A5057359802- Metabolomics and Mass Spectrometry Studies
- Aquatic Ecosystems and Phytoplankton Dynamics
- Algal biology and biofuel production
- Marine and coastal ecosystems
- Analytical Chemistry and Chromatography
- Mass Spectrometry Techniques and Applications
- Cell Image Analysis Techniques
- Biocrusts and Microbial Ecology
- Advanced Chemical Sensor Technologies
- Machine Learning in Bioinformatics
- Aquatic Ecosystems and Biodiversity
- Microbial Community Ecology and Physiology
- Interdisciplinary Research and Collaboration
- Retinoids in leukemia and cellular processes
- Isotope Analysis in Ecology
- Computational Drug Discovery Methods
- Advanced Proteomics Techniques and Applications
- Antioxidant Activity and Oxidative Stress
- Genomics and Phylogenetic Studies
- Lipid metabolism and biosynthesis
- Gut microbiota and health
- Spectroscopy and Chemometric Analyses
Swiss Federal Institute of Aquatic Science and Technology
2020-2024
University of Birmingham
2014-2024
Harmful cyanobacterial blooms, which frequently contain toxic secondary metabolites, are reported in aquatic environments around the world. More than two thousand metabolites have been from diverse sources over past fifty years. A comprehensive, publically-accessible database detailing these would facilitate research into their occurrence, functions and toxicological risks. To address this need we created CyanoMetDB, a highly curated, flat-file, openly-accessible of collated 850...
Abstract Background Bloom-forming cyanobacteria occur globally in aquatic environments. They produce diverse bioactive metabolites, some of which are known to be toxic. The most studied cyanobacterial toxins microcystins, anatoxin, and cylindrospermopsin, yet more than 2000 metabolites have been identified date. Data on the occurrence cyanopeptides other microcystins surface waters sparse. Results We used a high-performance liquid chromatography–high-resolution tandem mass...
Tandem mass spectrometry (MS/MS or MS2) is a widely used approach for structural annotation and identification of metabolites in complex biological samples. The importance assessing the contribution precursor ion within an isolation window MS2 experiments has been previously detailed proteomics, where purity influences quality accuracy matching to spectral libraries, but date, there little attention this data-processing technique metabolomics. Here, we present msPurity, vendor-independent R...
Abstract Cyanobacteria form harmful mass blooms in freshwater and marine environments around the world. A range of secondary metabolites has been identified from cultures cyanobacteria biomass collected cyanobacterial bloom events. comprehensive database is necessary to correctly identify advance research on their abundance, persistence toxicity natural environments. We consolidated open access databases manually curated missing information literature published between 1970 March 2020. The...
Cyanobacterial blooms affect aquatic ecosystems across the globe and one major concern relates to their toxins such as microcystins (MC). Yet, ecotoxicological risks, particularly non-lethal effects, associated with other co-produced secondary metabolites remain mostly unknown. Here, we assessed survival, morphological alterations, swimming behaviour cardiovascular functions of zebrafish (Danio rerio) upon exposure cyanobacterial extracts two Brazilian Microcystis strains. We verified that...
Cyanobacterial blooms require monitoring, as they pose a threat to ecosystems and human health, especially by the release of toxins. Along with widely reported microcystins, cyanobacteria coproduce other bioactive metabolites; however, information about their dynamics in surface waters is sparse. We investigated across full bloom successions throughout five-year lake monitoring campaign (Greifensee, Switzerland) spanning 150 sampling dates. conducted extensive suspect screening...
Background: The annotation or identification of small molecules during metabolomics studies is a difficult task that requires robustness in the process and reporting results methods applied. Critical Assessment Small Molecule Identification (CASMI) contest was designed as medium for researchers to exchange ideas best practices related how annotate structurally identify based on mass spectrometric data. Keywords: Annotation, CASMI, identification, spectrometry, molecules, structure elucidation.
Abstract Lipids play a significant role in regulation of health and disease. To enhance our understanding the lipids lifespan healthspan additional studies are required. Here, UHPLC-MS/MS lipidomics was used to measure dynamic changes lipid composition as function age gender genetically identical male female Daphnia magna with different average lifespans. We demonstrate statistically age-related triglycerides (TG), diglycerides (DG), phosphatidylcholine, phosphatidylethanolamine, ceramide...
Harmful cyanobacterial blooms in freshwater ecosystems produce bioactive secondary metabolites including cyanopeptides that pose ecological and human health risks. Only adverse effects of one class cyanopeptides, microcystins, have been studied extensively consequently included water quality assessments. Inhibition is a commonly observed effect for enzymes exposed to has mostly investigated biologically relevant model enzymes. Here, we the inhibition ubiquitous aquatic by metabolites....
<p>In this paper, we present the results of MitoEM challenge on mitochondria 3D instance segmentation from electron microscopy images, organized in conjunction with IEEE-ISBI 2021 conference. Our benchmark dataset consists two large-scale volumes, one human and rat cortex tissue, which are 3,600 times larger than previously used datasets. At time paper submission, 257 participants had registered for challenge, 14 teams submitted their results, six participated workshop. Here, eight...
<p>In this paper, we present the results of MitoEM challenge on mitochondria 3D instance segmentation from electron microscopy images, organized in conjunction with IEEE-ISBI 2021 conference. Our benchmark dataset consists two large-scale volumes, one human and rat cortex tissue, which are 3,600 times larger than previously used datasets. At time paper submission, 257 participants had registered for challenge, 14 teams submitted their results, six participated workshop. Here, eight...