Prevalence and genetic diversity analysis of human coronaviruses among cross-border children
| Autor: | Liu Chunxiao, Longfei Hu, Dayong Gu, Liu Peilin, Zhao Chunzhong, Wei Zhang, Shi Lei, Jacky Fong-Chuen Loo, Siu Kai Kong, Jianan He |
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| Rok vydání: | 2017 |
| Předmět: |
Male
0301 basic medicine China viruses 030106 microbiology Population Biology Genetic diversity Virus lcsh:Infectious and parasitic diseases 03 medical and health sciences Virology Prevalence Humans lcsh:RC109-216 Genetic Testing Child Clade education Respiratory Tract Infections Gene Phylogeny Genetics education.field_of_study Phylogenetic analysis Base Sequence Molecular epidemiology Phylogenetic tree Research Human coronaviruses Infant Newborn Genetic Variation Infant virus diseases Outbreak Coronavirus 030104 developmental biology Infectious Diseases Cross-border children Child Preschool Epidemiological Monitoring Mutation Hong Kong Female Seasons Coronavirus Infections |
| Zdroj: | Virology Journal, Vol 14, Iss 1, Pp 1-8 (2017) Virology Journal |
| ISSN: | 1743-422X |
| DOI: | 10.1186/s12985-017-0896-0 |
| Popis: | Background More than a decade after the outbreak of human coronaviruses (HCoVs) SARS in Guangdong province and Hong Kong SAR of China in 2002, there is still no reoccurrence, but the evolution and recombination of the coronaviruses in this region are still unknown. Therefore, surveillance on the prevalence and the virus variation of HCoVs circulation in this region is conducted. Methods A total of 3298 nasopharyngeal swabs samples were collected from cross-border children ( 37.5 °C), from 2014 May to 2015 Dec. Viral nucleic acids were analyzed and sequenced to study the prevalence and genetic diversity of the four human coronaviruses. The statistical significance of the data was evaluated with Fisher chi-square test. Results 78 (2.37%; 95%CI 1.8-2.8%) out of 3298 nasopharyngeal swabs specimens were found to be positive for OC43 (36;1.09%), HKU1 (34; 1.03%), NL63 (6; 0.18%) and 229E (2;0.01%). None of SARS or MERS was detected. The HCoVs predominant circulating season was in transition of winter to spring, especially January and February and NL63 detected only in summer and fall. Complex population with an abundant genetic diversity of coronaviruses was circulating and they shared homology with the published strains (99-100%). Besides, phylogenetic evolutionary analysis indicated that OC43 coronaviruses were clustered into three clades (B,D,E), HKU1 clustered into two clades(A,B) and NL63 clustered into two clades(A,B). Moreover, several novel mutations including nucleotides substitution and the insertion of spike of the glycoprotein on the viral surface were discovered. Conclusions The detection rate and epidemic trend of coronaviruses were stable and no obvious fluctuations were found. The detected coronaviruses shared a conserved gene sequences in S and RdRp. However, mutants of the epidemic strains were detected, suggesting continuous monitoring of the human coronaviruses is in need among cross-border children, who are more likely to get infected and transmit the viruses across the border easily, in addition to the general public. |
| Databáze: | OpenAIRE |
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