Nasopharyngeal Microbiota in SARS-CoV-2 Positive and Negative Patients

Phillip A. Engen, Ankur Naqib, Cheryl Jennings, Stefan J. Green, Alan Landay, Ali Keshavarzian, Robin M. Voigt

Research output: Contribution to journalArticlepeer-review


We investigated nasopharyngeal microbial community structure in COVID-19-positive and -negative patients. High-throughput 16S ribosomal RNA gene amplicon sequencing revealed significant microbial community structure differences between COVID-19-positive and -negative patients. This proof-of-concept study demonstrates that: (1) nasopharyngeal microbiome communities can be assessed using collection samples already collected for SARS-CoV-2 testing (viral transport media) and (2) SARS-CoV-2 infection is associated with altered dysbiotic microbial profiles which could be a biomarker for disease progression and prognosis in SARS-CoV-2.

Original languageEnglish (US)
Article number10
JournalBiological Procedures Online
Issue number1
StatePublished - Dec 2021
Externally publishedYes


  • COVID-19
  • Dysbiosis
  • Microbiota
  • Nasopharyngeal
  • SARS-CoV-2

ASJC Scopus subject areas

  • General Biochemistry, Genetics and Molecular Biology


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