A5022842593- Metabolomics and Mass Spectrometry Studies
- Microbial Natural Products and Biosynthesis
- Plant Disease Resistance and Genetics
- Isotope Analysis in Ecology
- Advanced Chemical Sensor Technologies
- Plant Pathogens and Fungal Diseases
- Plant-Microbe Interactions and Immunity
- Mycotoxins in Agriculture and Food
- Fungal Biology and Applications
- Microbial Applications in Construction Materials
- Plant nutrient uptake and metabolism
- Traditional Chinese Medicine Analysis
- Computational Drug Discovery Methods
- Peanut Plant Research Studies
- Essential Oils and Antimicrobial Activity
- Coconut Research and Applications
- Wheat and Barley Genetics and Pathology
- Bioinformatics and Genomic Networks
- Ginseng Biological Effects and Applications
- Tea Polyphenols and Effects
- Analytical Chemistry and Chromatography
- Fungal and yeast genetics research
- Toxin Mechanisms and Immunotoxins
- Data Visualization and Analytics
- Microbial Metabolites in Food Biotechnology
BOKU University
2014-2024
AgroBio
2022
Many metabolomics studies use mixtures of (acidified) methanol and water for sample extraction. In the present study, we investigated if extraction with can result in artifacts. To this end, wheat leaves were extracted native deuterium-labeled water, or without 0.1% formic acid. Subsequently, extracts analyzed immediately after storage at 10 °C, −20 °C −80 an HPLC-HESI-QExactive HF-Orbitrap instrument. Our results showed that 88 (8%) >1100 detected compounds derived from reaction either...
The evaluation of extraction protocols for untargeted metabolomics approaches is still difficult. We have applied a novel stable isotope-assisted workflow LC-HRMS-based plant , which allows the first time every detected feature to be considered method evaluation. efficiency and complementarity commonly used solvents, namely 1 + 3 (v/v) mixtures water selected organic solvents (methanol, acetonitrile or methanol/acetonitrile (v/v)), with without addition 0.1% formic acid were compared. Four...
Stable isotope labeling (SIL) techniques have the potential to enhance different aspects of liquid chromatography–high-resolution mass spectrometry (LC-HRMS)-based untargeted metabolomics methods including metabolite detection, annotation unknown metabolites, and comparative quantification. In this work, we present MetExtract II, a software toolbox for detection biologically derived compounds. It exploits SIL-specific patterns elution profiles in LC-HRMS(/MS) data. The consists three...
Contamination of food and feed with toxin-producing fungi is a major threat in agriculture for human health. The filamentous fungus Alternaria alternata one the most widespread postharvest contaminants weak plant pathogen. It produces large variety secondary metabolites alternariol its derivatives as characteristic mycotoxin. Other important phyto- mycotoxins are perylene quinones (PQs), some which have anticancer properties. Here, we discovered that PQ altertoxin (ATX) biosynthesis shares...
Untargeted metabolomics promises comprehensive characterization of small molecules in biological samples. However, the field is hampered by low annotation rates and abstract spectral data. Despite recent advances computational metabolomics, manual annotations confirmation in-silico remain important field. Here, exploratory data analysis methods for mass provide overviews, prioritization, structural hypothesis starting points to researchers facing large quantities In this research, we propose...
An untargeted metabolomics workflow for the detection of metabolites derived from endogenous or exogenous tracer substances is presented. To this end, a recently developed stable isotope-assisted LC–HRMS-based global annotation biological samples has been further and extended. For arising labeled substances, isotope pattern recognition adjusted to account nonlabeled moieties conjugated native molecules. Furthermore, extended by (i) an optional ion intensity ratio check, (ii) automated...
The major Fusarium mycotoxin deoxynivalenol (DON) is a virulence factor in wheat and has also been shown to induce defense responses host plant tissue. In this study, global tracer labeling with 13C were combined annotate the overall metabolome of ears evaluate response phenylalanine related pathways upon treatment DON. At anthesis, resistant susceptible cultivars as well two near isogenic lines (NILs) differing presence/absence resistance QTL Fhb1 infiltrated 1 mg DON or water (control)...
The necrotrophic mycoparasite Trichoderma atroviride is a biological pest control agent frequently applied in agriculture for the protection of plants against fungal phytopathogens. One main secondary metabolites produced by this fungus 6-pentyl-α-pyrone (6-PP). 6-PP an organic compound with antifungal and plant growth-promoting activities, whose biosynthesis was previously proposed to involve lipoxygenase. In study, we investigated role single lipoxygenase-encoding gene lox1 encoded T....
Abstract Motivation Chromatographic peak picking is among the first steps in data processing workflows of raw LC-HRMS datasets untargeted metabolomics applications. Its performance crucial for holistic detection all metabolic features as well their relative quantification statistical analysis and metabolite identification. Random noise, non-baseline separated compounds unspecific background signals complicate this task. Results A machine-learning-based approach entitled PeakBot was developed...
Abstract Climate change is responsible for mild winters and warm springs that can induce premature plant development, increasing the risk of exposure to cold stress with a severe reduction in growth. Tomato plants are sensitive beneficial microorganisms increase their tolerance. However, scarce information available on mechanisms stimulated by bacterial endophytes tomato against stress. This study aimed clarify metabolic changes psychrotolerant endophytic bacteria exposed annotate compounds...
Untargeted approaches and thus biological interpretation of metabolomics results are still hampered by the reliable assignment global metabolome as well classification (putative) identification metabolites. In this work we present an liquid chromatography-mass spectrometry (LC-MS)-based stable isotope assisted approach that combines tracer based labeling for improved characterization (unknown) metabolites their into derived submetabolomes. To end, wheat plants were cultivated in a customized...
Lyophilization is a common method used for stabilizing biological samples prior to storage or concentrate extracts. However, it possible that this process may alter the metabolic composition lead loss of metabolites. In study, performance lyophilization investigated in example wheat roots. To end, native and 13C-labelled, fresh already lyophilized root samples, (diluted) extracts with dilution factors up 32 authentic reference standards were investigated. All analyzed using RP-LC-HRMS....
Abstract Background Stable isotopically labelled organisms have found wide application in life science research including plant physiology, stress and defense as well metabolism related sciences. Therefore, the reproducible production of material enriched with stable isotopes such 13 C 15 N is considerable interest. A high degree enrichment (> 96 atom %) a uniformly distributed isotope (global labelling) accomplished by continuous substrate supply during growth/cultivation. In case...
Trichoderma atroviride (Ascomycota, Sordariomycetes) is a well-known mycoparasite applied for protecting plants against fungal pathogens. Its mycoparasitic activity involves processes shared with plant and human pathogenic fungi such as the production of cell wall degrading enzymes secondary metabolites tightly regulated by environmental cues. In eukaryotes, conserved Target Rapamycin (TOR) kinase serves central regulator cellular growth in response to nutrient availability. Here we describe...
Summary Aegilops tauschii is the diploid progenitor of wheat D subgenome and a valuable resource for breeding, yet, genetic analysis resistance against Fusarium head blight (FHB) major mycotoxin deoxynivalenol (DON) lacking. We treated panel 147 Ae. accessions with either graminearum spores or DON solution recorded associated disease spread toxin‐induced bleaching. A k ‐mer‐based association mapping pipeline dissected basis identified candidate genes. After infiltration nine revealed severe...
Two new species,
Covalent or non-covalent heterogeneous multimerization of molecules associated with extracts from biological samples analyzed via LC-MS are quite difficult to recognize/annotate and therefore the prevalence remains largely unknown. In this study, we utilized 13C labeled unlabeled Pichia pastoris recognize multimers. More specifically, between 0.8% 1.5% biologically-derived features detected in our experiments were confirmed be heteromers, about half which could successfully annotate...
Abstract Co‐culturing the bacterium Streptomyces rapamycinicus and ascomycete Aspergillus nidulans has previously been shown to trigger production of orsellinic acid (ORS) its derivates in fungal cells. Based on these studies it was assumed that direct physical contact is a prerequisite for metabolic reaction involves amino starvation response activating chromatin modifications at biosynthetic gene cluster (BGC). Here we show not contact, but guanidine containing macrolide, named polaramycin...
Due to its unsurpassed sensitivity and selectivity, LC-HRMS is one of the major analytical techniques in metabolomics research. However, limited stability experimental instrument parameters may cause shifts drifts retention time mass accuracy or formation different ion species, thus complicating conclusive interpretation raw data, especially when generated batches. Here, a novel software tool for semi-automated alignment measurement sequences presented. The implemented Java programming...
Stable isotope-assisted approaches can improve untargeted liquid chromatography-high resolution mass spectrometry (LC-HRMS) metabolomics studies. Here, we demonstrate at the example of chemically stressed wheat that metabolome-wide internal standardization by globally 13C-labeled metabolite extract (GLMe-IS) experimental-condition-matched biological samples help to detection treatment-relevant metabolites and aid in post-acquisition assessment putative matrix effects obtained upon different...
Phenylalanine (Phe) is a central precursor for numerous secondary plant metabolites with multitude of biological functions. Recent studies on the fungal disease Fusarium head blight in wheat showed Phe-derived defence to be induced presence pathogen. These also suggest partial incorporation into cell wall. To broaden view metabolome bound Phe derivatives, an existing approach using 13C-labelled as tracer was extended. The developed workflow consists three successive extractions acidified...
In the process of screening for new bioactive microbial metabolites we found a novel ƴ-pyrone derivative which propose trivial name luteapyrone, in recently described microscopic filamentous fungus, Metapochonia lutea BiMM-F96/DF4. The compound was isolated from culture extract fungus grown on modified yeast sucrose medium by means flash chromatography followed preparative HPLC. chemical structure elucidated NMR and LC-MS. to be non-cytotoxic against three mammalian cell lines (HEK 263,...
The plant pathogen Fusarium graminearum is a proficient producer of mycotoxins and other in part still unknown secondary metabolites, some which might act as virulence factors on wheat. PKS15 gene expressed only planta, so far hampering the identification an associated metabolite. Here we combined activation silent clusters by chromatin manipulation (kmt6) with blocking metabolic flow into competing biosynthesis two major deoxynivalenol zearalenone. Using untargeted metabolomics approach,...