SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a pandemic. Diagnostic testing for SARS-CoV-2 has continuously been challenged due to several variants with diverse spike (S) and nucleocapsid (N) protein mutations []. SARS-CoV-2 variant proliferation potentially affects N prot...

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Autores principales:	Ming-Jr Jian, Hsing-Yi Chung, Chih-Kai Chang, Jung-Chung Lin, Kuo-Ming Yeh, Chien-Wen Chen, De-Yu Lin, Feng-Yee Chang, Kuo-Sheng Hung, Cherng-Lih Perng, Hung-Sheng Shang
Formato:	article
Lenguaje:	EN
Publicado:	Elsevier 2022
Materias:	COVID-19 SARS-CoV-2 Rapid antigen test B.1.1.7 variant N protein Infectious and parasitic diseases RC109-216
Acceso en línea:	https://doaj.org/article/38d454027a0c4adeb2e5f1ea07400fdc
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spelling	oai:doaj.org-article:38d454027a0c4adeb2e5f1ea07400fdc2021-11-30T04:14:31ZSARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance1201-971210.1016/j.ijid.2021.11.006https://doaj.org/article/38d454027a0c4adeb2e5f1ea07400fdc2022-01-01T00:00:00Zhttp://www.sciencedirect.com/science/article/pii/S1201971221008535https://doaj.org/toc/1201-9712Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a pandemic. Diagnostic testing for SARS-CoV-2 has continuously been challenged due to several variants with diverse spike (S) and nucleocapsid (N) protein mutations []. SARS-CoV-2 variant proliferation potentially affects N protein-targeted rapid antigen testing. In this study, rapid antigen and reverse transcription PCR (RT-PCR) tests were performed simultaneously in patients with suspected coronavirus disease 2019 (COVID-19). Direct whole genome sequencing was performed to determine the N protein variations, and the viral assemblies were uploaded to GISAID. The genomes were then compared with those of global virus strains from GISAID. These isolates belonged to the B.1.1.7 variant, exhibiting several amino acid substitutions, including D3L, R203K, G204R, and S235F N protein mutations. The T135I mutation was also identified in one variant case in which the rapid antigen test and RT-PCR test were discordantly negative and positive, respectively. These findings suggest that the variants undetected by the Panbio COVID-19 rapid antigen test may be due to the T135I mutation in the N protein, posing a potential diagnostic risk for commercially available antigen tests. Hence, we recommend concomitant paired rapid antigen tests and molecular diagnostic methods to detect SARS-CoV-2. False-negative results could be rapidly corrected using confirmatory RT-PCR results to prevent future COVID-19 outbreaks.Ming-Jr JianHsing-Yi ChungChih-Kai ChangJung-Chung LinKuo-Ming YehChien-Wen ChenDe-Yu LinFeng-Yee ChangKuo-Sheng HungCherng-Lih PerngHung-Sheng ShangElsevierarticleCOVID-19SARS-CoV-2Rapid antigen testB.1.1.7 variantN proteinInfectious and parasitic diseasesRC109-216ENInternational Journal of Infectious Diseases, Vol 114, Iss , Pp 112-114 (2022)
institution	DOAJ
collection	DOAJ
language	EN
topic	COVID-19 SARS-CoV-2 Rapid antigen test B.1.1.7 variant N protein Infectious and parasitic diseases RC109-216
spellingShingle	COVID-19 SARS-CoV-2 Rapid antigen test B.1.1.7 variant N protein Infectious and parasitic diseases RC109-216 Ming-Jr Jian Hsing-Yi Chung Chih-Kai Chang Jung-Chung Lin Kuo-Ming Yeh Chien-Wen Chen De-Yu Lin Feng-Yee Chang Kuo-Sheng Hung Cherng-Lih Perng Hung-Sheng Shang SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance
description	Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a pandemic. Diagnostic testing for SARS-CoV-2 has continuously been challenged due to several variants with diverse spike (S) and nucleocapsid (N) protein mutations []. SARS-CoV-2 variant proliferation potentially affects N protein-targeted rapid antigen testing. In this study, rapid antigen and reverse transcription PCR (RT-PCR) tests were performed simultaneously in patients with suspected coronavirus disease 2019 (COVID-19). Direct whole genome sequencing was performed to determine the N protein variations, and the viral assemblies were uploaded to GISAID. The genomes were then compared with those of global virus strains from GISAID. These isolates belonged to the B.1.1.7 variant, exhibiting several amino acid substitutions, including D3L, R203K, G204R, and S235F N protein mutations. The T135I mutation was also identified in one variant case in which the rapid antigen test and RT-PCR test were discordantly negative and positive, respectively. These findings suggest that the variants undetected by the Panbio COVID-19 rapid antigen test may be due to the T135I mutation in the N protein, posing a potential diagnostic risk for commercially available antigen tests. Hence, we recommend concomitant paired rapid antigen tests and molecular diagnostic methods to detect SARS-CoV-2. False-negative results could be rapidly corrected using confirmatory RT-PCR results to prevent future COVID-19 outbreaks.
format	article
author	Ming-Jr Jian Hsing-Yi Chung Chih-Kai Chang Jung-Chung Lin Kuo-Ming Yeh Chien-Wen Chen De-Yu Lin Feng-Yee Chang Kuo-Sheng Hung Cherng-Lih Perng Hung-Sheng Shang
author_facet	Ming-Jr Jian Hsing-Yi Chung Chih-Kai Chang Jung-Chung Lin Kuo-Ming Yeh Chien-Wen Chen De-Yu Lin Feng-Yee Chang Kuo-Sheng Hung Cherng-Lih Perng Hung-Sheng Shang
author_sort	Ming-Jr Jian
title	SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance
title_short	SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance
title_full	SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance
title_fullStr	SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance
title_full_unstemmed	SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance
title_sort	sars-cov-2 variants with t135i nucleocapsid mutations may affect antigen test performance
publisher	Elsevier
publishDate	2022
url	https://doaj.org/article/38d454027a0c4adeb2e5f1ea07400fdc
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SARS-CoV-2 variants with T135I nucleocapsid mutations may affect antigen test performance

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