The gut microbiome of the healthy population in Kolkata, India, is a reservoir of antimicrobial resistance genes emphasizing the need of enforcing antimicrobial stewardship

• Published in: FEMS microbiology letters 2023-01, Vol.370
• Main Authors: De, Rituparna, Kanungo, Suman, Mukhopadhyay, Asish Kumar, Dutta, Shanta
• Format: Article
• Language: English
• Subjects: Aminoglycoside antibiotics; Aminoglycosides; Antibiotics; Antimicrobial agents; Antimicrobial resistance; Diarrhea; Drug resistance; Epidemiology; Feces; Genes; Health care; Intestinal microflora; Microbiomes; Polymerase chain reaction; Public health; Relative abundance; Reservoirs; Sulfamethoxazole; Surveillance; Tetracyclines; Trimethoprim
• ISSN: 1574-6968; 0378-1097; 1574-6968
• DOI: 10.1093/femsle/fnad090

Abstract Antimicrobial resistance (AMR) alleviation warrants antimicrobial stewardship (AS) entailing the indispensability of epidemiological surveillance. We undertook a small-scale surveillance in Kolkata to detect the presence of antimicrobial resistance genes (ARGs) in the healthy gut microbiome. We found that it was a reservoir of ARGs against common antibiotics. A targeted Polymerase Chain Reaction (PCR) and sequencing-based ARGs detection against tetracyclines, macrolides, trimethoprim, sulfamethoxazole, aminoglycosides, amphenicol, and mobile genetic element (MGE) markers were deployed in 25 fecal samples. Relative abundance and frequency of ARGs were calculated. We detected markers against all these classes of antibiotics. 100% samples carried aminoglycoside resistance marker and int1U. A comparison with our previously published diarrheal resistome from the same spatial and temporal frame revealed that a higher diversity of ARGs were detected in the community and a higher rate of isolation of tetC, msrA, tmp, and sul-2 was found. The presence of common markers in the two cohorts proves that the gut microbiome has been contaminated with ARGs and which are being disseminated among different ecosystems. This is an issue of discerning concern for public health. The study raises an alarming picture of the AMR crisis in low-middle and emergent economies. It emphasizes the strict enforcement of AS in the community. The article describes the detection of antimicrobial resistance genes in the healthy human gut microbiome in Kolkata, raising an alarm for implementation of antimicrobial stewardship in the community in emergent economies.