A novel human coronavirus OC43 genotype detected in mainland China

Zhu, Yun; Li, Changchong; Chen, Li; Xu, Bin; Zhou, Yunlian; Cao, Ling; Shang, Yunxiao; Fu, Zhou; Chen, Aihuan; Deng, Li; Bao, Yongxing; Sun, Yun; Ning, Limin; Liu, Chunyan; Yin, Ju; Xie, Zhengde; Shen, Kunling

doi:10.1038/s41426-018-0171-5

Cited by 34 publications

(51 citation statements)

References 12 publications

(20 reference statements)

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“…The latter is especially relevant as endemic HCoVs continue to evolve with the potential to cause outbreaks and severe LRIs. 41,42 Although hospital-based studies report most children with HCoV had LRIs, such as bronchiolitis, pneumonia and croup, [12][13][14] community-based cohort studies are more likely to describe symptoms of an URI. 14,21,22 However, illnesses vary between cohort studies as different criteria were used for collecting respiratory samples.…”

Section: Discussionmentioning

confidence: 99%

Endemic Non–SARS-CoV-2 Human Coronaviruses in a Community-Based Australian Birth Cohort

2020

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Background and objectives: The COVID-19 pandemic has drawn attention to the Coronavirus family of viruses. However, in community settings there is relatively limited information on these viruses in healthy children. Our objective was to explore the epidemiology of the four endemic (non-SARS-CoV-2) human coronaviruses (HCoV) by species, including acute illness episodes, risk factors and healthcare burden in a cohort of Australian children in the first 2-years of life. Methods: The Observational Research in Childhood Infectious Diseases (ORChID) community-based cohort was a prospective study describing acute respiratory illnesses in children from birth until their second birthday. Parents recorded daily symptoms, maintained an illness-burden diary and collected weekly nasal swabs, which were tested for 17 respiratory viruses, including HCoVs, by real-time polymerase chain reaction assays. Results: 158 children participating in ORChID provided 11,126 weekly swabs, of which 168 were HCoV positive involving 130 incident episodes. HCoV-NL63 and HCoV-OC43 were most commonly detected and accounted for two-thirds of episodes. While 30 children had different HCoVs detected on different occasions, seven were reinfected with the same species 4-16 months later. The incidence of HCoV in the first 2-years of life was 0.76 episodes per child-year (95% confidence interval [CI] 0.63-0.91) with incidence greatest in the second year (1.06; 95%CI 0.84-1.33) and during Winter (1.32; 95%CI 1.02-1.71). Only 50% of HCoV episodes were symptomatic, of which 48.4% led to healthcare contact. Conclusions: In children, HCoV infections are common, recurrent and frequently asymptomatic. Future studies should determine transmission pathways and immune mechanisms.

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Section: Discussionmentioning

confidence: 99%

Endemic Non–SARS-CoV-2 Human Coronaviruses in a Community-Based Australian Birth Cohort

2020

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“…HCoV-NL63 infection has also been significantly associated with croup (laryngotracheitis) [9,10], and HCoV-OC43 infection with severe lower respiratory tract infection in children [11].…”

Section: Introductionmentioning

confidence: 99%

COVID-19 Outbreak: An Overview

et al. 2019

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Background: In late December 2019, Chinese health authorities reported an outbreak of pneumonia of unknown origin in Wuhan, Hubei Province. Summary: A few days later, the genome of a novel coronavirus was released (http://virological.org/t/novel-2019-coronavirus-genome/319; Wuhan-Hu-1, GenBank accession No. MN908947) and made publicly available to the scientific community. This novel coronavirus was provisionally named 2019-nCoV, now SARS-CoV-2 according to the Coronavirus Study Group of the International Committee on Taxonomy of Viruses. SARS-CoV-2 belongs to the Coronaviridae family, Betacoronavirus genus, subgenus Sarbecovirus. Since its discovery, the virus has spread globally, causing thousands of deaths and having an enormous impact on our health systems and economies. In this review, we summarize the current knowledge about the epidemiology, phylogenesis, homology modeling, and molecular diagnostics of SARS-CoV-2. Key Messages: Phylogenetic analysis is essential to understand viral evolution, whereas ho-mology modeling is important for vaccine strategies and therapies. Highly sensitive and specific diagnostic assays are key to case identification, contact tracing, identification of the animal source, and implementation of control measures.

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“…In the same way, we were unable to detect infection or asymptomatic portage in healthcare workers of the HSCT unit. Some reports have shown that different HCoV−OC43 strains circulated during a same winter, suggesting that there may be multiple channels of HCoV introduction in hospital [25,42,43]. In fact, the HCoV strains of healthcare-associated infections were probably contracted from one of the strains circulating in the community at that time.…”

Section: Discussionmentioning

confidence: 99%

Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit

Beury

Fléchon

Maurier

et al. 2020

Journal of Clinical Virology

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A B S T R A C TBackground: While respiratory viral infections are recognized as a frequent cause of illness in hematopoietic stem cell transplantation (HSCT) recipients, HCoV−OC43 infections have rarely been investigated as healthcareassociated infections in this population. Objectives: In this report, HCoV−OC43 isolates collected from HSCT patients were retrospectively characterized to identify potential clusters of infection that may stand for a hospital transmission. Study design: Whole-genome and S gene sequences were obtained from nasal swabs using next-generation sequencing and phylogenetic trees were constructed. Similar identity matrix and determination of the most common ancestor were used to compare clusters of patient's sequences. Amino acids substitutions were analysed. Results: Genotypes B, E, F and G were identified. Two clusters of patients were defined from chronological data and phylogenetic trees. Analyses of amino acids substitutions of the S protein sequences identified substitutions specific for genotype F strains circulating among European people. Conclusions: HCoV−OC43 may be implicated in healthcare-associated infections.

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A novel human coronavirus OC43 genotype detected in mainland China

Cited by 34 publications

References 12 publications

Endemic Non–SARS-CoV-2 Human Coronaviruses in a Community-Based Australian Birth Cohort

Endemic Non–SARS-CoV-2 Human Coronaviruses in a Community-Based Australian Birth Cohort

COVID-19 Outbreak: An Overview

Use of whole-genome sequencing in the molecular investigation of care-associated HCoV-OC43 infections in a hematopoietic stem cell transplant unit

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