Antibiotics have been used for decades in human and veterinary medicine to treat and prevent infections, as well as in animal husbandry. The widespread use, and often misuse, of antibiotics has resulted in the emergence of multi-drug resistant bacteria, with some displaying resistance to even last-resort antibiotics. It is becoming increasingly important to characterize antibiotic-resistant genes (ARGs) in a cost- and time-efficient manner. Here, we characterized the ARGs (i.e., the resistome profiles) present in human stool samples and a bacterial mock community over varying sequence depths. Our results demonstrate that resistome profiles are unique to each individual, and importantly, we show that sequencing depth greatly affects the detection of ARGs at both the gene and class levels.
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