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.
| Study ID | ST001117 |
| Study Title | A Metabolomic study of hibernating Syrian hamster brain: in search of neuroprotective agents |
| Study Type | Multiplatform non-targeted metabolomics |
| Study Summary | hamster brain samples, divided in 3 groups: torpor, arousal, control group were compared via metabolomics analysis |
| Institute | Universidad CEU San Pablo |
| Laboratory | CEMBIO (Centre for Metabolomics and Bioanalysis) |
| 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 |
| car.gonzalez@ceindo.ceu.es | |
| Phone | 00 34 91 3724753 |
| Submit Date | 2018-12-21 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | GC-MS/LC-MS |
| Release Date | 2019-01-22 |
| Release Version | 1 |
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 |
|---|---|---|
| SA076217 | A1 | arousal |
| SA076218 | A11 | arousal |
| SA076219 | A10 | arousal |
| SA076220 | A3 | arousal |
| SA076221 | A6 | arousal |
| SA076222 | C4 | control |
| SA076223 | C5 | control |
| SA076224 | C3 | control |
| SA076225 | C2 | control |
| SA076226 | C1 | control |
| SA076227 | T10 | torpor |
| SA076228 | T11 | torpor |
| SA076229 | T5 | torpor |
| SA076230 | T2 | torpor |
| SA076231 | T4 | torpor |
| 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 23C 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 |
