Proximity-ligation metagenomics reveals disease-specific mobilome dynamics in disrupted gut ecosystems
Jasmohan Bajaj1, Andrew Sommer2, Benjamin Auch1,3
1Department of Medicine, Division of Gastroenterology, University of Minnesota, Minneapolis, MN, USA.
Abstract:
Distinct ecological pressures shape accumulation of antimicrobial resistance and virulence genes in the gut microbiome. Using proximity ligation shotgun metagenomics to resolve host-mobilome relationships, we analyzed microbiomes from two patient cohorts: recurrent Clostridioides difficile infection (rCDI) and cirrhosis. While rCDI reflects antibiotic-driven disruption, cirrhosis-driven microbiome changes result from altered gut physiology. We found increased chromosomal determinants of antibiotic resistance in both, but plasmid-mediated amplification was more evident in rCDI.
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