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.

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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.

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Study IDST001134
Study TitleGC-TOF-MS, Brassica nigra / MeJA + herbivory
Study SummaryGC-TOF-MS, Brassica nigra / MeJA + herbivory
Institute
Umeå Plant Science Centre
DepartmentPlant Physiology
Last NamePapazian
First NameStefano
AddressUmeå University
Emailstefano.papazian@umu.se
Phone0046723160854
Submit Date2019-02-06
Num Groups4
Total Subjects55
Study CommentsMeasurements are chromatographic peak area normalized by internal standard, arbritrary units.
Raw Data AvailableYes
Raw Data File Type(s)cdf
Analysis Type DetailGC-MS
Release Date2019-08-06
Release Version1
Stefano Papazian Stefano Papazian
https://dx.doi.org/10.21228/M8K67W
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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:Brassicacea

Factors:

Subject type: Plant; Subject species: Brassica nigra (Factor headings shown in green)

mb_sample_id local_sample_id Treatments
SA078174C9control
SA078175C10control
SA078176C1control
SA078177C7control
SA078178C8control
SA078179C6control
SA078180C2control
SA078181C4control
SA078182C3control
SA078183C5control
SA078184M7methyl jasmonate
SA078185M8methyl jasmonate
SA078186M10methyl jasmonate
SA078187M6methyl jasmonate
SA078188M9methyl jasmonate
SA078189M1methyl jasmonate
SA078190M5methyl jasmonate
SA078191M2methyl jasmonate
SA078192M3methyl jasmonate
SA078193M4methyl jasmonate
SA078194MP7methyl jasmonate + pieris brassicae herbivory
SA078195MP8methyl jasmonate + pieris brassicae herbivory
SA078196MP6methyl jasmonate + pieris brassicae herbivory
SA078197MP4methyl jasmonate + pieris brassicae herbivory
SA078198MP2methyl jasmonate + pieris brassicae herbivory
SA078199MP3methyl jasmonate + pieris brassicae herbivory
SA078200MP9methyl jasmonate + pieris brassicae herbivory
SA078201MP5methyl jasmonate + pieris brassicae herbivory
SA078202MP12methyl jasmonate + pieris brassicae herbivory
SA078203MP16methyl jasmonate + pieris brassicae herbivory
SA078204MP17methyl jasmonate + pieris brassicae herbivory
SA078205MP1methyl jasmonate + pieris brassicae herbivory
SA078206MP15methyl jasmonate + pieris brassicae herbivory
SA078207MP14methyl jasmonate + pieris brassicae herbivory
SA078208MP11methyl jasmonate + pieris brassicae herbivory
SA078209MP13methyl jasmonate + pieris brassicae herbivory
SA078210MP10methyl jasmonate + pieris brassicae herbivory
SA078211P8pieris brassicae herbivory
SA078212P5pieris brassicae herbivory
SA078213P6pieris brassicae herbivory
SA078214P7pieris brassicae herbivory
SA078215P4pieris brassicae herbivory
SA078216P3pieris brassicae herbivory
SA078217P1pieris brassicae herbivory
SA078218P2pieris brassicae herbivory
SA078219P9pieris brassicae herbivory
SA078220P10pieris brassicae herbivory
SA078221P15pieris brassicae herbivory
SA078222P16pieris brassicae herbivory
SA078223P17pieris brassicae herbivory
SA078224P14pieris brassicae herbivory
SA078225P13pieris brassicae herbivory
SA078226P11pieris brassicae herbivory
SA078227P12pieris brassicae herbivory
SA078228P18pieris 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
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