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Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients

The novel coronavirus outbreak started in December 2019 and rapidly spread around the globe, leading to a global pandemic. Here we reported the association of microbial agents identified in oropharyngeal and nasopharyngeal samples from patients with SARS-CoV-2 infection, using a Pan-microarray based...

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Autores principales: Seckar, Tyler, Lin, Xiang, Bose, Dipayan, Wei, Zhi, Rohrbaugh, Joseph, Collman, Ronald G., Robertson, Erle S.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8006406/
https://www.ncbi.nlm.nih.gov/pubmed/33790878
http://dx.doi.org/10.3389/fmicb.2021.637202
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author Seckar, Tyler
Lin, Xiang
Bose, Dipayan
Wei, Zhi
Rohrbaugh, Joseph
Collman, Ronald G.
Robertson, Erle S.
author_facet Seckar, Tyler
Lin, Xiang
Bose, Dipayan
Wei, Zhi
Rohrbaugh, Joseph
Collman, Ronald G.
Robertson, Erle S.
author_sort Seckar, Tyler
collection PubMed
description The novel coronavirus outbreak started in December 2019 and rapidly spread around the globe, leading to a global pandemic. Here we reported the association of microbial agents identified in oropharyngeal and nasopharyngeal samples from patients with SARS-CoV-2 infection, using a Pan-microarray based technology referred to as PathoChIP. To validate the efficiency of PathoChIP, reference viral genomes obtained from BEI resource and 25 SARS-CoV-2 positive clinical samples were tested. This technology successfully detected femtogram levels of SARS-CoV-2 viral RNA, which demonstrated greater sensitivity and specificity than conventional diagnostic techniques. Simultaneously, a broad range of other microorganisms, including other viruses, bacteria, fungi and parasites can be detected in those samples. We identified 7 viral, 12 bacterial and 6 fungal agents common across all clinical samples suggesting an associated microbial signature in individuals who are infected with SARS-CoV-2. This technology is robust and has a flexible detection methodology that can be employed to detect the presence of all human respiratory pathogens in different sample preparations with precision. It will be important for differentiating the causative agents of respiratory illnesses, including SARS-CoV-2.
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spelling pubmed-80064062021-03-30 Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients Seckar, Tyler Lin, Xiang Bose, Dipayan Wei, Zhi Rohrbaugh, Joseph Collman, Ronald G. Robertson, Erle S. Front Microbiol Microbiology The novel coronavirus outbreak started in December 2019 and rapidly spread around the globe, leading to a global pandemic. Here we reported the association of microbial agents identified in oropharyngeal and nasopharyngeal samples from patients with SARS-CoV-2 infection, using a Pan-microarray based technology referred to as PathoChIP. To validate the efficiency of PathoChIP, reference viral genomes obtained from BEI resource and 25 SARS-CoV-2 positive clinical samples were tested. This technology successfully detected femtogram levels of SARS-CoV-2 viral RNA, which demonstrated greater sensitivity and specificity than conventional diagnostic techniques. Simultaneously, a broad range of other microorganisms, including other viruses, bacteria, fungi and parasites can be detected in those samples. We identified 7 viral, 12 bacterial and 6 fungal agents common across all clinical samples suggesting an associated microbial signature in individuals who are infected with SARS-CoV-2. This technology is robust and has a flexible detection methodology that can be employed to detect the presence of all human respiratory pathogens in different sample preparations with precision. It will be important for differentiating the causative agents of respiratory illnesses, including SARS-CoV-2. Frontiers Media S.A. 2021-03-09 /pmc/articles/PMC8006406/ /pubmed/33790878 http://dx.doi.org/10.3389/fmicb.2021.637202 Text en Copyright © 2021 Seckar, Lin, Bose, Wei, Rohrbaugh, Collman and Robertson. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Seckar, Tyler
Lin, Xiang
Bose, Dipayan
Wei, Zhi
Rohrbaugh, Joseph
Collman, Ronald G.
Robertson, Erle S.
Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients
title Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients
title_full Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients
title_fullStr Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients
title_full_unstemmed Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients
title_short Detection of Microbial Agents in Oropharyngeal and Nasopharyngeal Samples of SARS-CoV-2 Patients
title_sort detection of microbial agents in oropharyngeal and nasopharyngeal samples of sars-cov-2 patients
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8006406/
https://www.ncbi.nlm.nih.gov/pubmed/33790878
http://dx.doi.org/10.3389/fmicb.2021.637202
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