Publication date: Feb 01, 2025

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.

Semantics

Original Article