Summary of Study ST002813

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 PR001760. The data can be accessed directly via it's Project DOI: 10.21228/M86T5X 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 IDST002813
Study TitleEffects of acute cold exposure on mouse metabolome
Study SummaryCold-induced thermogenesis is widely studied as a potential avenue to treat obesity, but a thorough understanding of the metabolic changes driving thermogenesis is lacking. We analyzed mouse plasma and tissue samples from fasted mice housed at room temperature or acutely exposed to 4°C. First, C57BL/6 mice (n=41) were divided into 2 groups (n=20-21 per group) and underwent surgery to implant an indwelling arterial catheter. Mice originally housed at room temperature were housed without food for 6 hours at room temperature or 4°C, after which blood was collected from the arterial catheter and centrifuged, and plasma was collected for metabolomic analyses. Second, C57BL/6 mice (n=12) were divided into 2 groups (n=6 per group) and housed without food for 6 hours at room temperature or 4°C. Mice were euthanized, and tissues (brown adipose tissue, heart, liver, quadricepts muscle, diaphragm, and gonadal-white adipose tissue) were collected, freeze-clamped in liquid nitrogen, and used for metabolomic analyses. Overall our data detail a coordinated and broad metabolic response governing the thermogenic response to acute cold exposure in mice.
Institute
University of Pennsylvania
DepartmentMedicine
LaboratoryArany Lab
Last NameBornstein
First NameMarc
Address3400 Civic Center Blvd (Smilow 11-187)
Emailmarc.bornstein@pennmedicine.upenn.edu
Phone7742796684
Submit Date2023-08-09
Num Groups4
Total Subjects53
Num Males53
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2023-10-05
Release Version1
Marc Bornstein Marc Bornstein
https://dx.doi.org/10.21228/M86T5X
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001760
Project DOI:doi: 10.21228/M86T5X
Project Title:Effects of acute cold exposure on mouse metabolome
Project Summary:Cold-induced thermogenesis is widely studied as a potential avenue to treat obesity, but a thorough understanding of the metabolic changes driving thermogenesis is lacking. We analyzed mouse plasma and tissue samples from fasted mice housed at room temperature or acutely exposed to 4°C. First, C57BL/6 mice (n=41) were divided into 2 groups (n=20-21 per group) and underwent surgery to implant an indwelling arterial catheter. Mice originally housed at room temperature were housed without food for 6 hours at room temperature or 4°C, after which blood was collected from the arterial catheter and centrifuged, and plasma was collected for metabolomic analyses. Second, C57BL/6 mice (n=12) were divided into 2 groups (n=6 per group) and housed without food for 6 hours at room temperature or 4°C. Mice were euthanized, and tissues (brown adipose tissue, heart, liver, quadricepts muscle, diaphragm, and gonadal-white adipose tissue) were collected, freeze-clamped in liquid nitrogen, and used for metabolomic analyses. Overall our data detail a coordinated and broad metabolic response governing the thermogenic response to acute cold exposure in mice.
Institute:University of Pennsylvania
Department:Medicine
Laboratory:Arany Lab
Last Name:Marc
First Name:Bornstein
Address:3400 Civic Center Blvd (Smilow 11-187)
Email:marc.bornstein@pennmedicine.upenn.edu
Phone:7742796684

Subject:

Subject ID:SU002921
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL/6
Age Or Age Range:14-15 weeks old
Gender:Male

Factors:

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

mb_sample_id local_sample_id Temperature
SA301752BAT24°C
SA301753neg424°C
SA301754Diaphragm84°C
SA301755posi24°C
SA301756posi-404°C
SA301757BAT44°C
SA301758posi-424°C
SA301759neg404°C
SA301760neg384°C
SA301761BAT124°C
SA301762BAT104°C
SA301763Diaphragm64°C
SA301764neg44°C
SA301765BAT84°C
SA301766BAT64°C
SA301767posi-384°C
SA301768posi84°C
SA301769posi-304°C
SA301770posi-284°C
SA301771posi-264°C
SA301772posi-244°C
SA301773posi104°C
SA301774Diaphragm104°C
SA301775posi-324°C
SA301776posi-364°C
SA301777posi44°C
SA301778neg144°C
SA301779posi-344°C
SA301780posi64°C
SA301781Liver24°C
SA301782neg364°C
SA301783Quad124°C
SA301784neg204°C
SA301785neg264°C
SA301786Quad104°C
SA301787Quad84°C
SA301788Heart124°C
SA301789Heart24°C
SA301790neg244°C
SA301791neg224°C
SA301792Heart84°C
SA301793Heart64°C
SA301794Heart104°C
SA301795Heart44°C
SA301796neg284°C
SA301797Quad64°C
SA301798Liver84°C
SA301799neg184°C
SA301800neg344°C
SA301801Liver64°C
SA301802Liver44°C
SA301803Diaphragm44°C
SA301804Liver104°C
SA301805neg324°C
SA301806neg304°C
SA301807Quad44°C
SA301808Quad24°C
SA301809Diaphragm24°C
SA301810Liver124°C
SA301811posi-224°C
SA301812Diaphragm124°C
SA301813posi324°C
SA301814neg-264°C
SA301815neg-244°C
SA301816neg-224°C
SA301817neg-204°C
SA301818posi344°C
SA301819gWAT104°C
SA301820neg-284°C
SA301821neg-324°C
SA301822posi284°C
SA301823neg84°C
SA301824neg-304°C
SA301825posi304°C
SA301826gWAT124°C
SA301827neg-184°C
SA301828neg-84°C
SA301829posi404°C
SA301830neg-64°C
SA301831posi424°C
SA301832neg-24°C
SA301833neg-44°C
SA301834neg-104°C
SA301835neg24°C
SA301836neg64°C
SA301837posi364°C
SA301838neg-144°C
SA301839posi384°C
SA301840neg-124°C
SA301841gWAT84°C
SA301842neg-344°C
SA301843posi-104°C
SA301844posi184°C
SA301845gWAT44°C
SA301846posi-84°C
SA301847neg-364°C
SA301848posi204°C
SA301849posi-124°C
SA301850posi-144°C
SA301851posi-204°C
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Collection:

Collection ID:CO002914
Collection Summary:Blood was collected from indwelling arterial catheters and centrifuged for 15 minutes at 10,000 x g, followed by plasma collection. Tissues were harvested from euthanized mice and freeze-clamped in liquid nitrogen. All samples were stored at -80°C until processing.
Sample Type:Multiple
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002930
Treatment Summary:Mice were individually housed without food or nestlets for 6 hours at room temperature or 4°C.

Sample Preparation:

Sampleprep ID:SP002927
Sampleprep Summary:For extraction of water-soluble metabolites from plasma samples, 200 µl of methanol was added to 5 µl plasma. This mixture was incubated on ice for 10 minutes, then centrifuged at 17,000g for 10 minutes at 4°C. The supernatant was transferred to an MS vial to run on LCMS. For extraction of hydrophobic metabolites (lipids) from plasma samples, 120 µl of isopropanol kept on dry ice was added to 3 µl plasma. This mixture was vortexed for 10 seconds and kept on dry ice for 10 minutes, then centrifuged at 17,000g for 10 minutes at 4°C. The supernatant was loaded into glass inserts in an MS vial to run on LCMS. For extraction of water-soluble metabolites from tissue samples, frozen tissues were first ground to a powder using a cryomill (Restch, Newtown, PA). Extraction solution kept on ice (40:40:20 methanol:acetonitrile:water) was added to ~10 mg of ground tissue (40 µl solution per mg tissue), vortexed, and kept on ice for 10 minutes, then centrifuged at 17,000g for 10 minutes at 4°C. The supernatant was collected and centrifuged again at the same speed for 10 minutes, and this second supernatant was transferred to an MS vial to run on LCMS.

Combined analysis:

Analysis ID AN004575 AN004576 AN004577 AN004578
Analysis type MS MS MS MS
Chromatography type HILIC HILIC Reversed phase Reversed phase
Chromatography system Thermo Vanquish Thermo Vanquish Thermo Vanquish Thermo Vanquish
Column Waters XBridge BEH Amide (150 x 2.1mm,2.5um) Waters XBridge BEH Amide (150 x 2.1mm,2.5um) Agilent InfinityLab Poroshell 120 EC-C8 (150 x 2.1mm,2.7um) Agilent InfinityLab Poroshell 120 EC-C8 (150 x 2.1mm,2.7um)
MS Type ESI ESI ESI ESI
MS instrument type Orbitrap Orbitrap Orbitrap Orbitrap
MS instrument name Thermo Q Exactive Plus Orbitrap Thermo Q Exactive Plus Orbitrap Thermo Q Exactive Plus Orbitrap Thermo Q Exactive Plus Orbitrap
Ion Mode POSITIVE NEGATIVE POSITIVE NEGATIVE
Units Intensity Intensity Intensity intensity

Chromatography:

Chromatography ID:CH003439
Chromatography Summary:Chromatography for hydrophilic compounds
Instrument Name:Thermo Vanquish
Column Name:Waters XBridge BEH Amide (150 x 2.1mm,2.5um)
Column Temperature:35
Flow Gradient:0 min, 85% B; 2 min, 85% B; 3 min, 80% B; 5 min, 80% B; 6 min, 75% B; 7 min, 75% B; 8 min, 70% B; 9 min, 70% B; 10 min, 50% B; 12 min, 50% B; 13 min, 25% B; 16 min, 25% B; 18 min, 0% B; 23 min, 0% B; 24 min, 85% B; and 30 min, 85% B.
Flow Rate:150 uL/min
Solvent A:95% water/5% acetonitrile; 20 mM ammonium acetate; mM ammonium hydroxide, pH 9.45)
Solvent B:100% acetonitrile
Chromatography Type:HILIC
  
Chromatography ID:CH003440
Chromatography Summary:Chromatography for lipids
Instrument Name:Thermo Vanquish
Column Name:Agilent InfinityLab Poroshell 120 EC-C8 (150 x 2.1mm,2.7um)
Column Temperature:35
Flow Gradient:0 minutes, 25% B; 2 minutes, 25% B; 4 minutes, 65% B; 16 minutes, 100% B; 20 minutes, 100% B; 21 minutes, 25% B; 27 minutes, 25% B
Flow Rate:150 uL/min
Solvent A:90% water/10% methanol; 1mM ammonium acetate ; 0.2% acetic acid
Solvent B:2% methanol/98% isopropano; 1 mM ammonium acetate; 0.2% acetic acid
Chromatography Type:Reversed phase

MS:

MS ID:MS004321
Analysis ID:AN004575
Instrument Name:Thermo Q Exactive Plus Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Processing performed in El-Maven
Ion Mode:POSITIVE
  
MS ID:MS004322
Analysis ID:AN004576
Instrument Name:Thermo Q Exactive Plus Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Processing performed in El-Maven
Ion Mode:NEGATIVE
  
MS ID:MS004323
Analysis ID:AN004577
Instrument Name:Thermo Q Exactive Plus Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Processing performed in El-Maven
Ion Mode:POSITIVE
  
MS ID:MS004324
Analysis ID:AN004578
Instrument Name:Thermo Q Exactive Plus Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:Processing performed in El-Maven
Ion Mode:NEGATIVE
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