دورية أكاديمية
Transmission Patterns of Co-Circulation of Omicron Sub-Lineages in Hong Kong SAR, China, a City with Rigorous Social Distancing Measures, in 2022.
| العنوان: | Transmission Patterns of Co-Circulation of Omicron Sub-Lineages in Hong Kong SAR, China, a City with Rigorous Social Distancing Measures, in 2022. |
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| المؤلفون: | Chow N; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Long T; Centre for Virology, Vaccinology and Therapeutics Limited, The University of Hong Kong, Hong Kong Special Administrative Region, China.; Department of Microbiology and State Key Laboratory for Emerging Infectious Diseases, School of Clinical Medicine, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Hong Kong Special Administrative Region, China., Lee LK; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Wong IT; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Lee AW; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Tam WY; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Wong HF; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Leung JS; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Chow FW; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China., Luk KS; Department of Pathology, Princess Margaret Hospital, Hong Kong Special Administrative Region, China., Ho AY; Department of Pathology, Princess Margaret Hospital, Hong Kong Special Administrative Region, China., Lam JY; Department of Clinical Pathology, Pamela Youde Nethersole Eastern Hospital, Hong Kong Special Administrative Region, China., Yau MC; Department of Clinical Pathology, Pamela Youde Nethersole Eastern Hospital, Hong Kong Special Administrative Region, China., Que TL; Department of Clinical Pathology, Tuen Mun Hospital, Hong Kong Special Administrative Region, China., Yip KT; Department of Clinical Pathology, Tuen Mun Hospital, Hong Kong Special Administrative Region, China., Chow VC; Department of Microbiology, Prince of Wales Hospital, Hong Kong Special Administrative Region, China., Wong RC; Department of Microbiology, Prince of Wales Hospital, Hong Kong Special Administrative Region, China., Mok BW; Centre for Virology, Vaccinology and Therapeutics Limited, The University of Hong Kong, Hong Kong Special Administrative Region, China.; Department of Microbiology and State Key Laboratory for Emerging Infectious Diseases, School of Clinical Medicine, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Hong Kong Special Administrative Region, China., Chen HL; Centre for Virology, Vaccinology and Therapeutics Limited, The University of Hong Kong, Hong Kong Special Administrative Region, China.; Department of Microbiology and State Key Laboratory for Emerging Infectious Diseases, School of Clinical Medicine, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Hong Kong Special Administrative Region, China., Siu GK; Department of Health Technology and Informatics, The Hong Kong Polytechnic University, Kowloon, Hong Kong Special Administrative Region, China. |
| المصدر: | Viruses [Viruses] 2024 Jun 18; Vol. 16 (6). Date of Electronic Publication: 2024 Jun 18. |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: MDPI Country of Publication: Switzerland NLM ID: 101509722 Publication Model: Electronic Cited Medium: Internet ISSN: 1999-4915 (Electronic) Linking ISSN: 19994915 NLM ISO Abbreviation: Viruses Subsets: MEDLINE |
| أسماء مطبوعة: | Original Publication: Basel, Switzerland : MDPI |
| مواضيع طبية MeSH: | COVID-19*/epidemiology , COVID-19*/transmission , COVID-19*/virology , COVID-19*/prevention & control , SARS-CoV-2*/genetics , SARS-CoV-2*/classification , Quarantine* , Phylogeny* , Genome, Viral*, Humans ; Hong Kong/epidemiology ; Physical Distancing ; Male ; Female ; Adult ; Middle Aged ; Adolescent ; Child ; Aged ; Young Adult |
| مستخلص: | Objective: This study aimed to characterize the changing landscape of circulating SARS-CoV-2 lineages in the local community of Hong Kong throughout 2022. We examined how adjustments to quarantine arrangements influenced the transmission pattern of Omicron variants in a city with relatively rigorous social distancing measures at that time. Methods: In 2022, a total of 4684 local SARS-CoV-2 genomes were sequenced using the Oxford Nanopore GridION sequencer. SARS-CoV-2 consensus genomes were generated by MAFFT, and the maximum likelihood phylogeny of these genomes was determined using IQ-TREE. The dynamic changes in lineages were depicted in a time tree created by Nextstrain. Statistical analysis was conducted to assess the correlation between changes in the number of lineages and adjustments to quarantine arrangements. Results: By the end of 2022, a total of 83 SARS-CoV-2 lineages were identified in the community. The increase in the number of new lineages was significantly associated with the relaxation of quarantine arrangements (One-way ANOVA, F(5, 47) = 18.233, p < 0.001)). Over time, Omicron BA.5 sub-lineages replaced BA.2.2 and became the predominant Omicron variants in Hong Kong. The influx of new lineages reshaped the dynamics of Omicron variants in the community without fluctuating the death rate and hospitalization rate (One-way ANOVA, F(5, 47) = 2.037, p = 0.091). Conclusion: This study revealed that even with an extended mandatory quarantine period for incoming travelers, it may not be feasible to completely prevent the introduction and subsequent community spread of highly contagious Omicron variants. Ongoing molecular surveillance of COVID-19 remains essential to monitor the emergence of new recombinant variants. |
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| معلومات مُعتمدة: | COVID190204 Health and Medical Research Fund (HMRF) |
| فهرسة مساهمة: | Keywords: COVID-19; Omicron; co-circulation; quarantine arrangements; social distancing |
| SCR Organism: | SARS-CoV-2 variants |
| تواريخ الأحداث: | Date Created: 20240627 Date Completed: 20240627 Latest Revision: 20240629 |
| رمز التحديث: | 20240629 |
| مُعرف محوري في PubMed: | PMC11209396 |
| DOI: | 10.3390/v16060981 |
| PMID: | 38932272 |
| قاعدة البيانات: | MEDLINE |
Full Text Finder | تدمد: | 1999-4915 |
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| DOI: | 10.3390/v16060981 |