SE55:/MS01
From Metabolonote
Sample Set Information
| ID | SE55 |
|---|---|
| Title | AtMetExpress development: a phytochemical atlas of arabidopsis development |
| Description | We analyzed phytochemical accumulation during development of the model plant Arabidopsis (Arabidopsis thaliana) using liquid chromatography-mass spectrometry in samples covering many growth stages and organs. We also obtained tandem mass spectrometry spectral tags of many metabolites as a resource for elucidation of metabolite structure. These are part of the AtMetExpress metabolite accumulation atlas. Based on the dataset, we detected 1,589 metabolite signals from which the structures of 167 metabolites were elucidated. The integrated analyses with transcriptome data demonstrated that Arabidopsis produces various phytochemicals in a highly tissue-specific manner, which often accompanies the expression of key biosynthesis-related genes. We also found that a set of biosynthesis-related genes is coordinately expressed among the tissues. These data suggested that the simple mode of regulation, transcript to metabolite, is an origin of the dynamics and diversity of plant secondary metabolism. |
| Authors | Fumio Matsuda, Masami Yokota Hirai, Eriko Sasaki, Kenji Akiyama, Keiko Yonekura-Sakakibara, Nicholas J. Provart, Tetsuya Sakurai, Yukihisa Shimada, Kazuki Saito |
| Reference | Matsuda F et al. (2010) Plant Physiology 152: 566-578 |
| Comment |
The raw data files are available at DROP Met web site in PRIMe database of RIKEN.
Analytical Method Details Information
| ID | MS01 |
|---|---|
| Title | Metabolic profiling Analysis Using LC-ESI-MS |
| Instrument | Waters Acquity UPLC system and Waters Q-TOF Premier |
| Instrument Type | UPLC-QTOF-MS |
| Ionization | ESI |
| Ion Mode | Negative |
| Description | The frozen tissues were homogenized in five volumes of 80% aqueous methanol containing 0.1% acetic acid, 0.5 mg/L of lidocaine, and d-camphor sulfonic acid (Tokyo Kasei) using a mixer mill (MM 300, Retsch) with a zirconia bead for 6 min at 20 Hz. Following centrifugation at 15,000g for 10 min and filtration (Ultrafree-MC filter, 0.2 mm, Millipore), the sample extracts were applied to an HLB mElution plate (Waters) equilibrated with 80% aqueous methanol containing 0.1% acetic acid.
Metabolome analysis was performed with an LC-ESI-Q-TOF/MS system equipped with an ESI interface (HPLC: Waters Acquity UPLC system; MS: Waters Q-TOF Premier) operated under previously described conditions (Matsuda et al., 2009). In the negative ion mode, the MS conditions were as follows: capillary voltage: +3.0 keV; cone voltage: 22.5 V; source temperature: 120℃; desolvation temperature: 450℃; cone gas flow: 50 L/h; desolvation gas flow: 800 L/h; collision energy: 2 V; detection mode: scan (m/z 100–2,000; dwell time: 0.45 s; interscan delay: 0.05 s, centroid); dynamic range enhancement mode: on. The scans were repeated for 19.5 min in a single run. |
| Comment_of_details |
