Enteric_bacteria_in_Nairobi

A four year surveillance study in different parts of Nairobi (Kenya) where enteric diseases are common has been carried out. This surveillence includes both field (clinics, slums) and hospital admissions. Many isolates have been GPS mapped and have excellent metadata (antibiotic resistance, coinfections [parasites etc.]). Both blood and stool culture have been used and over 600 bacterial isolates have been identified. The aim of this project is to conduct whole genome sequencing on these isolates to facilitate phylogenetic and phylogeographical analysis as well as AMR work.