Summary of study ST001117

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 PR000748. The data can be accessed directly via it's Project DOI: 10.21228/M80D69 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 IDST001117
Study TitleA Metabolomic study of hibernating Syrian hamster brain: in search of neuroprotective agents
Study TypeMultiplatform non-targeted metabolomics
Study Summaryhamster brain samples, divided in 3 groups: torpor, arousal, control group were compared via metabolomics analysis
Institute
Universidad CEU San Pablo
LaboratoryCEMBIO (Centre for Metabolomics and Bioanalysis)
Last NameGonzalez-Riano
First NameCarolina
AddressFacultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Boadilla del Monte, Madrid, 28668, Spain
Emailcar.gonzalez@ceindo.ceu.es
Phone00 34 91 3724753
Submit Date2018-12-21
Raw Data AvailableYes
Raw Data File Type(s).m, .d
Analysis Type DetailGC/LC-MS
Release Date2019-01-22
Release Version1
Carolina Gonzalez-Riano Carolina Gonzalez-Riano
https://dx.doi.org/10.21228/M80D69
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:


Project:

Project ID:PR000748
Project DOI:doi: 10.21228/M80D69
Project Title:A Metabolomic study of hibernating Syrian hamster brain: in search of neuroprotective agents
Project Summary:hamster brain samples, divided in 3 groups: torpor, arousal, control group were compared via metabolomics analysis
Institute:Universidad CEU San Pablo
Last Name:Gonzalez-Riano
First Name:Carolina
Address:Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Boadilla del Monte, Madrid, 28668, Spain
Email:car.gonzalez@ceindo.ceu.es
Phone:00 34 91 3724753

Subject:

Subject ID:SU001163
Subject Type:Mammal
Subject Species:Mesocricetus Auratus
Taxonomy ID:10036

Factors:

Subject type: Mammal; Subject species: Mesocricetus Auratus (Factor headings shown in green)

mb_sample_id local_sample_id hibernation
SA076217A1arousal
SA076218A11arousal
SA076219A10arousal
SA076220A3arousal
SA076221A6arousal
SA076222C4control
SA076223C5control
SA076224C3control
SA076225C2control
SA076226C1control
SA076227T10torpor
SA076228T11torpor
SA076229T5torpor
SA076230T2torpor
SA076231T4torpor
Showing results 1 to 15 of 15

Collection:

Collection ID:CO001157
Collection Summary:A total of 15 male 3-month-old Syrian hamsters had free access to food and water and were kept at 23C with an 8:16-h light/dark cycle for a four to six-week acclimatization period in our animal facility. All animals were euthanized by decapitation. Brains were then removed and immediately transferred to a N2(l)-containing recipient to freeze the tissues.
Sample Type:Brain

Treatment:

Treatment ID:TR001177
Treatment Summary:the whole right hemisphere (300 mg approx.) was analyzed to decrease possible biological variability due to the brain region employed. Brain homogenate was prepared by adding cold (-20°C) methanol:water (1:1, v/v), (1:10 tissue:solvent). Tissue disruption was achieved with TissueLyser LT homogenizer (Qiagen, Germany) for metabolite extraction. Subsequently, 100 μL of brain tissue homogenate was vortex-mixed with 320 μL of methanol for 2 min, followed by the addition of 80 μL of MTBE for the extraction of non-polar compounds. Then, vials were rapidly capped and placed on a shaker for 1 h at room temperature. The extracted samples were centrifuged at 4000 g for 20 min at 20°C. For GC-MS analysis, 300 μL of supernatant was evaporated to dryness (SpeedVac Concentrator System, Thermo Fisher Scientific, Waltham, MA, USA). Methoxymation was then performed with 20 µL O-methoxyamine hydrochloride (15 mg/mL in pyridine) and vigorously vortex-mixed for 5 min. Vials were then incubated in darkness at room temperature for 16 hours. For silylation, 20 μL of BSTFA:TMCS (99:1) was added, vortex-mixed for 5 min, and capped vials were placed in the oven at 70°C for 1 h. Finally, 100 μL of heptane containing C18:0 methyl ester (10 ppm) as Internal Standard (IS) was added to each vial prior to injection. For LC-MS analysis, 90 μL of supernatant was transferred to an Ultra-High Performance Liquid Chromatography-Mass (UHPLC-MS) chromatography vial with insert and was directly injected into the system. For CE-MS analysis, 200 μL of initial brain homogenate was centrifuged separately at 16000 g for 30 min at 15°C. 150 μL of supernatant was evaporated to dryness using the SpeedVac, and re-suspended in 150 μL of 0.2 mM Methionine Sulfone (IS) in 0.1 M formic acid. Samples were vortex-mixed, sonicated, and then centrifuged at 16000 g for 20 min at 4°C. Finally, 100 μL of supernatant was transferred to a CE-MS vial for the analysis.

Sample Preparation:

Sampleprep ID:SP001170
Sampleprep Summary:the whole right hemisphere (300 mg approx.) was analyzed to decrease possible biological variability due to the brain region employed. Brain homogenate was prepared by adding cold (-20°C) methanol:water (1:1, v/v), (1:10 tissue:solvent). Tissue disruption was achieved with TissueLyser LT homogenizer (Qiagen, Germany) for metabolite extraction. Subsequently, 100 μL of brain tissue homogenate was vortex-mixed with 320 μL of methanol for 2 min, followed by the addition of 80 μL of MTBE for the extraction of non-polar compounds. Then, vials were rapidly capped and placed on a shaker for 1 h at room temperature. The extracted samples were centrifuged at 4000 g for 20 min at 20°C. For GC-MS analysis, 300 μL of supernatant was evaporated to dryness (SpeedVac Concentrator System, Thermo Fisher Scientific, Waltham, MA, USA). Methoxymation was then performed with 20 µL O-methoxyamine hydrochloride (15 mg/mL in pyridine) and vigorously vortex-mixed for 5 min. Vials were then incubated in darkness at room temperature for 16 hours. For silylation, 20 μL of BSTFA:TMCS (99:1) was added, vortex-mixed for 5 min, and capped vials were placed in the oven at 70°C for 1 h. Finally, 100 μL of heptane containing C18:0 methyl ester (10 ppm) as Internal Standard (IS) was added to each vial prior to injection. For LC-MS analysis, 90 μL of supernatant was transferred to an Ultra-High Performance Liquid Chromatography-Mass (UHPLC-MS) chromatography vial with insert and was directly injected into the system. For CE-MS analysis, 200 μL of initial brain homogenate was centrifuged separately at 16000 g for 30 min at 15°C. 150 μL of supernatant was evaporated to dryness using the SpeedVac, and re-suspended in 150 μL of 0.2 mM Methionine Sulfone (IS) in 0.1 M formic acid. Samples were vortex-mixed, sonicated, and then centrifuged at 16000 g for 20 min at 4°C. Finally, 100 μL of supernatant was transferred to a CE-MS vial for the analysis

Combined analysis:

Analysis ID AN001813 AN001814 AN001815 AN001816
Analysis type MS MS MS MS
Chromatography type GC Reversed phase CE Reversed phase
Chromatography system Agilent 7890A Agilent 1290 Infinity Agilent 7100 CE Agilent 1290 Infinity
Column Agilent 122-5532G Agilent Zorbax Eclipse Plus C8 (150 x 2.1mm, 1.8 um) Fused-silica capillary from Agilent Technologies Agilent Zorbax Eclipse Plus C8 (150 x 2.1mm, 1.8 um)
MS Type EI ESI ESI ESI
MS instrument type Single quadrupole QTOF TOF QTOF
MS instrument name Agilent 5975C Agilent 6550 QTOF Agilent 6224 TOF Agilent 6550 QTOF
Ion Mode POSITIVE POSITIVE POSITIVE NEGATIVE
Units peak area peak area peak area peak area

Chromatography:

Chromatography ID:CH001279
Instrument Name:Agilent 7890A
Column Name:Agilent 122-5532G
Chromatography Type:GC
  
Chromatography ID:CH001280
Instrument Name:Agilent 1290 Infinity
Column Name:Agilent Zorbax Eclipse Plus C8 (150 x 2.1mm, 1.8 um)
Chromatography Type:Reversed phase
  
Chromatography ID:CH001281
Instrument Name:Agilent 7100 CE
Column Name:Fused-silica capillary from Agilent Technologies
Chromatography Type:CE
  
Chromatography ID:CH001282
Instrument Name:Agilent 1290 Infinity
Column Name:Agilent Zorbax Eclipse Plus C8 (150 x 2.1mm, 1.8 um)
Chromatography Type:Reversed phase

MS:

MS ID:MS001672
Analysis ID:AN001813
Instrument Name:Agilent 5975C
Instrument Type:Single quadrupole
MS Type:EI
Ion Mode:POSITIVE
  
MS ID:MS001673
Analysis ID:AN001814
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:POSITIVE
  
MS ID:MS001674
Analysis ID:AN001815
Instrument Name:Agilent 6224 TOF
Instrument Type:TOF
MS Type:ESI
Ion Mode:POSITIVE
  
MS ID:MS001675
Analysis ID:AN001816
Instrument Name:Agilent 6550 QTOF
Instrument Type:QTOF
MS Type:ESI
Ion Mode:NEGATIVE
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