About: Prevalence and genetic diversity analysis of human coronaviruses among cross-border children

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Prevalence and genetic diversity analysis of human coronaviruses among cross-border children
Creator	Shi, Lei Zhang, Wei Gu, Dayong He, Jianan Hu, Longfei Liu, Chunxiao Liu, Peilin Zhao, Chunzhong Kong, Siu Fong, Jacky Loo, Chuen
Source	Medline; PMC
abstract	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 (<6 years, crossing border between Southern China and Hong Kong SAR) showing symptoms of respiratory tract infection, such as fever (body temperature > 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.
has issue date	2017-11-22(xsd:dateTime)
bibo:doi	10.1186/s12985-017-0896-0
bibo:pmid	29166910
has license	cc-by
sha1sum (hex)	c890cb0b691543c29b35b5a1351ff8c990739fe2
schema:url	https://doi.org/10.1186/s12985-017-0896-0
resource representing a document's title	Prevalence and genetic diversity analysis of human coronaviruses among cross-border children
has PubMed Central identifier	PMC5700739
has PubMed identifier	29166910
schema:publication	Virol J
resource representing a document's body	covid:c890cb0b691543c29b35b5a1351ff8c990739fe2#body_text
is schema:about of	named entity 'OC43' named entity 'SOUTHERN' named entity 'WINTER' named entity 'MORE THAN' named entity 'GUANGDONG PROVINCE' named entity 'EVALUATED' named entity 'RECOMBINATION' named entity 'POPULATION' named entity 'HOMOLOGY' named entity 'ANALYSIS' named entity '282' named entity 'NOVEL' named entity 'SURVEILLANCE' named entity '3B1' named entity 'BORDER' named entity 'GLYCOPROTEIN' named entity 'VIRUS' named entity '1.8' named entity 'SURFACE' named entity 'SWABS' named entity 'INCLUDING' named entity 'MUTATIONS' named entity 'TOTAL' named entity 'CORONAVIRUSES' named entity 'NASOPHARYNGEAL' named entity 'SAR' named entity 'swabs' named entity 'clustered' named entity 'prevalence' named entity 'summer' named entity 'nucleotides' named entity 'variation' named entity 'phylogenetic' named entity 'COMPLEX' named entity 'CIRCULATING' named entity 'TRANSITION' named entity 'STUDY' named entity '0.18' named entity 'CHI-SQUARE TEST' named entity 'JANUARY' named entity 'UNKNOWN' named entity '37.5' named entity 'SYMPTOMS' named entity 'SEASON' named entity 'DETECTED' named entity 'NL63' named entity 'EVOLUTION' named entity '28A' named entity 'STRAINS' named entity 'HUMAN' named entity 'CHILDREN' named entity 'FOUND' named entity 'SAMPLES' named entity 'YEARS' named entity 'DEC.' named entity 'SARS' named entity 'NUCLEOTIDES' named entity 'SUBSTITUTION' named entity 'MERS' named entity 'COLLECTED' named entity 'TEMPERATURE' named entity 'HONG KONG' named entity 'CROSS' named entity '2899' named entity 'SUMMER' named entity 'INDICATED' named entity 'SAR' named entity 'PUBLISHED' named entity 'PREVALENCE' named entity 'BORDER' named entity 'CROSS'

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