Dickinson, Elizabeth orcid.org/0000-0001-8961-3230, Wilson, Julie Carol orcid.org/0000-0002-5171-8480, Rusilowicz, Martin James et al. (4 more authors) (2018) Integrating transcriptomic techniques and k-means clustering in metabolomics to identify markers of abiotic and biotic stress in Medicago truncatula. Metabolomics. ISSN 1573-3890
Abstract
Introduction Nitrogen-fixing legumes are invaluable crops, but are sensitive to physical and biological stresses. Whilst drought and infection from the soil-borne pathogen Fusarium oxysporum have been studied individually, their combined effects have not been widely investigated. Objectives We aimed to determine the effect of combined stress using methods usually associated with transcriptomics to detect metabolic differences between treatment groups that could not be identified by more traditional means, such as prin- cipal component analysis and partial least squares discriminant analysis. Methods Liquid chromatography-high resolution mass spectrometry data from the root and leaves of model legume Med- icago truncatula were analysed using Gaussian Process 2-Sample Test, k-means cluster analysis and temporal clustering by affinity propagation. Results Metabolic differences were detected: we identified known stress markers, including changes in concentration for sucrose and citric acid, and showed that combined stress can exacerbate the effect of drought. Changes in roots were found to be smaller than those in leaves, but differences due to Fusarium infection were identified. The transfer of sucrose from leaves to roots can be seen in the time series using transcriptomic techniques with the metabolomics time series. Other metabolite concentrations that change as a result of treatment include phosphoric acid, malic acid and tetrahydroxychalcone. Conclusions Probing metabolomic data with transcriptomic tools provides new insights and could help to identify resilient plant varieties, thereby increasing future crop yield and improving food security.
Metadata
Item Type: | Article |
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Authors/Creators: |
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Copyright, Publisher and Additional Information: | © The Author(s) 2018 |
Keywords: | Metabolomics ,Medicago truncatula ,Clustering,Drought ,Biotic stress |
Dates: |
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Institution: | The University of York |
Academic Units: | The University of York > Faculty of Sciences (York) > Mathematics (York) The University of York > Faculty of Sciences (York) > Chemistry (York) |
Depositing User: | Pure (York) |
Date Deposited: | 18 Sep 2018 09:30 |
Last Modified: | 01 Dec 2024 01:12 |
Published Version: | https://doi.org/10.1007/s11306-018-1424-y |
Status: | Published |
Refereed: | Yes |
Identification Number: | 10.1007/s11306-018-1424-y |
Open Archives Initiative ID (OAI ID): | oai:eprints.whiterose.ac.uk:135853 |
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