Summary of Study ST001370
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 PR000936. The data can be accessed directly via it's Project DOI: 10.21228/M8Q114 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 | ST001370 |
| Study Title | Metabolomic profiling of Canadian species of Alternaria |
| Study Summary | This study aims to determine the predominant Alternaria species present in Canadian crops, their subsequent substrate distribution and which secondary metabolites are produced. 131 isolates obtained from the Canadian Collection of Fungal Cultures (CCFC) were grown as three-point inoculations on potato dextrose agar (PDA) and grown in the dark for seven days at 25°C. Each strain was extracted with ethyl acetate containing 1% formic acid, and analyzed by high resolution mass spectrometry (HRMS) in full MS mode in both positive and negative ionization modes at 140K resolution. Data were analyzed using principal component analysis (PCA), and groups were assigned based on k-means clustering analysis. All metabolites detected in the peak lists were investigated for significance (P<0.001) between groups using the Kruskal-Wallace test using Benjamini Hochberg false discovery rate (FDR) correction. |
| Institute | Agriculture and Agri-Food Canada |
| Department | London Research and Development Centre |
| Laboratory | Natural Products Chemistry |
| Last Name | Kelman |
| First Name | Megan |
| Address | 1391 Sandford Street, London, Ontario N5V 4T3, Canada |
| megan.kelman@canada.ca | |
| Phone | 519-953-6722 |
| Submit Date | 2020-04-27 |
| Num Groups | 4 |
| Total Subjects | 128 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2020-06-01 |
| Release Version | 1 |
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Project:
| Project ID: | PR000936 |
| Project DOI: | doi: 10.21228/M8Q114 |
| Project Title: | Chemotaxonomic profiling of Canadian Alternaria populations using high resolution mass spectrometry |
| Project Type: | Alternaria metabolomics |
| Project Summary: | Alternaria spp. occur as plant pathogens worldwide under field and storage conditions. They lead to food spoilage and also produce several classes of secondary metabolites that contaminate the food production chain. From a food safety perspective, the major challenge with assessing the risk of Alternaria contamination is the lack of a clear consensus on their species-level taxonomy. Furthermore, there are currently no reliable DNA sequencing methods to allow for differentiation of the toxigenic potential of these fungi. To address these issues, we performed metabolomic profiling using liquid chromatography high resolution mass spectrometry (LC-HRMS) on 131 Canadian strains of Alternaria to determine their chemotaxonomy. The Alternaria strains were analyzed using principal component analysis (PCA) and unbiased k-means clustering to identify metabolites with significant differences (P < 0.001) between groups. Four populations or ‘chemotypes’ were identified within the strains studied and several known secondary metabolites of Alternaria were identified as distinguishing metabolites. |
| Institute: | Agriculture and Agri-Food Canada |
| Department: | London Research and Development Centre |
| Laboratory: | Natural Products Chemistry |
| Last Name: | Kelman |
| First Name: | Megan |
| Address: | 1391 Sandford Street, London, Ontario N5V 4T3, Canada |
| Email: | megan.kelman@canada.ca |
| Phone: | 519-953-6722 |
| Funding Source: | Agriculture and Agri-Food Canada |
| Contributors: | Megan J. Kelman, Justin B. Renaud, Keith A. Seifert, Jonathan Mack, Ken K.-C. Yeung and Mark W. Sumarah |
