Population Diversity of Antibiotic Resistant Enterobacterales in Samples From Wildlife Origin in Senegal: Identification of a Multidrug Resistance Transposon Carrying blaCTX–M–15 in Escherichia coli

Rim Abdallah (1) , Edmond Kuete Yimagou (1) , Linda Hadjadj (1) , Oleg Mediannikov (2, 1) , Ahmad Ibrahim (1) , Bernard Davoust (1, 2) , Amanda Barciela (3) , R. Adriana Hernandez-Aguilar (4, 3) , Georges Diatta (2, 5) , Cheikh Sokhna (2, 5) , Didier Raoult (2, 1) , Jean-Marc Rolain (1, 2) , Sophie Alexandra Baron (1, 2)

1 MEPHI - Microbes évolution phylogénie et infections
2 IHU Marseille - Institut Hospitalier Universitaire Méditerranée Infection
3 University of Barcelona
4 JGIG - The Jane Goodall Institute Global
5 VITROME - Vecteurs - Infections tropicales et méditerranéennes

Introduction The role of wildlife in the transmission of antimicrobial resistant (AMR) is suspected but scarcely reported in current studies. Therefore, we studied the dynamics and prevalence of antibiotic-resistant Enterobacterales in antibiotic-limited areas of Senegal. Materials and Methods We collected fecal samples from monkeys and apes (N = 226) and non-fecal environmental samples (N = 113) from Senegal in 2015 and 2019. We grew the samples on selective media, subsequently isolated AMR Enterobacterales , and then sequenced their genomes. Results We isolated 72 different Enterobacterales among which we obtained a resistance rate of 65% for colistin (N = 47/72) and 29% for third generation-cephalosporin (C3G) (29%, N = 21/72). Interestingly, almost 46% of our isolates, among Enterobacter sp., Citrobacter cronae and Klebsiella aerogenes , belong to 34 new STs. Moreover, the genes bla CTX – M –15 , bla TEM 1 B , sul2 , dfrA14 , qnrs , aph ( 3′′ ), aph ( 6 ), tetA , and tetR harbored within a transposon on the IncY plasmid of ST224 Escherichia coli were transferred and inserted into a ST10 E . coli phage coding region. Conclusion Wildlife constitutes a rich, unexplored reservoir of natural microbial diversity, AMR genes and international resistant clones pathogenic in humans. The presence of a transposon that carries AMR genes is intriguing since no antibiotics are used in the non-human primates we studied.

Mots clés: antibiotic resistance; Enterobacterales; primates; environment; Senegal

Domaines: Bactériologie; Cardiologie et système cardiovasculaire; Maladies émergentes; Maladies infectieuses; Parasitologie; Virologie

Rim Abdallah, Edmond Kuete Yimagou, Linda Hadjadj, Oleg Mediannikov, Ahmad Ibrahim, et al.. Population Diversity of Antibiotic Resistant Enterobacterales in Samples From Wildlife Origin in Senegal: Identification of a Multidrug Resistance Transposon Carrying blaCTX–M–15 in Escherichia coli. Frontiers in Microbiology, 2022, 13, ⟨10.3389/fmicb.2022.838392⟩. ⟨hal-03678929⟩