Summary of Study ST001134
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 PR000759. The data can be accessed directly via it's Project DOI: 10.21228/M8K67W 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 | ST001134 |
Study Title | GC-TOF-MS, Brassica nigra / MeJA + herbivory |
Study Summary | GC-TOF-MS, Brassica nigra / MeJA + herbivory |
Institute | Umeå Plant Science Centre |
Department | Plant Physiology |
Last Name | Papazian |
First Name | Stefano |
Address | Umeå University |
stefano.papazian@umu.se | |
Phone | 0046723160854 |
Submit Date | 2019-02-06 |
Num Groups | 4 |
Total Subjects | 55 |
Study Comments | Measurements are chromatographic peak area normalized by internal standard, arbritrary units. |
Raw Data Available | Yes |
Raw Data File Type(s) | cdf |
Analysis Type Detail | GC-MS |
Release Date | 2019-08-06 |
Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
Project ID: | PR000759 |
Project DOI: | doi: 10.21228/M8K67W |
Project Title: | GC-MS dataset: Leaf metabolic signatures induced by real and simulated herbivory in black mustard (Brassica nigra) |
Project Type: | Plant metabolomics |
Project Summary: | Introduction: Methyl jasmonate (MeJA) is an oxylipin hormone active in plant response signalling and defence against herbivory. Although MeJA is applied experimentally to mimic herbivory and induce plant defences, its downstream effects on the plant metabolome are yet largely uncharacterized, especially in the context of plant primary growth and the tissue-specificity of the response. Objectives: We investigated the growth and defence metabolome responses and resistance properties induced by MeJA and real caterpillar herbivory across different leaf stages of the wild annual plant Brassica nigra. Methods: MeJA- and mock-sprayed plants were consecutively treated with or without caterpillars. Foliar cell-bound compounds and herbivore-induced plant volatiles (HIPVs) were analysed combining gas chromatography (GC) and liquid chromatography (LC) time-of-flight mass-spectrometry (TOF/MS). Additionally, gene transcript analyses were performed in Arabidopsis. Results: Plant responses were stronger in young leaves which simultaneously induced higher chlorophyll levels. Both MeJA and caterpillars induced similar, but not identical, accumulation of tricarboxylic acids (TCAs), glucosinolates (GSLs) and phenylpropanoids (PPs), but only caterpillars led to depletion in amino acids. Caterpillars gained less weight when feeding on MeJA-treated plants, indicative of reduced host-plant quality and enhanced resistance. MeJA also caused a three-fold increase in the major defence compound allyl-GSL (sinigrin) upon caterpillar feeding, but did not alter HIPV profiles. Conclusions: The metabolomics approach showed how plant responses induced by real and simulated herbivory extend beyond the regulation of defence metabolism and are tightly modulated throughout leaf development. This leads to a new understanding of the plant metabolic potential that can be further exploited for future plant protection strategies. |
Institute: | Umeå Plant Science Centre |
Last Name: | Papazian |
First Name: | Stefano |
Address: | Umeå University |
Email: | stefano.papazian@umu.se |
Phone: | 0046723160854 |
Subject:
Subject ID: | SU001195 |
Subject Type: | Plant |
Subject Species: | Brassica nigra |
Taxonomy ID: | 3710 |
Age Or Age Range: | 4 weeks old |
Height Or Height Range: | 15-20 cm |
Species Group: | Plants |
Factors:
Subject type: Plant; Subject species: Brassica nigra (Factor headings shown in green)
mb_sample_id | local_sample_id | Treatments |
---|---|---|
SA078174 | C9 | control |
SA078175 | C10 | control |
SA078176 | C1 | control |
SA078177 | C7 | control |
SA078178 | C8 | control |
SA078179 | C6 | control |
SA078180 | C2 | control |
SA078181 | C4 | control |
SA078182 | C3 | control |
SA078183 | C5 | control |
SA078184 | M7 | methyl jasmonate |
SA078185 | M8 | methyl jasmonate |
SA078186 | M10 | methyl jasmonate |
SA078187 | M6 | methyl jasmonate |
SA078188 | M9 | methyl jasmonate |
SA078189 | M1 | methyl jasmonate |
SA078190 | M5 | methyl jasmonate |
SA078191 | M2 | methyl jasmonate |
SA078192 | M3 | methyl jasmonate |
SA078193 | M4 | methyl jasmonate |
SA078194 | MP7 | methyl jasmonate + pieris brassicae herbivory |
SA078195 | MP8 | methyl jasmonate + pieris brassicae herbivory |
SA078196 | MP6 | methyl jasmonate + pieris brassicae herbivory |
SA078197 | MP4 | methyl jasmonate + pieris brassicae herbivory |
SA078198 | MP2 | methyl jasmonate + pieris brassicae herbivory |
SA078199 | MP3 | methyl jasmonate + pieris brassicae herbivory |
SA078200 | MP9 | methyl jasmonate + pieris brassicae herbivory |
SA078201 | MP5 | methyl jasmonate + pieris brassicae herbivory |
SA078202 | MP12 | methyl jasmonate + pieris brassicae herbivory |
SA078203 | MP16 | methyl jasmonate + pieris brassicae herbivory |
SA078204 | MP17 | methyl jasmonate + pieris brassicae herbivory |
SA078205 | MP1 | methyl jasmonate + pieris brassicae herbivory |
SA078206 | MP15 | methyl jasmonate + pieris brassicae herbivory |
SA078207 | MP14 | methyl jasmonate + pieris brassicae herbivory |
SA078208 | MP11 | methyl jasmonate + pieris brassicae herbivory |
SA078209 | MP13 | methyl jasmonate + pieris brassicae herbivory |
SA078210 | MP10 | methyl jasmonate + pieris brassicae herbivory |
SA078211 | P8 | pieris brassicae herbivory |
SA078212 | P5 | pieris brassicae herbivory |
SA078213 | P6 | pieris brassicae herbivory |
SA078214 | P7 | pieris brassicae herbivory |
SA078215 | P4 | pieris brassicae herbivory |
SA078216 | P3 | pieris brassicae herbivory |
SA078217 | P1 | pieris brassicae herbivory |
SA078218 | P2 | pieris brassicae herbivory |
SA078219 | P9 | pieris brassicae herbivory |
SA078220 | P10 | pieris brassicae herbivory |
SA078221 | P15 | pieris brassicae herbivory |
SA078222 | P16 | pieris brassicae herbivory |
SA078223 | P17 | pieris brassicae herbivory |
SA078224 | P14 | pieris brassicae herbivory |
SA078225 | P13 | pieris brassicae herbivory |
SA078226 | P11 | pieris brassicae herbivory |
SA078227 | P12 | pieris brassicae herbivory |
SA078228 | P18 | pieris brassicae herbivory |
Showing results 1 to 55 of 55 |
Collection:
Collection ID: | CO001189 |
Collection Summary: | Leaf samples were harvested by cutting the petiole with scissors, wrapping the leaves in aluminium foil labelled with the plant's ID and leaf position, and immediately flash-freezing them in liquid nitrogen. Samples were then stored at -80°C until being further prepared for metabolic analysis. |
Sample Type: | Plant |
Collection Location: | greenhouse |
Collection Duration: | 1 hour |
Storage Conditions: | -80℃ |
Treatment:
Treatment ID: | TR001210 |
Treatment Summary: | Two types of treatment were used separately and in sequence: simulated herbivory with use of the phytohormone MeJA (M); real herbivory by P. brassicae caterpillars (P); and combined treatment (MP) where caterpillars were introduced to feed on (M)-plants for five days, after three days of MeJA pre-treatment. MeJA (Sigma-Aldrich, CAS Number 39924-52-2) was applied to the whole plant by spraying 5 mL (1mM, diluted in MilliQ water). First instar caterpillars (15 individuals per plant) were placed on the first fully expanded leaf (L4) of experimental plant and left to feed freely for five days. |
Plant Light Period: | 16:8 hours light: dark cycle |
Plant Humidity: | 50-70% RH |
Plant Temp: | 20-22 °C |
Plant Growth Stage: | vegetative (4 weeks) |
Sample Preparation:
Sampleprep ID: | SP001203 |
Sampleprep Summary: | Each sample (10-12 mg) was extracted in 1 ml of cold chloroform:methanol:H2O (20:60:20 v/v), including 7.5 ng/µl of the isotope-labelled internal standard, SA-D4. Extracts were agitated with a 3 mm tungsten carbide bead for 3 min and centrifuged at 20,800 × g for 10 min at 4°C. The supernatant (200 μl) was dried and processed for GC/MS analyses |
Processing Storage Conditions: | On ice |
Extract Storage: | -80℃ |
Sample Derivatization: | Dry extracts were derivatized with methoxyamine and MSTFA |
Combined analysis:
Analysis ID | AN001859 |
---|---|
Analysis type | MS |
Chromatography type | GC |
Chromatography system | Agilent 6890 |
Column | DB5-MS |
MS Type | EI |
MS instrument type | GC-TOF |
MS instrument name | Agilent 6890 |
Ion Mode | POSITIVE |
Units | Normalized peak area |
Chromatography:
Chromatography ID: | CH001346 |
Chromatography Summary: | Samples were analysed by GC-TOF-MS (on an Agilent 6890 gas chromatograph equipped with a 10 m x 0.18 mm silica capillary column with a 0.18 µm DB 5-MS UI stationary phase, J&W Scientific; connected to a LECO Pegasus III TOF-MS) operated using the LECO ChromaTOF® software package (Leco Corp., St Joseph, MI, USA). Retention indices (RIs) were calculated relative to those of a C8-C40 alkane series. Deconvolution, feature extraction and peak integration were performed using a Matlab® script developed in-house. Identification was achieved by comparing compounds' RIs and mass spectra to the SMC in-house mass spectra library and to the public Golm Metabolome Database developed by the Max Planck Institute (GMD-MPI; http://gmd.mpimp-golm.mpg.de). Samples were normalized with respect to the peak areas of the internal standards (methyl stearate and SA-D4). |
Instrument Name: | Agilent 6890 |
Column Name: | DB5-MS |
Flow Rate: | 1mL/min |
Injection Temperature: | 270°C |
Internal Standard: | salicylic acid |
Internal Standard Mt: | stearic acid |
Capillary Voltage: | 70-eV |
Oven Temperature: | 70°C to 320°C (40 °C /min) |
Running Voltage: | detector voltage 1,700V. |
Transferline Temperature: | 250°C |
Chromatography Type: | GC |
MS:
MS ID: | MS001719 |
Analysis ID: | AN001859 |
Instrument Name: | Agilent 6890 |
Instrument Type: | GC-TOF |
MS Type: | EI |
MS Comments: | Samples were analysed by GC-TOF-MS (on an Agilent 6890 gas chromatograph equipped with a 10 m x 0.18 mm silica capillary column with a 0.18 µm DB 5-MS UI stationary phase, J&W Scientific; connected to a LECO Pegasus III TOF-MS) operated using the LECO ChromaTOF® software package (Leco Corp., St Joseph, MI, USA). Retention indices (RIs) were calculated relative to those of a C8-C40 alkane series. Deconvolution, feature extraction and peak integration were performed using a Matlab® script developed in-house. Identification was achieved by comparing compounds' RIs and mass spectra to the SMC in-house mass spectra library and to the public Golm Metabolome Database developed by the Max Planck Institute (GMD-MPI; http://gmd.mpimp-golm.mpg.de). Samples were normalized with respect to the peak areas of the internal standards (methyl stearate and SA-D4). |
Ion Mode: | POSITIVE |