Summary of Study ST002594

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.

Study ID	ST002594
Study Title	MoTrPAC: Endurance exercise training study in young adult rats, Tissue:Gastrocnemius - Targeted Keto Acids
Study Summary	The 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
Department	Duke Molecular Physiology Institute
Laboratory	Metabolomics Core Laboratory
Last Name	Newgard
First Name	Christopher
Address	300 N Duke St, Durham, NC 27701
Email	chris.newgard@duke.edu
Phone	(919) 668-6059
Submit Date	2023-04-25
Raw Data Available	Yes
Raw Data File Type(s)	TBD
Analysis Type Detail	LC-MS
Release Date	2023-10-06
Release Version	1

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:	SU002696
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
SA259630	90252015514	Control	8 weeks of training or control time	Female
SA259631	90248015514	Control	8 weeks of training or control time	Female
SA259632	90245015514	Control	8 weeks of training or control time	Female
SA259633	90266015514	Control	8 weeks of training or control time	Female
SA259634	90265015514	Control	8 weeks of training or control time	Female
SA259635	90239015514	Control	8 weeks of training or control time	Male
SA259636	90237015514	Control	8 weeks of training or control time	Male
SA259637	90229015514	Control	8 weeks of training or control time	Male
SA259638	90217015514	Control	8 weeks of training or control time	Male
SA259639	90232015514	Control	8 weeks of training or control time	Male
SA259640	80009825502_2	QC-ExternalStandard	0 hour	-
SA259641	80008815502_2	QC-ExternalStandard	0 hour	-
SA259642	80008815502_3	QC-ExternalStandard	0 hour	-
SA259643	80008815502_4	QC-ExternalStandard	0 hour	-
SA259644	80009825502_1	QC-ExternalStandard	0 hour	-
SA259645	80008815502_1	QC-ExternalStandard	0 hour	-
SA259646	80009825502_3	QC-ExternalStandard	0 hour	-
SA259647	80009825502_4	QC-ExternalStandard	0 hour	-
SA259648	90564015514	Training	1 week of training or control time	Female
SA259649	90571015514	Training	1 week of training or control time	Female
SA259650	90560015514	Training	1 week of training or control time	Female
SA259651	90559015514	Training	1 week of training or control time	Female
SA259652	90567015514	Training	1 week of training or control time	Female
SA259653	90426015514	Training	1 week of training or control time	Male
SA259654	90422015514	Training	1 week of training or control time	Male
SA259655	90430015514	Training	1 week of training or control time	Male
SA259656	90421015514	Training	1 week of training or control time	Male
SA259657	90423015514	Training	1 week of training or control time	Male
SA259658	90576015514	Training	2 weeks of training	Female
SA259659	90578015514	Training	2 weeks of training	Female
SA259660	90585015514	Training	2 weeks of training	Female
SA259661	90581015514	Training	2 weeks of training	Female
SA259662	90587015514	Training	2 weeks of training	Female
SA259663	90439015514	Training	2 weeks of training	Male
SA259664	90450015514	Training	2 weeks of training	Male
SA259665	90441015514	Training	2 weeks of training	Male
SA259666	90449015514	Training	2 weeks of training	Male
SA259667	90444015514	Training	2 weeks of training	Male
SA259668	90420015514	Training	4 weeks of training	Female
SA259669	90410015514	Training	4 weeks of training	Female
SA259670	90412015514	Training	4 weeks of training	Female
SA259671	90416015514	Training	4 weeks of training	Female
SA259672	90406015514	Training	4 weeks of training	Female
SA259673	90280015514	Training	4 weeks of training	Male
SA259674	90281015514	Training	4 weeks of training	Male
SA259675	90289015514	Training	4 weeks of training	Male
SA259676	90283015514	Training	4 weeks of training	Male
SA259677	90292015514	Training	4 weeks of training	Male
SA259678	90258015514	Training	8 weeks of training or control time	Female
SA259679	90259015514	Training	8 weeks of training or control time	Female
SA259680	90267015514	Training	8 weeks of training or control time	Female
SA259681	90251015514	Training	8 weeks of training or control time	Female
SA259682	90254015514	Training	8 weeks of training or control time	Female
SA259683	90222015514	Training	8 weeks of training or control time	Male
SA259684	90225015514	Training	8 weeks of training or control time	Male
SA259685	90223015514	Training	8 weeks of training or control time	Male
SA259686	90218015514	Training	8 weeks of training or control time	Male
SA259687	90227015514	Training	8 weeks of training or control time	Male

Showing results 1 to 58 of 58

Showing results 1 to 58 of 58

Collection:

Collection ID:	CO002689
Collection Summary:	-
Sample Type:	Gastrocnemius

Treatment:

Treatment ID:	TR002708
Treatment Summary:	-

Sample Preparation:

Sampleprep ID:	SP002702
Sampleprep Summary:	10 µl of plasma or 300 µl of tissue homogenate prepared at 100 mg/ml in 3M perchloric acid containing isotopically labeled internal standards KIC-d3, KIV-5C13, (Cambridge Isotope Laboratories), and KMV-d8 (Toronto Research Chemicals) are precipitated with 150 µl of 3M PCA. 200 µl of 25 M o-phenylenediamine (OPD) in 3M HCl is added to the supernatants and the samples are incubated at 80oC for 20 minutes. Keto acids are extracted with ethyl acetate. The extracts are dried under nitrogen and reconstituted in 200 mM ammonium acetate.
Sampleprep Protocol Filename:	pass1b_experimental_design_metabolomics.pdf

Combined analysis:

Analysis ID	AN004266
Analysis type	MS
Chromatography type	Reversed phase
Chromatography system	Waters Acquity UPLC
Column	Waters Acquity UPLC BEH C18 (50 x 2.1 mm,1.7 um)
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:	CH003172
Chromatography Summary:	The analytical column is used at 30°C. 10 µl of the sample are injected onto the column and eluted at a flow rate of 0.4 ml/min. The gradient begins with 45% eluent A (5 mM ammonium acetate in water) and is then programmed as follows: 0 to 2 min – gradient to 55% eluent B (methanol); 2 to 2.5 min - gradient to 95% eluent B; 2.5 to 3.2 min - hold at 95% eluent B, return to 45% A, and re-equilibrate the column at initial conditions for 1 minute.
Methods Filename:	pass1b_ka_methods.pdf
Instrument Name:	Waters Acquity UPLC
Column Name:	Waters Acquity UPLC BEH C18 (50 x 2.1 mm,1.7 um)
Column Temperature:	30C
Flow Gradient:	45% A and 55% B for 2 minutes, followed by a linear gradient to 95% B from 2 to 2.5 minutes, held at 95% B for 0.7 minutes, returned to 45% A, and finally the column was re-equilibrated at initial conditions for 1 minute. The total run time was 4.7 minutes.
Flow Rate:	0.4 ml/min
Solvent A:	100% water; 5 mM ammonium acetate
Solvent B:	100% methanol
Chromatography Type:	Reversed phase

MS:

MS ID:	MS004013
Analysis ID:	AN004266
Instrument Name:	Waters Xevo TQ-S
Instrument Type:	Triple quadrupole
MS Type:	ESI
MS Comments:	Mass transitions of m/z 203 -> 161 (ketoleucine or KIC), 206 -> 161 (KIC-d3), 189 -> 174 (ketoisovalerate or KIV), 194 -> 178 (KIV-5C13), 203 -> 174 (3-methyl-2-oxovalerate or KMV), and 211 -> 177 (KMV-d8) are monitored in a positive ion electrospray ionization mode.
Ion Mode:	POSITIVE