NMR spectra of oilseed rape (Brassica napus) root exudates
Data files
Data files
Citation and access
Citation and access
Data access level:
Creator/Principal investigator(s):
Research principal:
Principal's reference number:
- SLU.molsci.2023.IÄ.4.4-13
Data contains personal data:
No
Citation:
Language:
Method and outcome
Method and outcome
Time period(s) investigated:
Data format/data structure:
Species and taxons:
Data collection - Laboratory experiment
Data collection - Laboratory experiment
Mode of collection:
Laboratory experiment
Description of the mode of collection:
Surface sterilised oilseed rape seeds were germinated 3-5 days on petri dishes containing 0.5× Murashige-Skoog medium (including vitamins) and 0.6% bacto agar. Plantlets (n = 8) were then transferred to 50 ml plastic tubes filled with autoclaved MilliQ water, so that the seedling roots were immersed into the water (see photo). Root exudates were then collected for four days after which they were freeze dried. Blank samples did not contain any seedlings but were otherwise treated the same. Lyophilised root exudate samples were dissolved in a few millilitres of MilliQ water, transferred to 15 ml plastic tubes, and dried in a vacuum centrifuge. NMR samples were prepared by adding 750 μl KH2PO4 buffer in D2O (45 mM, pD 7.0 (apparent pH 6.6)+DSS-d6 to each sample. The samples were then centrifuged for 10 min at 17000xg. For each sample, 600 µl supernatant was added to a 5 mm NMR tube. NMR experiments: - 1D-1H-NOESY, (1H,1H)-TOCSY, (1H,13C)-HSQC, CPMG, and 1D-diffusion NMR spectra were recorded of intact root exudates. - 1D-1H spectra of a sample treated with ultrafiltration and solid phase extraction (SPE), respectively. - 1D-1H spectra from a spike-in experiment where different concentrations of five metabolites were added to a pooled root exudate sample as well as a blank sample.
Time period(s) for data collection:
2021-03 - 2022-05
Data collector:
- Swedish University of Agricultural Sciences
Source of the data:
- Biological samples
Instrument
Instrument
Name:
NMR spectrometer
Description of the instrument:
Bruker Avance III 600 MHz spectrometer (5 mm 1H/13C/15N/31P inverse detection cryoprobe equipped with a z gradient) connected to Topspin version 3.5
Administrative information
Administrative information
Responsible department/unit:
Department of Molecular Sciences
Contributor(s):
- Anders Broberg - Swedish University of Agricultural Sciences - Department of Molecular Sciences
- Gustav Nestor - Swedish University of Agricultural Sciences - Department of Molecular Sciences
- Johan Meijer - Swedish University of Agricultural Sciences - Department of Plant Biology
- Corine Sandström - Swedish University of Agricultural Sciences - Department of Molecular Sciences
