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Genetic characteristics of human coronavirus HKU1 in mainland China during 2018

Human coronavirus HKU1 (HCoV-HKU1) is a pathogen that causes acute respiratory tract infections in children and circulates worldwide. To investigate the molecular characteristics and genetic diversity of HCoV-HKU1 in China, a molecular epidemiological analysis based on complete genome sequences was...

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Autores principales: Chen, Xiangpeng, Zhu, Yun, Li, Qi, Lu, Gen, Li, Changchong, Jin, Rong, Li, Lei, Xu, Baoping, Gao, Liwei, Yin, Ju, Xie, Zhengde
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Vienna 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9287133/
https://www.ncbi.nlm.nih.gov/pubmed/35840864
http://dx.doi.org/10.1007/s00705-022-05541-4
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author Chen, Xiangpeng
Zhu, Yun
Li, Qi
Lu, Gen
Li, Changchong
Jin, Rong
Li, Lei
Xu, Baoping
Gao, Liwei
Yin, Ju
Xie, Zhengde
author_facet Chen, Xiangpeng
Zhu, Yun
Li, Qi
Lu, Gen
Li, Changchong
Jin, Rong
Li, Lei
Xu, Baoping
Gao, Liwei
Yin, Ju
Xie, Zhengde
author_sort Chen, Xiangpeng
collection PubMed
description Human coronavirus HKU1 (HCoV-HKU1) is a pathogen that causes acute respiratory tract infections in children and circulates worldwide. To investigate the molecular characteristics and genetic diversity of HCoV-HKU1 in China, a molecular epidemiological analysis based on complete genome sequences was performed. A total of 68 endemic-HCoV-positive samples were identified from 1358 enrolled patients during 2018, including four HCoV-229E, nine HCoV-OC43, 24 HCoV-NL63, and 31 HCoV-HKU1. The detection rate of endemic HCoVs was 5.01% during 2018, while for HCoV-HKU1, it was 2.28%. Eight complete genomic sequences of HCoV-HKU1 were obtained and compared to 41 reference genome sequences corresponding to genotypes A, B, and C, obtained from the GenBank databank. Of the eight HKU1 sequences, four belonged to genotype A and four belonged to genotype B. No genotype C strains were detected in this study. For genotype A, 18 variations in the S protein with respect to the reference sequence were present in more than 5% of the sequences, whereas for genotype B, this number was 25. Most of the amino acid changes occurred in the S1 subunit. No amino acid substitutions were found in the sites that are essential for interaction with neutralizing antibodies, while a 510T amino acid insertion was found in almost one third of genotype B sequences. About 82-83, 85-89, and 88-89 predicted N-glycosylation sites and 7-13, 6-8, and 9 predicted O-glycosylation sites were found among the sequences of genotype A, B, and C, respectively. Six conserved O-glycosylation sites were present in all of the genotype A sequences. Only genotype A and B strains were detected after 2005. The S protein exhibited relatively high diversity, with most of the amino acid changes occurring in the S1 subunit. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00705-022-05541-4.
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spelling pubmed-92871332022-07-18 Genetic characteristics of human coronavirus HKU1 in mainland China during 2018 Chen, Xiangpeng Zhu, Yun Li, Qi Lu, Gen Li, Changchong Jin, Rong Li, Lei Xu, Baoping Gao, Liwei Yin, Ju Xie, Zhengde Arch Virol Original Article Human coronavirus HKU1 (HCoV-HKU1) is a pathogen that causes acute respiratory tract infections in children and circulates worldwide. To investigate the molecular characteristics and genetic diversity of HCoV-HKU1 in China, a molecular epidemiological analysis based on complete genome sequences was performed. A total of 68 endemic-HCoV-positive samples were identified from 1358 enrolled patients during 2018, including four HCoV-229E, nine HCoV-OC43, 24 HCoV-NL63, and 31 HCoV-HKU1. The detection rate of endemic HCoVs was 5.01% during 2018, while for HCoV-HKU1, it was 2.28%. Eight complete genomic sequences of HCoV-HKU1 were obtained and compared to 41 reference genome sequences corresponding to genotypes A, B, and C, obtained from the GenBank databank. Of the eight HKU1 sequences, four belonged to genotype A and four belonged to genotype B. No genotype C strains were detected in this study. For genotype A, 18 variations in the S protein with respect to the reference sequence were present in more than 5% of the sequences, whereas for genotype B, this number was 25. Most of the amino acid changes occurred in the S1 subunit. No amino acid substitutions were found in the sites that are essential for interaction with neutralizing antibodies, while a 510T amino acid insertion was found in almost one third of genotype B sequences. About 82-83, 85-89, and 88-89 predicted N-glycosylation sites and 7-13, 6-8, and 9 predicted O-glycosylation sites were found among the sequences of genotype A, B, and C, respectively. Six conserved O-glycosylation sites were present in all of the genotype A sequences. Only genotype A and B strains were detected after 2005. The S protein exhibited relatively high diversity, with most of the amino acid changes occurring in the S1 subunit. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00705-022-05541-4. Springer Vienna 2022-07-16 2022 /pmc/articles/PMC9287133/ /pubmed/35840864 http://dx.doi.org/10.1007/s00705-022-05541-4 Text en © The Author(s), under exclusive licence to Springer-Verlag GmbH Austria, part of Springer Nature 2022 This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Original Article
Chen, Xiangpeng
Zhu, Yun
Li, Qi
Lu, Gen
Li, Changchong
Jin, Rong
Li, Lei
Xu, Baoping
Gao, Liwei
Yin, Ju
Xie, Zhengde
Genetic characteristics of human coronavirus HKU1 in mainland China during 2018
title Genetic characteristics of human coronavirus HKU1 in mainland China during 2018
title_full Genetic characteristics of human coronavirus HKU1 in mainland China during 2018
title_fullStr Genetic characteristics of human coronavirus HKU1 in mainland China during 2018
title_full_unstemmed Genetic characteristics of human coronavirus HKU1 in mainland China during 2018
title_short Genetic characteristics of human coronavirus HKU1 in mainland China during 2018
title_sort genetic characteristics of human coronavirus hku1 in mainland china during 2018
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9287133/
https://www.ncbi.nlm.nih.gov/pubmed/35840864
http://dx.doi.org/10.1007/s00705-022-05541-4
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