Systematic Genomic Surveillance of SARS-CoV-2 at Xiamen International Airport and the Port of Xiamen Reveals the Importance of Incoming Travelers in Lineage Diversity.

Systematic Genomic Surveillance of SARS-CoV-2 at Xiamen International Airport and the Port of Xiamen Reveals the Importance of Incoming Travelers in Lineage Diversity.

Publication date: Jan 17, 2024

Sever Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) is still a threat to human health globally despite the World Health Organization (WHO) announcing the end of the COVID-19 pandemic. Continued surveillance of SARS-CoV-2 at national borders would be helpful in understanding the epidemics of novel imported variants and updating local strategies for disease prevention and treatment. This study focuses on the surveillance of imported SARS-CoV-2 variants among travelers entering Xiamen International Airport and the Port of Xiamen from February to August 2023. A total of 97 imported SARS-CoV-2 sequences among travelers from 223 cases collected from 12 different countries and regions were identified by real-time RT-PCR. Next-generation sequencing was used to generate high-quality complete sequences for phylogenetic and population dynamic analysis. The study revealed a dominant shift in variant distribution, in which the XBB subvariant (XBB. 1.5, XBB. 1.16, XBB. 1.9, XBB. 2.3, and EG. 5.1) accounted for approximately 88. 8% of the sequenced samples. In detail, clades 23D and 23E accounted for 26. 2% and 21. 4% of the sequenced samples, respectively, while clades 23B (13. 6%) and 23F (10. 7%) took the third and fourth spots in the order of imported sequences, respectively. Additionally, the XBB. 2.3 variants were first identified in imported cases from the mainland of Xiamen, China on 27 February 2023. The spatiotemporal analyses of recent viral genome sequences from a limited number of travelers into Xiamen provide valuable insights into the situation surrounding SARS-CoV-2 and highlight the importance of sentinel surveillance of SARS-CoV-2 variants in the national border screening of incoming travelers, which serves as an early warning system for the presence of highly transmissible circulating SARS-CoV-2 lineages.

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Concepts Keywords
Airport Airports
August border screening
China COVID-19
Coronavirus Genomics
Systematic Humans
Pandemics
Phylogeny
SARS-CoV-2
SARS-CoV-2 variants
sentinel surveillance

Semantics

Type Source Name
disease MESH Syndrome
disease VO organization
disease MESH COVID-19 pandemic
disease VO time
disease IDO quality
disease VO population
drug DRUGBANK Coenzyme M
disease MESH Infectious Diseases
disease VO vaccine
disease VO Optaflu
disease MESH influenza
disease VO vaccination
disease MESH infection
disease VO effective
disease IDO host
disease IDO history
disease MESH imported infections
disease IDO country
disease MESH sore throat
disease IDO assay
disease VO gene
disease VO protocol
disease IDO intervention
drug DRUGBANK Flunarizine
disease VO USA
disease VO monthly
drug DRUGBANK L-Phenylalanine
disease VO vaccinated
disease VO Gap
disease MESH Long COVID
drug DRUGBANK Guanosine
disease IDO infectivity
drug DRUGBANK (S)-Des-Me-Ampa
disease MESH breakthrough infection
disease IDO replication
disease IDO pathogen
disease VO efficient
disease VO effectiveness

Original Article

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