Population Structure and Antimicrobial Resistance in<i>Campylobacter jejuni</i>and<i>C. coli</i>Isolated from Humans with Diarrhea and from Poultry, East Africa
Nigel French, Kate M. Thomas, Nelson Amani, Jackie Benschop, Godfrey Bigogo, Sarah Cleaveland, Fayaz Ahmed, Ephrasia Hugho, Esron D. Karimuribo, Elizabeth Kasagama, Ruth Maganga, Matayo Melubo, Anne C. Midwinter, Blandina T. Mmbaga, Victor Mosha, Fadhili Mshana, Peninah Munyua, John B. Ochieng, Lynn Rogers, Emmanuel Sindiyo, Emanuel S. Swai, Jennifer R. Verani, Marc‐Alain Widdowson, David A. Wilkinson, Rudovick Kazwala, John A. Crump, Ruth N. Zadoks
Abstract
Campylobacteriosis and antimicrobial resistance (AMR) are global public health concerns. Africa is estimated to have the world's highest incidence of campylobacteriosis and a relatively high prevalence of AMR in Campylobacter spp. from humans and animals. Few studies have compared Campylobacter spp. isolated from humans and poultry in Africa using whole-genome sequencing and antimicrobial susceptibility testing. We explored the population structure and AMR of 178 Campylobacter isolates from East Africa, 81 from patients with diarrhea in Kenya and 97 from 56 poultry samples in Tanzania, collected during 2006-2017. Sequence type diversity was high in both poultry and human isolates, with some sequence types in common. The estimated prevalence of multidrug resistance, defined as resistance to >3 antimicrobial classes, was higher in poultry isolates (40.9%, 95% credible interval 23.6%-59.4%) than in human isolates (2.5%, 95% credible interval 0.3%-6.8%), underlining the importance of antimicrobial stewardship in livestock systems.