Global health risks lurking in livestock resistome

This repository contains a catalog of livestock manure ARGs, including latent ARG sequences, and ARG-carrying MAGs. This catalog yield from the manuscript "Global health risks lurking in livestock resistome".

Antibiotic resistance is a serious global health challenge and there is growing consensus that improved environmental surveillance could provide valuable information to inform local, national and international antibiotic resistance stewardship efforts. Livestock farming consumes over 70% of global antibiotics annually, making livestock manures an important vector of anthropogenically-influenced antibiotic resistance genes (ARGs). We used fARGene (v0.1) (48) to predict latent ARGs, which included 22 hmm profiles covering five primary antibiotic classes: beta-lactam, aminoglycoside, macrolide-lincosamide-streptogramin (MLS), quinolone, and tetracycline. ARGs that fall outside these HMM profiles were not included in this study. Additionly, we constructed a total of 123,872 metagenome-assembled genomes (MAGs) from livestock manure metagenomes by using MetaWRAP (v1.3.2).

In the main directory, you can found the sequence data in our study.