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MB Sample ID: SA160378
Local Sample ID: | 10cm_3 |
Subject ID: | SU001790 |
Subject Type: | Plant |
Subject Species: | Panax notoginseng |
Taxonomy ID: | 44586 |
Gender: | Not applicable |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU001790 |
Subject Type: | Plant |
Subject Species: | Panax notoginseng |
Taxonomy ID: | 44586 |
Gender: | Not applicable |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
10cm_3 | SA160378 | FL018805 | 10cm | Treatment |
Collection:
Collection ID: | CO001783 |
Collection Summary: | Fresh fibrous root of Panax notoginseng were washed with sterile water and then flash-frozen in liquid N2 |
Sample Type: | Fibrous root |
Treatment:
Treatment ID: | TR001803 |
Treatment Summary: | The experimental design for P. notoginseng cultivation is as follows: Each plastic basin (65×40×18 cm) contains about 40 kg natural soil, which was collected from a pine forest in Xundian Country, Yunnan, China (103.29°E, 25.51°N; altitude of 1960 m), then sieved to remove the residue of plant. The soil had the following characteristics: pH 5.17, electrical conductivity 458 μS cm-1, available potassium (K) 6.90 mg kg-1, available phosphate (P) 5.18 mg kg-1, alkali-hydrolyzable nitrogen (N) 172.38 mg kg-1 and organic matter 47830 mg kg-1. 4, 12, 15, 28, 45 healthy one-year old seedlings were planted in January 3, 2016 at a plant spacing of 30 cm, 20 cm, 15 cm, 10 cm and 8 cm, respectively. There were four repeats for each treatment, and a total of 20 plastic basins were placed in a completely randomized block design in greenhouse. The fresh fibrous root of P. notoginseng was collected in November 30, 2016. |
Sample Preparation:
Sampleprep ID: | SP001796 |
Sampleprep Summary: | Approximately 60 mg of frozen powder fibrous roots and 1 mL of methanol (CH3OH) containing 0.5 mg of ribitol were added into a prechilled 2 mL lock-cap centrifuge tube, then vortexed for 10 s. A 300 μL extraction aliquot (H2O:methanol:chloroform=1:2.5:1, v:v:v) was added and ultrasonically extracted for 30 min at 37°C. Then, the sample was centrifuged (1600 g, 3 min) to separate the polar and nonpolar phases. Then the upper polar phase was transferred to a fresh centrifuge tube and added 200 μL sterile water, and then vortexed and centrifuged (1600 g, 4°C for 3 min). A 250 μL aliquot of the upper phase was transferred to a fresh centrifuge tube, dried for 3-4 h at room temperature using a SpeedVac (Christ, Germany). Adding 80 μL of methoxyamine hydrochloride solution (20 mg mL-1 dissolved in pyridine) to each sample and incubating for 90 min at 30°C to protect carbonyl moieties. And then, 40 μL N-methyl-N-(trimethylsilyl)-trifluoroacetamide (MSTFA) was added and incubating at 37°C for 30 min to trimethylsilylate the acidic protons. After this step, the sample was centrifuged (1600 g, 4°C for 3 min), then the supernatant was stored at 4°C for further analysis. |
Combined analysis:
Analysis ID | AN002788 |
---|---|
Analysis type | MS |
Chromatography type | GC |
Chromatography system | Shimadzu GCMS-QP2010 ultra |
Column | Agilent HP5-MS (30m x 0.25mm, 0.25 um) |
MS Type | EI |
MS instrument type | GC-TOF |
MS instrument name | Shimadzu QP2010 Ultra |
Ion Mode | UNSPECIFIED |
Units | Peak area |
Chromatography:
Chromatography ID: | CH002063 |
Instrument Name: | Shimadzu GCMS-QP2010 ultra |
Column Name: | Agilent HP5-MS (30m x 0.25mm, 0.25 um) |
Chromatography Type: | GC |
MS:
MS ID: | MS002584 |
Analysis ID: | AN002788 |
Instrument Name: | Shimadzu QP2010 Ultra |
Instrument Type: | GC-TOF |
MS Type: | EI |
MS Comments: | Mass spectra were obtained in electron impact (EI) ionization mode at 70 eV by monitoring the full-scan range (m/z 45-600);the raw peak obtained by data baseline filtering and calibration, peak alignment, deconvolution analysis and peak identification using MS-DIAL with the Fiehn library. The peak areas of metabolites in raw MS-Dial output (Supplementary Table S2) were normalization by sum, transformation by log and scaling by Pareto method on Metaboanalyst 4.0 (http://www.metaboanalyst.ca/MetaboAnalyst/) |
Ion Mode: | UNSPECIFIED |