigma-Aldrich 54127-U).
Sampleprep Protocol Filename:pass1b_experimental_design_metabolomics.pdf

Combined analysis:

Analysis ID AN004332
Analysis type MS
Chromatography type Flow induction analysis
Chromatography system Waters Acquity UPLC
Column No column
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name Waters Xevo TQ-S
Ion Mode POSITIVE
Units pmol/mg of tissue

Chromatography:

Chromatography ID:CH003238
Chromatography Summary:80% methanol/20% water containing 30 mM ammonium hydroxide is used as the mobile phase, the flow is 0.030 ml/min.
Methods Filename:pass1b_acoa_methods.pdf
Instrument Name:Waters Acquity UPLC
Column Name:No column
Chromatography Type:Flow induction analysis

MS:

MS ID:MS004079
Analysis ID:AN004332
Instrument Name:Waters Xevo TQ-S
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Ion ratios of endogenous acyl CoAs to the C-17 CoA internal standard are computed from centroided spectra using a software package NeoLynx (Waters, Milford, MA). The ratios are converted to concentrations using calibrators prepared by spiking tissue homogenates with authentic CoAs (Sigma, St. Louis , MO) having saturated acyl chain lengths C0- C18. Corrections for the heavy isotope effects, mainly 13C, to the adjacent m+2 spectral peaks in a particular chain length cluster are made empirically by referring to the observed spectra for the analytical standards. The values are expressed in pmol/mg. Spectra are acquired in the multichannel acquisition mode monitoring the neutral loss of 507 amu (phosphoadenosine diphosphate) and scanning from m/z 750 to1060.
Ion Mode:POSITIVE
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