In-depth molecular analysis of stool and water samples collected in Kampala, Uganda

At a glance

Project leader : Dr. Joël Pothier
Project status : completed
Funding partner : Internal
Project partner : National Water and Severage Corporation, Ministry of Health, Schweizerisches Tropen- und Public Health-Institut, Universität Basel, Spiez Laboratory, Agroscope
Contact person : Joël Pothier

Description

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 to a whole new level by combining the analysis of resistance mechanisms as well as the identification of almost all known pathogens using only one experimental approach.

Publications

Schneeberger, Pierre H. H.; Fuhrimann, Samuel; Becker, Sören L.; Pothier, Joël F.; Duffy, Brion; Beuret, Christian; Frey, Jürg E.; Utzinger, Jürg,

2019.

Qualitative microbiome profiling along a wastewater system in Kampala, Uganda.

Scientific Reports.

9(1), pp. 17334.

Available from: https://doi.org/10.1038/s41598-019-53569-5
Schneeberger, Pierre H.H.; Pothier, Joël F.; Bühlmann, Andreas; Duffy, Brion; Beuret, Christian; Utzinger, Jürg; Frey, Jürg E.,

2017.

Development and evaluation of a bioinformatics approach for designing molecular assays for viral detection.

PLOS ONE.

12(5).

Available from: https://doi.org/10.1371/journal.pone.0178195
Schneeberger, Pierre H.H.; Becker, Sören L.; Pothier, Joël F.; Duffy, Brion; N'Goran, Eliézer K.; Beuret, Christian; Frey, Jürg E.; Utzinger, Jürg,

2016.

Metagenomic diagnostics for the simultaneous detection of multiple pathogens in human stool specimens from Côte d’Ivoire : a proof-of-concept study.

Infection, Genetics and Evolution.

40, pp. 389-397.

Available from: https://doi.org/10.1016/j.meegid.2015.08.044

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