Journal article
A multicentre study reveals dysbiosis in the microbial co-infection and antimicrobial resistance gene profile in the nasopharynx of COVID-19 patients
ASM Mahmud, CA Seers, AA Shaikh, T Taznin, MS Uzzaman, E Osman, MA Habib, S Akter, TA Banu, MMH Sarkar, B Goswami, I Jahan, CM Okeoma, MS Khan, EC Reynolds
Scientific Reports | Published : 2023
Abstract
The impact of SARS-CoV-2 infection on the nasopharyngeal microbiome has not been well characterised. We sequenced genetic material extracted from nasopharyngeal swabs of SARS-CoV-2-positive individuals who were asymptomatic (n = 14), had mild (n = 64) or severe symptoms (n = 11), as well as from SARS-CoV-2-negative individuals who had never-been infected (n = 5) or had recovered from infection (n = 7). Using robust filters, we identified 1345 taxa with approximately 0.1% or greater read abundance. Overall, the severe cohort microbiome was least diverse. Bacterial pathogens were found in all cohorts, but fungal species identifications were rare. Few taxa were common between cohorts suggesting..
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Awarded by National Institutes of Health
Funding Acknowledgements
The authors acknowledge the Bangladesh Council of Scientific and Industrial Research funding, Project code 224125200 and recognize the National Institute of Laboratory Medicine and Referral Centre (NILMRC), Illumina channel partner Invent Technologies Limited for access to sequencing facilities and expertise. This work was also supported by an Australian Government Department of Industry, Innovation and Science Grant 20080108 to ECR and National Institute of Health grants R01DA042348, R01DA050169, R21/R33DA053643 to CMO.