Niche and local geography shape the pangenome of wastewater- and livestock-associated Enterobacteriaceae

Authors: Liam P. Shaw, Kevin Chau, James Kavanagh, Manal AbuOun, Emma Stubberfield, Hyun S. Gweon, Leanne Barker, Gillian Rodger, Michael J. Bowes, Alasdair T. M. Hubbard, Hayleah Pickford, Jeremy Swann, Daniel Gilson, Richard P. Smith, Sarah Hoosdally, Robert Sebra, Howard Brett, Tim Peto, Mark Bailey, Derrick W. Crook, Daniel S. Read, Muna F. Anjum, A. Sarah Walker, Nicole Stoesser - Science Advances 2021 cited by 111

spp.) with 2292 circularized plasmids in total, collected from 19 locations (livestock farms and wastewater treatment works in the United Kingdom) within a 30-km radius at three time points over a year. We find different dynamics for chromosomal and plasmid-borne genes. Plasmids have a higher burden of AMR genes and insertion sequences, and AMR-gene-carrying plasmids show evidence of being under stronger selective pressure. Environmental niche and local geography both play a role in shaping plasmid dynamics. Our results highlight the importance of local strategies for controlling the spread of AMR.