Severe acute respiratory syndrome coronavirus 2 variants in patients with coronavirus disease 2019 and environmental sampling from the hospital and market during the coronavirus disease 2019 pandemic in Thailand
Issued Date
2025-02-01
Resource Type
ISSN
07328893
eISSN
18790070
Scopus ID
2-s2.0-85209118441
Pubmed ID
39550978
Journal Title
Diagnostic Microbiology and Infectious Disease
Volume
111
Issue
2
Rights Holder(s)
SCOPUS
Bibliographic Citation
Diagnostic Microbiology and Infectious Disease Vol.111 No.2 (2025)
Suggested Citation
Phumisantiphong U., Rupprom K., Wongsuk T., Manomaipiboon A., Maneerit J., Vimonvattana A., Chantratita W., Sensorn I., Hansirisathit T., Thongsopa W., Phutthanu C., Dongphooyao S., Thongnak C. Severe acute respiratory syndrome coronavirus 2 variants in patients with coronavirus disease 2019 and environmental sampling from the hospital and market during the coronavirus disease 2019 pandemic in Thailand. Diagnostic Microbiology and Infectious Disease Vol.111 No.2 (2025). doi:10.1016/j.diagmicrobio.2024.116604 Retrieved from: https://repository.li.mahidol.ac.th/handle/20.500.14594/102759
Title
Severe acute respiratory syndrome coronavirus 2 variants in patients with coronavirus disease 2019 and environmental sampling from the hospital and market during the coronavirus disease 2019 pandemic in Thailand
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Corresponding Author(s)
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Abstract
Limited genomic surveillance data is available for SARS-CoV-2 in Thailand during the second and third wave outbreaks, including both patient and environmental samples. This study investigated the presence of SARS-CoV-2 RNA in patient samples, on frequently touched surfaces, and in environmental swab samples (EVSs) collected from urban markets in Bangkok between April 2021 and August 2022. A total of 78,159 nasopharyngeal swab samples from patients and 327 environmental swab samples from hospital and market settings were collected. SARS-CoV-2 RNA was detected in 3,706 of 78,159 patient samples and one of 327 environmental samples using real-time RT-PCR. In total, 54 patient samples and an environmental sample were subjected to whole-genome sequencing and mass array genotyping, respectively. Only 46 samples passed the quality assessment based on the analysis criteria. The lineages detected included B.1.1.529 (2 samples), B.1.1.7 (15 samples), B.1.351 (3 samples), B.1.36.16 (6 samples), B.1.617.2 (1 sample), AY.102 (1 sample), AY.4 (11 samples), AY.25 (1 sample), BA.1 (1 sample), BA.1.1 (3 samples), and BA.2 (2 samples). The phylogenetic analysis of the viral genome sequences revealed similar lineages during this study period.