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de Ävila R, Carreira Santos S, Siino V, Levander F, Eriksson D, Chawade A, Lindstedt M, Zeller K. Unravelling cocktail effects of complex chemical mixtures using integrated -omics: a case study with agricultural fungicides. Toxicol Lett 2021. [DOI: 10.1016/s0378-4274(21)00787-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Willforss J, Leonova S, Tillander J, Andreasson E, Marttila S, Olsson O, Chawade A, Levander F. Interactive proteogenomic exploration of response to Fusarium head blight in oat varieties with different resistance. J Proteomics 2020; 218:103688. [PMID: 32061841 DOI: 10.1016/j.jprot.2020.103688] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Revised: 02/03/2020] [Accepted: 02/12/2020] [Indexed: 11/17/2022]
Abstract
Fusarium species are cereal pathogens that cause the Fusarium Head Blight (FHB) disease. FHB can reduce yield, cause mycotoxin accumulation in the grain and reduce germination efficiency of the harvested seeds. Understanding the biochemical interactions between the host plants and the pathogen is crucial for controlling the disease and for the development of cultivars with improved tolerance to FHB. Here, we studied morphological and proteomic differences between the susceptible oat variety Belinda and the more resistant variety Argamak using variety-specific transcriptome assemblies as references. Measurements of deoxynivalenol toxin levels confirmed the partial resistance in Argamak and the susceptibility in Belinda. To jointly investigate the proteomics- and sequence data, we developed an RShiny-based interface for interactive exploration of the dataset using univariate and multivariate statistics. When applying this interface to the dataset, quantitative protein differences between Belinda and Argamak were detected, and eighteen peptides were found uniquely in Argamak during infection, among them several lipoxygenases. Such proteins can be developed as markers for Fusarium resistance breeding. In conclusion, this study provides the first proteogenomic insight on molecular Fusarium-oat interactions at both morphological and molecular levels and the data are openly available through an interactive interface for further inspection. SIGNIFICANCE: Fusarium head blight causes widespread damage to crops, and chronic and acute toxicity to human and livestock due to the accumulation of toxins during infection. In the present study, two oat varieties with differing resistance were challenged with Fusarium to understand the disease better, and studied both at morphological and molecular levels, identifying proteins which could play a role in the defense mechanism. Furthermore, a proteogenomics approach allows joint profiling of expression and sequence level differences to identify potentially functionally differing mutations. Here such analysis is made openly available through an interactive interface which allows other scientists to draw further findings from the data. This study may both serve as a basis for understanding oat disease response and developing breeding markers for Fusarium resistant oat and future proteogenomic studies using the interactive approach described.
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Affiliation(s)
- J Willforss
- Department of Immunotechnology, Lund University, Lund, Sweden
| | - S Leonova
- CropTailor AB, c/o Pure and Applied Biochemistry, Department of Chemistry, Lund University, Lund, Sweden
| | - J Tillander
- Department of Immunotechnology, Lund University, Lund, Sweden
| | - E Andreasson
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp, Sweden
| | - S Marttila
- Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp, Sweden
| | - O Olsson
- CropTailor AB, c/o Pure and Applied Biochemistry, Department of Chemistry, Lund University, Lund, Sweden
| | - A Chawade
- Department of Plant Breeding, Swedish University of Agricultural Sciences, Alnarp, Sweden.
| | - F Levander
- Department of Immunotechnology, Lund University, Lund, Sweden; National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Lund University, Sweden.
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Zeller K, Forreryd A, Lindberg T, Albrekt AS, Chawade A, Lindstedt M. The GARD assay expanded – Potency assessment of skin sensitizing chemicals. Toxicol Lett 2016. [DOI: 10.1016/j.toxlet.2016.07.408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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