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MB Sample ID: SA297472
Local Sample ID: | 20-0029_170 |
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_170 | SA297472 | FL036053 | 2cm | region |
20-0029_170 | SA297472 | FL036053 | sweet11;12 | 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 |