Summary of Study ST002880
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 PR001801. The data can be accessed directly via it's Project DOI: 10.21228/M8X43S 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 | ST002880 |
| Study Title | Hypoxia-driven dynamics of tomato root lipidome |
| Study Summary | A distinct, hypoxia-related lipid composition of Solanum lycopersicum root tissue was observed. Out of 965 lipid species, 33 were exclusively detected in this condition. Among the lipid classes observed, glycerolipids and glycerophospholipids dominated by far (77%). Significantly, the abundance of triacylglycerols increased with hypoxic stress, while sitosterol esters, digalactosyldiacylglycerols, and phosphatidylcholine decreased. Alongside, an increased level of polyunsaturation was observed in the fatty acid chains, with 18:2, 18:3 residues showing a significant increase. Of note, hexadecatetraenoic acid (16:4) was identified in hypoxia condition samples. |
| Institute | Leibniz Institute for Plasma Science and Technology |
| Last Name | Wende |
| First Name | Kristian |
| Address | F.-Hausdorff-Str. 2, D-17489 Greifswald |
| kristian.wende@inp-greifswald.de | |
| Phone | +49 3834 554 3923 |
| Submit Date | 2023-09-15 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-10-16 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Sample Preparation:
| Sampleprep ID: | SP002999 |
| Sampleprep Summary: | Lipids from tomato roots were extracted with a modified procedure adapted from Shiva and colleagues [20]. In brief, 0.1 g of grinded roots (cooled on liquid nitrogen) were added to a glass reaction tube filled with isopropanol supplemented with 0.01 % BHT. The mixture was incubated for 15 min at 75 °C and cooled on ice afterward. To the cooled-down mixture, 0.5 volume of chloroform, 0.2 volume of water and 3 µL of EquiSPLASH Lipidomix were added. Lipids were extracted for 1 h on ice with occasional vortexing in between. Reaction tubes were centrifuged at 5000 x g to induce phase separation, and the organic phase was transferred to another glass reaction tube. To the remaining water phase, 1.33 volumes of a chloroform:methanol mixture (2:1, v/v) supplemented with 0.1 % BHT was added and incubated for 30 min on ice with occasional vortexing. Reaction tubes were again centrifuged at 5000 rpm, and the chloroform phase was transferred to the second glass vial. The chloroform:methanol extraction step was repeated with the remaining water phase 3 times. Afterward, 0.33 volumes of KCl (1 M) were added to the combined lipid extracts and vortexed. The upper water phase was removed, and 0.66 volumes of water were added and vortexed. The upper phase was again removed, and sodium sulfate was added to remove the remaining water. Finally, the lipid extract was dried under constant N2-flow with a TurboVap sample evaporator (Biotage, Sweden) and frozen at -80°C until MS analysis. |
| Processing Storage Conditions: | On ice |
| Extract Storage: | -80℃ |
| Sample Resuspension: | chloroform:methanol:isopropanol (1:2:4 v/v/v, supplemented with 5 mM ammonium formate) |
| Sample Derivatization: | none |
| Sample Spiking: | EquiSPLASH |
