Summary of Study ST002330
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 PR001494. The data can be accessed directly via it's Project DOI: 10.21228/M8MD91 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 | ST002330 |
| Study Title | Early-stage responses to Plasmodiophora brassicae at the metabolome levels in clubroot resistant and susceptible oilseed Brassica napus |
| Study Type | Timecourse experiment |
| Study Summary | A total of 36 samples comprised two types of genotypes [CR (5 individuals pooled in each biological replicate) and CS (5 individuals pooled in each biological replicate)], two treatments (inoculated and uninoculated) and three biological replicates generated from three independent experiments and collected at 1-, 4-, and 7–DPI were used to extract primary and secondary metabolites and analyse the differences among the treatments. |
| Institute | Trent University |
| Department | Biology |
| Laboratory | Emery Lab |
| Last Name | Kisiala |
| First Name | Anna |
| Address | 1600 West Bank Drive, Trent University |
| annakisiala@trentu.ca | |
| Phone | 7057481011 |
| Submit Date | 2022-10-17 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2022-11-16 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Combined analysis:
| Analysis ID | AN003801 | AN003802 | AN003803 |
|---|---|---|---|
| Analysis type | MS | MS | MS |
| Chromatography type | HILIC | HILIC | Reversed phase |
| Chromatography system | Thermo Dionex Ultimate 3000 RS | Thermo Dionex Ultimate 3000 RS | Thermo Dionex Ultimate 3000 RS |
| Column | Agilent InfinityLab Poroshell 120 HILIC-Z (100 x 2.1mm,2.7um) | Agilent InfinityLab Poroshell 120 HILIC-Z (100 x 2.1mm,2.7um) | Phenomonex Kinetex C18 (50 x 2.1mm,2.6um) |
| MS Type | ESI | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE | NEGATIVE | NEGATIVE |
| Units | normalized relative level | normalized relative level | normalized relative level |
Chromatography:
| Chromatography ID: | CH002812 |
| Chromatography Summary: | Primary metabolites were resolved with an InfinityLab Poroshell 120 HILIC-Z column (2.1 × 100 mm, 2.7 µm; Agilent, Santa Clara, CA, US), using a flow rate of 0.2 mL min-1 with a mobile phase of 10 mM ammonium bicarbonate in water (A) and 10 mM ammonium bicarbonate in 95% acetonitrile (B). The following gradient was used to elute the analytes: mobile phase 100% B decreased to 90% over 2.5 min and to 50% over the next 5 min and returned to 100% over 0.5 min for 12 min of column re-equilibration. |
| Instrument Name: | Thermo Dionex Ultimate 3000 RS |
| Column Name: | Agilent InfinityLab Poroshell 120 HILIC-Z (100 x 2.1mm,2.7um) |
| Column Temperature: | RT |
| Flow Rate: | 0.2 ml/min |
| Injection Temperature: | 4 |
| Solvent A: | 100% water; 10 mM ammonium bicarbonate |
| Solvent B: | 95% acetonitrile/5% water; 10 mM ammonium bicarbonate |
| Chromatography Type: | HILIC |
| Chromatography ID: | CH002813 |
| Chromatography Summary: | Glucosinolates were resolved with a Kinetex C18 column (2.1 × 50 mm, 2.6 μm) using a flow rate of 0.3 mL min −1 with a mobile phase of 0.1% formic acid in water (A) and 0.1% formic acid in acetonitrile (B). The following gradient was used to elute the analytes: mobile phase B was held at 0% for 1.25 min before increasing to 50% over 2.75 min and to 100% over the next 0.5 min. Solvent B was then held at 100% for 2 min before returning to 0% over 0.5 min for 4 min of column re-equilibration. |
| Instrument Name: | Thermo Dionex Ultimate 3000 RS |
| Column Name: | Phenomonex Kinetex C18 (50 x 2.1mm,2.6um) |
| Column Temperature: | RT |
| Flow Rate: | 0.3 ml/min |
| Injection Temperature: | 4 |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 100% acetonitrile; 0.1% formic acid |
| Chromatography Type: | Reversed phase |
