Projects of the Environmental Genomics and Systems Biology Research Group
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DROPSA – Strategies to develop effective, innovative and practical approaches to protect major European fruit crops from pests and pathogens
The DROPSA consortium will create new knowledge and understanding of the damage and losses of fruit crops resulting from pests and pathogens, with a specific focus on the new and emerging threats due to Drosophila suzukii and quarantine pathogens Pseudomonas syringae, Xanthomonas fragariae and X. arboricola. The ...
High-throughput proteomics of Thiodictyon synthrophicum strain Cad16T
Our goal is to elucidate the proteome of Thiodictyon synthrophicum, a purpur sulphur Gram-negative bacterium, by a shotgun/bottom-up nanoUHPLC-MS/MS approach to better understand its role in the Cadagno Lake ecosystem.
Genomics and transcriptomics of Erwinia and Pantoea
We study the diversity, plasmid diversity and functionality, and evolution of the invasive bacterial pathogen Erwinia amylovora, cause of fire blight disease, and all related Erwinia species. Additionally, we investigate the biocontrol bacteria Pantoea agglomerans and Pantoea vagans using genomics and ...
Comparative genomics of the plant pathogen Xanthomonas arboricola pv. pruni and related xanthomonads
Xanthomonas arboricola pv. pruni (Xap) causes bacterial spot and canker on a wide range of Prunus spp. (e.g., apricot, peach, plum, al-mond, cherry). Outbreaks on stone fruits can result in severe economic losses to fruit quality and yield, branch/tree dieback, and orchard devastation. Xap is endemic in the USA, NZ ...
In-depth molecular analysis of stool and water samples collected in Kampala, Uganda
A novel approach, combining next-generation sequencing and comparison to custom databases is being tested to assess the impact of wastewater use in agriculture in the city of Kampala, Uganda. The overarching goal of this project is to bring epidemiological studies, classically targeting only one or a few pathogens ...
MALDI-TOF MS for microorganism identification: from pattern recognition towards marker based approaches
In collaboration with Mabritec AG, we have developed a database of an unprecedented nature, the PAPMID (putative assigned protein masses for identification database). Based on over 12,000 sequences of bacterial genomes, it contains the molecular masses of the ribosomal proteins of these microorganisms and this ...
Development of a pathogen screening system for all globally relevant turf grass diseases
The objective is the development of a near real-time pathogen screening system for all globally relevant turf grass diseases using PCR-ELISA technology against a prepared array of disease specific oligonucleotide probes.