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 IDST002932
Study TitleAnalyzing Metabolic Alterations in the Gut, Hippocampus and Brainstem of Mice Induced by Running Exercise Through Liquid Chromatography Mass Spectrometry
Study SummaryMetabolic 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
DepartmentBiochemistry
Last NameChorna
First NameNataliya
AddressUniversity of Puerto Rico, Medical Sciences Campus, San Juan, PR 00935
Emailnataliya.chorna@upr.edu
Phone7877582525 ext 1640
Submit Date2023-10-15
Num Groups2
Total Subjects24
Num Males24
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailLC-MS
Release Date2023-10-30
Release Version1
Nataliya Chorna Nataliya Chorna
https://dx.doi.org/10.21228/M82Q61
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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
SA318216bs_r1brainstem
SA318217bs_s5brainstem
SA318218bs_s3brainstem
SA318219bs_s7brainstem
SA318220bs_s4brainstem
SA318221bs_s9brainstem
SA318222bs_s12brainstem
SA318223bs_s11brainstem
SA318224bs_s10brainstem
SA318225bs_s2brainstem
SA318226bs_s8brainstem
SA318227bs_s6brainstem
SA318228bs_r5brainstem
SA318229bs_r6brainstem
SA318230bs_r4brainstem
SA318231bs_r3brainstem
SA318232bs_s1brainstem
SA318233bs_r7brainstem
SA318234bs_r2brainstem
SA318235bs_r8brainstem
SA318236bs_r11brainstem
SA318237bs_r12brainstem
SA318238bs_r9brainstem
SA318239bs_r10brainstem
SA318240fec_s5feces
SA318241fec_s4feces
SA318242fec_s3feces
SA318243fec_s6feces
SA318244fec_s2feces
SA318245fec_s10feces
SA318246fec_s12feces
SA318247fec_s11feces
SA318248fec_s9feces
SA318249fec_s8feces
SA318250fec_s7feces
SA318251fec_s1feces
SA318252fec_r4feces
SA318253fec_r5feces
SA318254fec_r3feces
SA318255fec_r2feces
SA318256fec_r12feces
SA318257fec_r6feces
SA318258fec_r1feces
SA318259fec_r11feces
SA318260fec_r7feces
SA318261fec_r10feces
SA318262fec_r9feces
SA318263fec_r8feces
SA318264hp_s6hippocampus
SA318265hp_s7hippocampus
SA318266hp_s3hippocampus
SA318267hp_s4hippocampus
SA318268hp_s5hippocampus
SA318269hp_s10hippocampus
SA318270hp_s2hippocampus
SA318271hp_s12hippocampus
SA318272hp_s11hippocampus
SA318273hp_s9hippocampus
SA318274hp_s8hippocampus
SA318275hp_r7hippocampus
SA318276hp_r4hippocampus
SA318277hp_r5hippocampus
SA318278hp_r3hippocampus
SA318279hp_r2hippocampus
SA318280hp_r1hippocampus
SA318281hp_r6hippocampus
SA318282hp_r8hippocampus
SA318283hp_r12hippocampus
SA318284hp_r11hippocampus
SA318285hp_r10hippocampus
SA318286hp_r9hippocampus
SA318287hp_s1hippocampus
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.

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
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