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Schuhmacher, R.

Publications and source records attributed to Schuhmacher, R..

2 recordsLinked to original sources

Fusarium graminearum copper amine-oxidases redundantly increase virulence by converting tryptamine from hydrolyzed plant defense compounds into auxin

Plant pathogenic fungi have evolved different strategies to interfere with plant defense mechanisms. The well described fungal plant pathogen Fusarium graminearum is not only able to produce trichothecene toxins like deoxynivalenol, but also the plant hormone auxin. Highly elevated levels of auxin and auxin derivatives such as IAA-glucoside or IAA amino-acid conjugates were observed in wheat cultivar Apogee infected with F. graminearum. We report that F. graminearum is able to cleave tryptamine-derived hydroxycinnamic acid amides, e.g. the defense compound coumaroyl-tryptamine. In this study we investigated copper amine-oxidases, candidate genes for auxin biosynthesis converting tryptamine into the IAA precursor indole-3-acetyldehyde. After consecutive knock outs of all seven copper amine oxidases the resulting septuple knock out strain had strongly reduced ability to produce auxin. Virulence of the septuple mutant was significantly impaired while DON production in planta was comparable to the wild type. We conclude that F. graminearum, often presumed to be a simple nectrotroph, has a biotrophic phase and is able to employ plant defense compounds by converting them into defense suppressing auxin.

molecular biology↗

CPExtract, a Software for the Automated Tracer-Based Pathway Specific Screening of Secondary Metabolites in LC-HRMS Data

The use of stable isotopically labeled tracers is a long-proven way of specifically detecting and tracking derived metabolites through a metabolic network of interest. While recently developed stable isotope assisted methods and associated, supporting data analysis tools have greatly improved untargeted metabolomics approaches, no software tool is currently available that allows to automatically search LC-HRMS chromatograms for completely free user-definable isotopolog patterns expected for the metabolism of labeled tracer substances. Here we present Custom Pattern Extract (CPExtract), a versatile software tool that allows for the first time the high-through-put search for user-defined isotopolog patterns in LC-HRMS data. The patterns can be specified via a set of rules including the presence or absence of certain isotopologs, their relative intensity ratios as well as chromatographic co-elution. Each isotopolog pattern satisfying the respective rules is verified on a MS-scan level and also in the chromatographic domain. The CPExtract algorithm allows the use of both labeled tracer compounds in non-labeled biological samples as well as a reversed tracer approach, employing non-labeled tracer compounds along with globally labeled biological samples. In a proof of concept study we searched for metabolites specifically arising from the malonate pathway of the filamentous fungi Fusarium graminearum and Trichoderma reesei. 1,2,3-13C3-malonic acid diethyl ester and native malonic acid monomethyl ester were used as tracers. We were able to reliably detect expected fatty acids and known polyketides. In addition, up to 189 and 270 further, unknown metabolites presumably including novel polyketides were detected in the F. graminearum and T. reesei culture samples respectively, all of which exhibited the user-predicted isotopolog patterns originating from the malonate tracer incorporation. The software can be used for every conceivable tracer approach. Furthermore, the rule sets can be easily adapted or extended if necessary. CPExtract is available free of charge for non-commercial use at https://metabolomics-ifa.boku.ac.at/CPExtract.

bioinformatics↗