Summary of Study ST002932

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 PR001823. The data can be accessed directly via it's Project DOI: 10.21228/M82Q61 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 ID	ST002932
Study Title	Analyzing Metabolic Alterations in the Gut, Hippocampus and Brainstem of Mice Induced by Running Exercise Through Liquid Chromatography Mass Spectrometry
Study Summary	Metabolic analysis of the impact of running exercise on the gut, hippocampus and brainstem is crucial as it provides insights into how exercise affects memory, mood, and vital physiological functions. In our six-week study, we utilized a mouse model (C57BL/6 genotype) to investigate these metabolic changes. Employing liquid chromatography coupled with mass spectrometry followed by metabolomics for a comprehensive analysis, our approach offers insights into how exercise influences metabolic processes, including brain function. Our findings hold the potential to shape more effective exercise strategies for enhancing overall health and cognitive function.
Institute	University of Puerto Rico, School of Medicine
Department	Biochemistry
Last Name	Chorna
First Name	Nataliya
Address	University of Puerto Rico, Medical Sciences Campus, San Juan, PR 00935
Email	nataliya.chorna@upr.edu
Phone	7877582525 ext 1640
Submit Date	2023-10-15
Num Groups	2
Total Subjects	24
Num Males	24
Raw Data Available	Yes
Raw Data File Type(s)	mzML
Analysis Type Detail	LC-MS
Release Date	2023-10-30
Release Version	1

Select appropriate tab below to view additional metadata details:

Project:

Project ID:	PR001823
Project DOI:	doi: 10.21228/M82Q61
Project Title:	Analyzing Metabolic Alterations in the Gut, Blood, and Brain of Mice Induced by Running Exercise Through Gas Chromatography Mass Spectrometry
Project Summary:	Studying the metabolic impact of running exercise on the gut, blood, and specific brain regions like the hippocampus and brainstem is crucial for comprehending the broader health effects of physical activity. In our six-week study, we utilized a mouse model (C57BL/6 genotype) to investigate these metabolic changes. Employing gas and liquid chromatography coupled with mass spectrometry followed by metabolomics for a comprehensive analysis, our approach offers insights into how exercise influences metabolic processes, including brain function. Our findings hold the potential to shape more effective exercise strategies for enhancing overall health and cognitive function.
Institute:	University of Puerto Rico, School of Medicine
Department:	Biochemistry
Last Name:	Chorna
First Name:	Nataliya
Address:	University of Puerto Rico, Medical Sciences Campus, San Juan, PR 00935
Email:	nataliya.chorna@upr.edu
Phone:	7877582525 ext 1640
Funding Source:	NIGMS-NIH-PRINBRE-P20GM103475

Subject:

Subject ID:	SU003045
Subject Type:	Mammal
Subject Species:	Mus musculus
Taxonomy ID:	10090
Genotype Strain:	C57BL/6J
Age Or Age Range:	20 wks
Gender:	Male
Animal Animal Supplier:	Jackson Lab

Factors:

Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id	local_sample_id	Factor
SA318216	bs_r1	brainstem
SA318217	bs_s5	brainstem
SA318218	bs_s3	brainstem
SA318219	bs_s7	brainstem
SA318220	bs_s4	brainstem
SA318221	bs_s9	brainstem
SA318222	bs_s12	brainstem
SA318223	bs_s11	brainstem
SA318224	bs_s10	brainstem
SA318225	bs_s2	brainstem
SA318226	bs_s8	brainstem
SA318227	bs_s6	brainstem
SA318228	bs_r5	brainstem
SA318229	bs_r6	brainstem
SA318230	bs_r4	brainstem
SA318231	bs_r3	brainstem
SA318232	bs_s1	brainstem
SA318233	bs_r7	brainstem
SA318234	bs_r2	brainstem
SA318235	bs_r8	brainstem
SA318236	bs_r11	brainstem
SA318237	bs_r12	brainstem
SA318238	bs_r9	brainstem
SA318239	bs_r10	brainstem
SA318240	fec_s5	feces
SA318241	fec_s4	feces
SA318242	fec_s3	feces
SA318243	fec_s6	feces
SA318244	fec_s2	feces
SA318245	fec_s10	feces
SA318246	fec_s12	feces
SA318247	fec_s11	feces
SA318248	fec_s9	feces
SA318249	fec_s8	feces
SA318250	fec_s7	feces
SA318251	fec_s1	feces
SA318252	fec_r4	feces
SA318253	fec_r5	feces
SA318254	fec_r3	feces
SA318255	fec_r2	feces
SA318256	fec_r12	feces
SA318257	fec_r6	feces
SA318258	fec_r1	feces
SA318259	fec_r11	feces
SA318260	fec_r7	feces
SA318261	fec_r10	feces
SA318262	fec_r9	feces
SA318263	fec_r8	feces
SA318264	hp_s6	hippocampus
SA318265	hp_s7	hippocampus
SA318266	hp_s3	hippocampus
SA318267	hp_s4	hippocampus
SA318268	hp_s5	hippocampus
SA318269	hp_s10	hippocampus
SA318270	hp_s2	hippocampus
SA318271	hp_s12	hippocampus
SA318272	hp_s11	hippocampus
SA318273	hp_s9	hippocampus
SA318274	hp_s8	hippocampus
SA318275	hp_r7	hippocampus
SA318276	hp_r4	hippocampus
SA318277	hp_r5	hippocampus
SA318278	hp_r3	hippocampus
SA318279	hp_r2	hippocampus
SA318280	hp_r1	hippocampus
SA318281	hp_r6	hippocampus
SA318282	hp_r8	hippocampus
SA318283	hp_r12	hippocampus
SA318284	hp_r11	hippocampus
SA318285	hp_r10	hippocampus
SA318286	hp_r9	hippocampus
SA318287	hp_s1	hippocampus

Showing results 1 to 72 of 72

Showing results 1 to 72 of 72

Collection:

Collection ID:	CO003038
Collection Summary:	Extraction of fecal metabolites: 50 mg of fresh feces were collected from each mouse and frozen in liquid nitrogen. Samples were spiked with 0.5 mL water, homogenized for 5 min followed by 10 s of sonication, and centrifuged at 14K rpm X 10 min at 4°C. Collected supernatants were evaporated to dryness under a nitrogen gas stream and stored at −80°C. Extraction of brain metabolites: Approximately 20-40 mg of frozen tissues was resuspended in 4 volumes of MPER and homogenized on ice. 130 µL of tissue homogenates were spin filtered, as above, and the flow through was diluted 1:1 with deionized water, followed by sonication for 10 sec using a Sonic Dismembrator on ice, vortexed for 10 s, and centrifuged at 14K rpm X 15 min at 4°C. 100 uL of eluate was evaporated to dryness under a nitrogen gas stream and stored at −80°C.
Sample Type:	feces, hippocampus, brainstem
Storage Conditions:	-80℃

Treatment:

Treatment ID:	TR003054
Treatment Summary:	To evaluate our hypothesis that running exercise reshapes gut microbiota diversity that balances TRP metabolism in the gut, we used an established model of voluntary running exercise in 20-week-old male mice (C57BL/6J, Jackson Lab) housed individually in a standard cage in temperature-controlled (21°C) quarters with a 12-h light/12-h dark cycle. Animals were given water and food (Purina Chow) ad libitum as previously described (Chorna et al., 2013). Briefly, mice were randomized into two groups, sedentary control (n=12) and running experimental (n=12), housed with free access to a wireless running wheel (Med Associates) for six weeks. For the sedentary group, the wheels were locked in the experiment. Therefore, this group of mice could not perform running exercises. Exercise activities of the running group were recorded for each animal for the investigation to ensure that each mouse was physically active. The recording was conducted using an automatic counter and Med Associates software.

Treatment ID:

TR003054

Treatment Summary:

To evaluate our hypothesis that running exercise reshapes gut microbiota diversity that balances TRP metabolism in the gut, we used an established model of voluntary running exercise in 20-week-old male mice (C57BL/6J, Jackson Lab) housed individually in a standard cage in temperature-controlled (21°C) quarters with a 12-h light/12-h dark cycle. Animals were given water and food (Purina Chow) ad libitum as previously described (Chorna et al., 2013). Briefly, mice were randomized into two groups, sedentary control (n=12) and running experimental (n=12), housed with free access to a wireless running wheel (Med Associates) for six weeks. For the sedentary group, the wheels were locked in the experiment. Therefore, this group of mice could not perform running exercises. Exercise activities of the running group were recorded for each animal for the investigation to ensure that each mouse was physically active. The recording was conducted using an automatic counter and Med Associates software.

Sample Preparation:

Sampleprep ID:	SP003051
Sampleprep Summary:	Extraction of fecal metabolites: 50 mg of fresh feces were collected from each mouse and frozen in liquid nitrogen. Samples were spiked with 0.5 mL water, homogenized for 5 min followed by 10 s of sonication, and centrifuged at 14K rpm X 10 min at 4°C. Collected supernatants were evaporated to dryness under a nitrogen gas stream and stored at −80°C. Extraction of brain metabolites: Approximately 20-40 mg of frozen tissues was resuspended in 4 volumes of MPER and homogenized on ice. 130 µL of tissue homogenates were spin filtered, as above, and the flow through was diluted 1:1 with deionized water, followed by sonication for 10 sec using a Sonic Dismembrator on ice, vortexed for 10 s, and centrifuged at 14K rpm X 15 min at 4°C. 100 uL of eluate was evaporated to dryness under a nitrogen gas stream and stored at −80°C.
Processing Storage Conditions:	Described in summary

Combined analysis:

Analysis ID	AN004810
Analysis type	MS
Chromatography type	HILIC
Chromatography system	Synapt-XS Waters
Column	Waters ACQUITY UPLC BEH HILIC (100 x 2.1mm,1.7um)
MS Type	ESI
MS instrument type	Ion Mobility TOF
MS instrument name	Waters Synapt-XS
Ion Mode	POSITIVE
Units	peak intensities

Chromatography:

Chromatography ID:	CH003635
Chromatography Summary:	The LC/MS experiments were conducted using an i-Class LC system coupled to a Synapt-XS mass spectrometer (Waters). Liquid chromatography was performed on fecal, hippocampus, and brainstem samples collected from both the SED and RUN groups. The chromatographic separation was conducted using a BEH HILIC column with 1.7 µm particle size dimensions and 2.1 x 100 mm (Waters). The column temperature was maintained at 50ºC, and the flow rate was set at 0.4 mL/min. The mobile phase consisted of 0.1% formic acid in water as solvent A and 0.1% formic acid in acetonitrile as solvent B. The initial mobile phase composition was 5% A and 95% B, which was held constant for 2 minutes. Subsequently, a linear gradient from 5% to 50% A was applied over 8 minutes, followed by a 2-minute hold at 50% B before returning to the initial condition for a 5-minute re-equilibration. The total run time for each analysis was 19 minutes.
Instrument Name:	Synapt-XS Waters
Column Name:	Waters ACQUITY UPLC BEH HILIC (100 x 2.1mm,1.7um)
Column Temperature:	50ºC
Flow Gradient:	5% to 50% A was applied over 8 minutes, followed by a 2-minute hold at 50% B before returning to the initial condition for a 5-minute re-equilibration.
Flow Rate:	0.4 mL/min
Solvent A:	100% water; 0.1% formic acid
Solvent B:	100% acetonitrile; 0.1% formic acid
Chromatography Type:	HILIC

MS:

MS ID:	MS004556
Analysis ID:	AN004810
Instrument Name:	Waters Synapt-XS
Instrument Type:	Ion Mobility TOF
MS Type:	ESI
MS Comments:	The mass spectrometer operated at a frequency of 5 Hz, covering a mass range of 50-1200 m/z.
Ion Mode:	POSITIVE