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Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya
Molecular diagnostic methods are becoming increasingly available for assessment of acute lower respiratory illnesses (ALRI). However, nasopharyngeal/oropharyngeal (NP/OP) swabs may not accurately reflect etiologic agents from the lower respiratory tract where sputum specimens are considered as a mor...
Autores principales: | , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6677726/ https://www.ncbi.nlm.nih.gov/pubmed/31375774 http://dx.doi.org/10.1038/s41598-019-47713-4 |
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author | Nyawanda, Bryan O. Njuguna, Henry N. Onyango, Clayton O. Makokha, Caroline Lidechi, Shirley Fields, Barry Winchell, Jonas M. Katieno, Jim S. Nyaundi, Jeremiah Ade, Fredrick Emukule, Gideon O. Mott, Joshua A. Otieno, Nancy Widdowson, Marc-Alain Chaves, Sandra S. |
author_facet | Nyawanda, Bryan O. Njuguna, Henry N. Onyango, Clayton O. Makokha, Caroline Lidechi, Shirley Fields, Barry Winchell, Jonas M. Katieno, Jim S. Nyaundi, Jeremiah Ade, Fredrick Emukule, Gideon O. Mott, Joshua A. Otieno, Nancy Widdowson, Marc-Alain Chaves, Sandra S. |
author_sort | Nyawanda, Bryan O. |
collection | PubMed |
description | Molecular diagnostic methods are becoming increasingly available for assessment of acute lower respiratory illnesses (ALRI). However, nasopharyngeal/oropharyngeal (NP/OP) swabs may not accurately reflect etiologic agents from the lower respiratory tract where sputum specimens are considered as a more representative sample. The pathogen yields from NP/OP against sputum specimens have not been extensively explored, especially in tropical countries. We compared pathogen yields from NP/OP swabs and sputum specimens from patients ≥18 years hospitalized with ALRI in rural Western Kenya. Specimens were tested for 30 pathogens using TaqMan Array Cards (TAC) and results compared using McNemar’s test. The agreement for pathogen detection between NP/OP and sputum specimens ranged between 85–100%. More viruses were detected from NP/OP specimens whereas Klebsiella pneumoniae and Mycobacterium tuberculosis were more common in sputum specimens. There was no clear advantage in using sputum over NP/OP specimens to detect pathogens of ALRI in adults using TAC in the context of this tropical setting. |
format | Online Article Text |
id | pubmed-6677726 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-66777262019-08-08 Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya Nyawanda, Bryan O. Njuguna, Henry N. Onyango, Clayton O. Makokha, Caroline Lidechi, Shirley Fields, Barry Winchell, Jonas M. Katieno, Jim S. Nyaundi, Jeremiah Ade, Fredrick Emukule, Gideon O. Mott, Joshua A. Otieno, Nancy Widdowson, Marc-Alain Chaves, Sandra S. Sci Rep Article Molecular diagnostic methods are becoming increasingly available for assessment of acute lower respiratory illnesses (ALRI). However, nasopharyngeal/oropharyngeal (NP/OP) swabs may not accurately reflect etiologic agents from the lower respiratory tract where sputum specimens are considered as a more representative sample. The pathogen yields from NP/OP against sputum specimens have not been extensively explored, especially in tropical countries. We compared pathogen yields from NP/OP swabs and sputum specimens from patients ≥18 years hospitalized with ALRI in rural Western Kenya. Specimens were tested for 30 pathogens using TaqMan Array Cards (TAC) and results compared using McNemar’s test. The agreement for pathogen detection between NP/OP and sputum specimens ranged between 85–100%. More viruses were detected from NP/OP specimens whereas Klebsiella pneumoniae and Mycobacterium tuberculosis were more common in sputum specimens. There was no clear advantage in using sputum over NP/OP specimens to detect pathogens of ALRI in adults using TAC in the context of this tropical setting. Nature Publishing Group UK 2019-08-02 /pmc/articles/PMC6677726/ /pubmed/31375774 http://dx.doi.org/10.1038/s41598-019-47713-4 Text en © The Author(s) 2019 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Nyawanda, Bryan O. Njuguna, Henry N. Onyango, Clayton O. Makokha, Caroline Lidechi, Shirley Fields, Barry Winchell, Jonas M. Katieno, Jim S. Nyaundi, Jeremiah Ade, Fredrick Emukule, Gideon O. Mott, Joshua A. Otieno, Nancy Widdowson, Marc-Alain Chaves, Sandra S. Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya |
title | Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya |
title_full | Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya |
title_fullStr | Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya |
title_full_unstemmed | Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya |
title_short | Comparison of respiratory pathogen yields from Nasopharyngeal/Oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural Western Kenya |
title_sort | comparison of respiratory pathogen yields from nasopharyngeal/oropharyngeal swabs and sputum specimens collected from hospitalized adults in rural western kenya |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6677726/ https://www.ncbi.nlm.nih.gov/pubmed/31375774 http://dx.doi.org/10.1038/s41598-019-47713-4 |
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