Summary of Study ST003076

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 PR001916. The data can be accessed directly via it's Project DOI: 10.21228/M82B0Z This work is supported by NIH grant, U2C- DK119886.

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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 IDST003076
Study TitleData-dependent and -independent acquisition lipidomics analysis reveals the tissue-dependent effect of metformin on lipid metabolism
Study SummaryFree fatty acids and polar metabolite analysis were conducted on six mouse tissues and plasma using HILIC chromatography coupled to a Q Exactive Plus mass spectrometer. This enabled a comprehensive assessment of fatty acid and metabolic changes induced by metformin across various tissues.
Institute
North Carolina State University
Last NameLiu
First NameXiaojing
Address128 Polk Hall, 120 W Broughton Dr.
Emailxliu68@ncsu.edu
Phone919.515.4387
Submit Date2024-02-07
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailLC-MS
Release Date2024-03-01
Release Version1
Xiaojing Liu Xiaojing Liu
https://dx.doi.org/10.21228/M82B0Z
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001916
Project DOI:doi: 10.21228/M82B0Z
Project Title:Data-dependent and -independent acquisition lipidomics analysis reveals the tissue-dependent effect of metformin on lipid metabolism
Project Summary:Free fatty acids and polar metabolite analysis were conducted on six mouse tissues and plasma using HILIC chromatography coupled to a Q Exactive Plus mass spectrometer. This enabled a comprehensive assessment of fatty acid and metabolic changes induced by metformin across various tissues.
Institute:North Carolina State University
Last Name:Liu
First Name:Xiaojing
Address:128 Polk Hall, 120 W Broughton Dr.
Email:xliu68@ncsu.edu
Phone:919.515.4387

Subject:

Subject ID:SU003191
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL/6
Gender:Male

Factors:

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

mb_sample_id local_sample_id Treatment
SA332462Intestine_494metformin
SA332463Intestine_501metformin
SA332464Intestine_503metformin
SA332465Heart_505metformin
SA332466Intestine_502metformin
SA332467Heart_503metformin
SA332468Liver_505metformin
SA332469Heart_494metformin
SA332470Heart_502metformin
SA332471Intestine_504metformin
SA332472Heart_504metformin
SA332473Kidney_501metformin
SA332474Adipose_502metformin
SA332475Adipose_503metformin
SA332476Adipose_504metformin
SA332477Adipose_505metformin
SA332478Adipose_501metformin
SA332479Kidney_505metformin
SA332480Liver_504metformin
SA332481Kidney_502metformin
SA332482Kidney_503metformin
SA332483Kidney_504metformin
SA332484Intestine_505metformin
SA332485Heart_501metformin
SA332486Muscle_501metformin
SA332487Liver_503metformin
SA332488Muscle_502metformin
SA332489Muscle_503metformin
SA332490Muscle_505metformin
SA332491P13metformin
SA332492P12metformin
SA332493P11metformin
SA332494Liver_502metformin
SA332495Muscle_504metformin
SA332496P14metformin
SA332497Liver_501metformin
SA332498P10metformin
SA332499Muscle_491water
SA332500Muscle_492water
SA332501Adipose_492water
SA332502P3water
SA332503P2water
SA332504P4water
SA332505Adipose_494water
SA332506Muscle_493water
SA332507Adipose_493water
SA332508Adipose_491water
SA332509Muscle_494water
SA332510Liver_494water
SA332511Liver_493water
SA332512P1water
SA332513Heart_493water
SA332514Heart_491water
SA332515Heart_492water
SA332516Liver_492water
SA332517Liver_491water
SA332518Kidney_492water
SA332519Kidney_493water
SA332520Kidney_491water
SA332521Intestine_493water
SA332522Intestine_491water
SA332523Intestine_492water
SA332524Kidney_494water
Showing results 1 to 63 of 63

Collection:

Collection ID:CO003184
Collection Summary:C57BL/6 mice were housed North Carolina State University Biological Resources Facility with ad libitum access to food (Laboratory Rodent Diet 5001) and water on a 12-hour light/dark cycle. At the age of 8 weeks, mice were administrated metformin in their drinking water (1mg/ml) for 12 days. Before tissue and blood collection, mice were fasted for 5 hours (6am-11am). Mice were then anesthetized with isoflurane and sacrificed via cervical dislocation. Blood was collected into tubes containing EDTA anticoagulant via cardiac puncture. Plasma was obtained by centrifugation of whole blood at 1,500 g for 10 min at 4 °C and stored at -80 °C freezer. Tissues were immediately snap-frozen in liquid nitrogen, except that small intestines were rinsed with PBS and then the jejunum portion was stored in -80 °C freezer until further analysis.
Sample Type:plasma, adipose, liver, muscle, heart, kidney, intestine, adipose

Treatment:

Treatment ID:TR003200
Treatment Summary:C57BL/6 mice were housed North Carolina State University Biological Resources Facility with ad libitum access to food (Laboratory Rodent Diet 5001) and water on a 12-hour light/dark cycle. At the age of 8 weeks, mice were administrated metformin in their drinking water (1mg/ml) for 12 days.

Sample Preparation:

Sampleprep ID:SP003197
Sampleprep Summary:All tissue sample was first homogenized in liquid nitrogen and then 10-20 mg tissues were weighed into a new 1.7 ml Eppendorf tube. Ice cold extraction solvent (400 l 80% methanol/water) and 10 l metformin-d6 (50 ng/l in water) was added to each sample. Geno/Grinder homogenizer was used (1500 rpm, 1 to 2 min) to further break down the tissue chunk and form an even suspension. 200 ul supernatant containing polar metabolites was removed after centrifugation at 20,000 g at 4 °C for 10 min and transferred to LC vial for polar metabolite analysis using LC-HRMS. To extract metabolites and lipids from mouse plasma, 10 l plasma was mixed with 10 l water containing internal standards (50 ng/l metformin-d6, 5 mM [U-13C]-glucose and [U-13C]-lactate, and 80 l ice cold methanol was added. After vortex for 1 min, the mixture was centrifuged with a speed of 20,000 g at 4 °C for 10 min, and 20 l was transferred directly to LC vial without solvent evaporation, followed by LC-HRMS analysis (injection volume, 3 l) of polar metabolites such as glucose and metformin.

Combined analysis:

Analysis ID AN005034
Analysis type MS
Chromatography type HILIC
Chromatography system Thermo Dionex Ultimate 3000
Column Waters Xbridge Amide (100 × 2.1 mm, 3.5 um)
MS Type ESI
MS instrument type Orbitrap
MS instrument name Thermo Q Exactive Plus Orbitrap
Ion Mode UNSPECIFIED
Units arbitrary unit

Chromatography:

Chromatography ID:CH003805
Chromatography Summary:A hydrophilic interaction chromatography method (HILIC) with an Xbridge amide column (100 x 2.1 mm i.d., 3.5 m; Waters) was used for compound separation at 25 °C. Mobile phase A: water with 5 mM ammonium acetate (pH 6.8), and mobile phase B: 100% acetonitrile. Linear gradient is: 0 min, 85% B; 1.5 min, 85% B; 5.5 min, 35% B; 6.9 min, 35% B; 10.5 min, 35% B; 10.6 min, 10% B; 12.5 min, 10% B; 13.5 min, 85% B; 17.9 min, 85% B; 18 min, 85% B; 20 min, 85% B. For Ultimate 3000 UHPLC, the flow rate is: 0-5.5 min, 0.15 ml/min; 6.9-10.5 min, 0.17 ml/min; 10.6-17.9 min, 0.3 ml/min; 18-20 min, 0.15 ml/min.
Instrument Name:Thermo Dionex Ultimate 3000
Column Name:Waters Xbridge Amide (100 × 2.1 mm, 3.5 um)
Column Temperature:25 °C
Flow Gradient:Linear gradient is: 0 min, 85% B; 1.5 min, 85% B; 5.5 min, 35% B; 6.9 min, 35% B; 10.5 min, 35% B; 10.6 min, 10% B; 12.5 min, 10% B; 13.5 min, 85% B; 17.9 min, 85% B; 18 min, 85% B; 20 min, 85% B.
Flow Rate:0.15 ml/min
Solvent A:100% water; 5 mM ammonium acetate
Solvent B:100% acetonitrile
Chromatography Type:HILIC

MS:

MS ID:MS004773
Analysis ID:AN005034
Instrument Name:Thermo Q Exactive Plus Orbitrap
Instrument Type:Orbitrap
MS Type:ESI
MS Comments:When Q Exactive Plus mass spectrometer was used, the relevant parameters are as listed: heater temperature, 120 °C; sheath gas, 30; auxiliary gas, 10; sweep gas, 3; spray voltage, 3.6 kV for positive mode and 2.5 kV for negative mode; capillary temperature, 320°C; S-lens, 55. The resolution was set at 70,000 (at m/z 200). Maximum injection time (max IT) was set at 200 ms and automatic gain control (AGC) was set at 3 × 106. FA species were detected using amide column and the identification was based on MS1 and the retention time determined by standard compounds when available. Integrated peak area of analytes was used to calculate the fold change of analytes in different samples. Metabolite and free fatty acid analysis was performed using Sieve (Thermo Fisher Scientific) based on theoretical m/z and retention time determined based on standard compounds.
Ion Mode:UNSPECIFIED
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