Attenuation of bacterial hazard indicators in the subsurface of an informal settlement and their application in quantitative microbial risk assessment.

Pit latrines provide essential onsite sanitation services to over a billion people, but there are concerns about their role in infectious disease transmission, and impacts on groundwater resources. We conducted fieldwork in an informal settlement in Dar es Salaam, where cholera is endemic. We combined plate counting with portable MinION sequencing and quantitative polymerase chain reaction (qPCR) methods for characterization of bacteria in pit latrine sludge, leachate, shallow and deep groundwater resources.

Chlorination effects on DNA based characterization of water microbiomes and implications for the interpretation of data from disinfected systems.

Quantitative PCR (qPCR) and next generation sequencing (NGS) are nucleic acid based microbiology techniques that provide new insights into drinking water quality, but considerable uncertainty remains around their correct interpretation. We noticed the presence of bacterial DNA from various putative pathogens, including from faecal indicator bacteria (FIB), in disinfected water, when culturable FIB were absent. To understand these observations better we studied the effect of chlorination on conventional and DNA based microbial water quality assessments.

Microbial fuel cells for inexpensive continuous in-situ monitoring of groundwater quality.

Online monitoring of groundwater quality in shallow wells to detect faecal or organic pollution could dramatically improve understanding of health risks in unplanned peri-urban settlements. Microbial fuel cells (MFC) are devices able to generate electricity from the organic matter content in faecal pollution making them suitable as biosensors. In this work, we evaluate the suitability of four microbial fuel cell systems placed in different regions of a groundwater well for the low-cost monitoring of a faecal pollution event.