Towards the Implementation of Next Generation Sequencing in Routine Infectious Disease Diagnostics

Principal Investigator

Prof. Dr. rer. nat.
Prof. Dr. med.

Background and current state of research

Identification of pathogens using next generation sequencing (NGS) could be a very promising method for future diagnostics in the clinic [1]. In the past it has been shown that especially for specific diseases that have limits in standard diagnostics, e.g. neuroleptospirosis, NGS could be an attractive alternative [2]. Also for unknown pathogenes in ,for example, ancient specimen, pathogen DNA could be detected via NGS [3].

[1] Lecuit, Marc, Eloit, Marc. Front Cell Infect Microbiol. 2014; 4: 25.published online 2014 Mar 6.  The diagnosis of infectious diseases by whole genome next generation sequencing: a new era is opening. read more

[2] M. Wilson, s. Naccache, E. Samayoa et.al. The New England journal of medicine 2014 Actionable diagnosis of neuroleptospirosis by next-generation sequencing. read more

[3] A. Devault, K. McLoughlin, C. Jaing et.al. Nature - Scientific reports 2014 Ancient pathogen DNA in archaeological samples detected with a Microbial Detection Array. read more

Our goals

My aim for the thesis is to develop a method to identify specific pathogens in different kinds of human specimen or tissues.
 

How to get there

We will employ a customized enrichment technique and develop a tailored bioinformatic pipeline in this pilot project. In a first step we will concentrate on the most commonly tested pathogens in the University Hospital.