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Data Protection Declaration
Imprint
Improvement of next-generation sequencing methods for the detection of zoonotic pathogens (ZooSeq)
Project
Project code: FLI-IVD-08-Ri-0748
Contract period: 01.12.2019
- 01.11.2022
Purpose of research: Experimental development
Keywords: zoonosis, NGS, diagnostic, screening platform
The overall goal of the application is to cross-link projects supported by the „Forschungsnetz Zoonosen“ to reach technological and methodological efforts based on the various experiences existing for the NGS technology. Guiding premise is the cross-sectional character for bacteriology and virology as well as the use of innovative sequencing and analyses approaches, which serve an improvement within the zoonosis network. The application is based on the outcome of an expert workshop. The project serves the establishment of modern and efficient workflows based on the NGS-experienced applicants‘ competence and expertise. Samples or questions from zoonosis projects might be implemented for validation purposes. All zoonosis projects can then use the optimised sequencing options (SOPs, technologies, pipelines) in order to accelerate NGS-based research and diagnostics within the „Forschungsnetz Zoonosen“. The working packages (AP) are closely intermeshed to ensure the flow of information and the comprehension of the mutual interdependences of all steps. Relevant protocols for NGS methods will be compiled, improved, evaluated and actual versions will be regularly made available as SOPs within the network (AP1). In AP2, the processing of FFPE material as a special and important material will be optimised for the NGS-technique. In addition, a universal method for host depletion will be developed to reduce host molecules in the sample, which mask the unknown information of the pathogen. In AP3, a system will be refined that is capable to enrich a multitude of targets (viral and bacterial pathogens) using target enrichment processing to facilitate their analysability. In AP4, methods of the 3rd generation sequencing will be optimised in order to improve the sequencing of long sequencing reads. The bioinformatic analysis of data generated within AP2-AP4 will be adapted and optimised within AP5.
Section overview
Subjects
- Animal health
- Toxicology
