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MB Sample ID: SA297537
| Local Sample ID: | 20-0029_189 |
| Subject ID: | SU002886 |
| Subject Type: | Plant |
| Subject Species: | Arabidopsis thaliana |
| Taxonomy ID: | 3702 |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU002886 |
| Subject Type: | Plant |
| Subject Species: | Arabidopsis thaliana |
| Taxonomy ID: | 3702 |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| 20-0029_189 | SA297537 | FL036067 | whole | region |
| 20-0029_189 | SA297537 | FL036067 | sweet4 | genotype |
Collection:
| Collection ID: | CO002879 |
| Collection Summary: | Approximately 25-35 sterilized A. thaliana seeds were sown in a row on ArtSoil and grown for 3 weeks. After 3 weeks, the roots were measured (2, 4, and 6 cm from the root tip) and harvested by slicing with a scalpel. The roots were rinsed in distilled water, and blotted dry on Whatman filter papers before they were weighed and kept in 1.5 ml microcentrifuge tubes containing 2 metal beads each. The samples were flash frozen in liquid nitrogen and stored in -80°C until the extraction process. |
| Sample Type: | Arabidopsis thaliana |
Treatment:
| Treatment ID: | TR002895 |
| Treatment Summary: | no treatment |
Sample Preparation:
| Sampleprep ID: | SP002892 |
| Sampleprep Summary: | For metabolite extraction, 0.5 mL of chilled extraction buffer (2:5:2 ratio of ddH2O: methanol: chloroform containing 5µM ribitol as internal standard) was added into each root sample and vortex for 20 secs. Metal beads in the tubes were removed. Sample tubes were shaken on a rotary shaker for 30 mins at 4°C. The samples were then centrifuged at 20, 000g for 5 mins at 4°C. After centrifugation, 0.5 ml of supernatant was carefully aspirated and transferred to a clean 1.5 ml microcentrifuge tube. Samples were stored at-80°C. For GC-MS analysis 30µl of sample were dried by vacuum centrifugation in glass inlet tubes. Dried samples were derivatized according to (Gu et al. 2012 DOI:10.1039/c2ib00109h) and measured as described (Shim et al. 2019 DOI:10.3389/fpls.2019.01726) |
Combined analysis:
| Analysis ID | AN004525 | AN004526 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | GC | GC |
| Chromatography system | Agilent 7890B | Agilent 7890B |
| Column | Agilent HP5-MS (30m x 0.25mm, 0.25um) | Agilent HP5-MS (30m x 0.25mm, 0.25um) |
| MS Type | EI | EI |
| MS instrument type | QTOF | Single quadrupole |
| MS instrument name | Agilent 7200 QTOF | Agilent 5977B |
| Ion Mode | POSITIVE | POSITIVE |
| Units | Relative intensity | Relative intensity |
Chromatography:
| Chromatography ID: | CH003399 |
| Chromatography Summary: | Dried samples were derivatized according to (Gu et al. 2012 DOI:10.1039/c2ib00109h) and measured as described (Shim et al. 2019 DOI:10.3389/fpls.2019.01726) |
| Instrument Name: | Agilent 7890B |
| Column Name: | Agilent HP5-MS (30m x 0.25mm, 0.25um) |
| Column Temperature: | 350 |
| Flow Gradient: | N/A for GC |
| Flow Rate: | N/A for GC |
| Solvent A: | N/A for GC |
| Solvent B: | N/A for GC |
| Chromatography Type: | GC |
| Solvent C: | N/A for GC |
MS:
| MS ID: | MS004272 |
| Analysis ID: | AN004525 |
| Instrument Name: | Agilent 7200 QTOF |
| Instrument Type: | QTOF |
| MS Type: | EI |
| MS Comments: | Metabolites were ionized with an electron impact source at 70V and 200 °C source temperature and recorded in a mass range of m/z 60 to m/z 800 at 20 scans per second |
| Ion Mode: | POSITIVE |
| MS ID: | MS004273 |
| Analysis ID: | AN004526 |
| Instrument Name: | Agilent 5977B |
| Instrument Type: | Single quadrupole |
| MS Type: | EI |
| MS Comments: | Metabolites were ionized with an electron impact source at 70V and 200 °C source temperature and recorded in a mass range of m/z 60 to m/z 800 at 20 scans per second |
| Ion Mode: | POSITIVE |
