Choi Hosoon, Hwang Munok, Coppin John D, Chatterjee Piyali, Navarathna Thanuri, Brackens Emma, Mayo Lynn, Corona Brandon, Yakubik Taylor, Telchik Collin, Jinadatha Chetan
Department of Research, https://ror.org/01b3ys956Central Texas Veterans Health Care System, Temple, TX, USA.
Department of Medicine, https://ror.org/017cm6884Baylor Scott & White Medical Center - Temple, Temple, TX, USA.
Epidemiol Infect. 2025 Aug 4;153:e92. doi: 10.1017/S0950268825100290.
The Alpha, Delta, and Omicron variants of the SARS-CoV-2 virus have been deemed as variants of concern (VOCs) by the WHO due to their increased transmissibility, severity of illness, and resilience against treatments. Geographically tracking the spread of these variants can help us implement effective control measures. RNA from 8,154 SARS-CoV-2 positive nasal swab samples from a Central Texas hospital collected between March 2020 and April 2023 were sequenced in Temple, TX. Global and U.S. sequencing metadata was obtained from the GISAID database on 3 April 2023. Using sequencing metadata, the growth rate of Alpha, Delta, and the first subvariant of Omicron (BA.1) were obtained as 0.27, 0.3, and 1.08 each. The average time in days to penetrate the US for Alpha, Delta, and Omicron were 269.2, 326.2, and 27.3 days, respectively. Viral sequencing data can be a useful tool to examine the spread of viruses. Each emerging SARS-CoV-2 variant penetrated cities more rapidly as the pandemic progressed. With a high logarithmic growth rate, the Omicron variant penetrated the US more rapidly as the pandemic progressed.
严重急性呼吸综合征冠状病毒2（SARS-CoV-2）的阿尔法、德尔塔和奥密克戎变体因其传播性增强、疾病严重程度以及对治疗的抵抗力，已被世界卫生组织视为值得关注的变体（VOC）。从地理上追踪这些变体的传播情况有助于我们实施有效的控制措施。对2020年3月至2023年4月期间从德克萨斯州中部一家医院采集的8154份SARS-CoV-2阳性鼻拭子样本中的RNA在德克萨斯州坦普尔进行了测序。全球和美国的测序元数据于2023年4月3日从全球共享流感数据倡议组织（GISAID）数据库中获取。利用测序元数据，得出阿尔法、德尔塔和奥密克戎的首个亚变体（BA.1）的增长率分别为0.27、0.3和1.08。阿尔法、德尔塔和奥密克戎进入美国的平均天数分别为269.2天、326.2天和27.3天。病毒测序数据可以成为研究病毒传播的有用工具。随着疫情的发展，每一种新出现的SARS-CoV-2变体进入城市的速度都更快。随着疫情的发展，奥密克戎变体以高对数增长率更快地进入美国。
