Department of Medical Statistics, School of Public Health, Sun Yat-sen University, Guangzhou, China.
Department of AIDS Control and Prevention, Guangzhou Center for Disease Control and Prevention, Guangzhou, China.
J Med Virol. 2024 Jul;96(7):e29799. doi: 10.1002/jmv.29799.
Human immunodeficiency virus type 1 CRF59_01B, identified in China in 2013, has been detected nationwide, exhibiting notably high prevalence in Guangzhou and its vicinity. This study aimed to unravel its origin and migration. A data set was established, incorporating all available CRF59_01B pol gene sequences and their metadata from Guangzhou and the public database. Bayesian phylogeographic analysis demonstrated that CRF59_01B originated in Shenzhen, the neighboring city of Guangzhou, around 1998 with posterior probability of 0.937. Molecular network analysis detected 1131 transmission links and showed a remarkably high clustering rate (78.9%). Substantial inter-city transmissions (26.5%, 300/1131) were observed between Shenzhen and Guangzhou while inter-region transmissions linked Guangzhou with South (46) and Southwest (64) China. The centre of Guangzhou was the hub of CRF59_01B transmission, including the inflow from Shenzhen (3.57 events/year) and outflow to the outskirts of Guangzhou (>2 events/year). The large-scale analysis revealed significant migration from Shenzhen to Guangzhou (5.08 events/year) and North China (0.59 events/year), and spread from Guangzhou to Central (0.47 events/year), East (0.42 events/year), South (0.76 events/year), Southwest China (0.76 events/year) and Shenzhen (1.89 events/year). Shenzhen and Guangzhou served as the origin and the hub of CRF59_01B circulation, emphasizing inter-city cooperation and data sharing to confine its nationwide diffusion.
中国 2013 年发现的人类免疫缺陷病毒 1 型 CRF59_01B 已在全国范围内检测到，在广州及其周边地区的流行率显著较高。本研究旨在揭示其起源和迁移。建立了一个数据集，纳入了来自广州和公共数据库的所有可用的 CRF59_01B pol 基因序列及其元数据。贝叶斯系统地理学分析表明，CRF59_01B 起源于广州的邻市深圳，大约在 1998 年，后验概率为 0.937。分子网络分析检测到 1131 个传播链接，显示出极高的聚类率（78.9%）。在深圳和广州之间观察到大量的城市间传播（26.5%，300/1131），而广州与中国南方（46）和西南（64）地区之间则存在跨区域传播。广州的中心是 CRF59_01B 传播的枢纽，包括来自深圳的流入（3.57 次/年）和流向广州郊区的流出（>2 次/年）。大规模分析显示，从深圳到广州（5.08 次/年）和华北（0.59 次/年）的迁移显著，从广州到中部（0.47 次/年）、东部（0.42 次/年）、南部（0.76 次/年）、西南（0.76 次/年）和深圳（1.89 次/年）的传播也很显著。深圳和广州是 CRF59_01B 循环的起源和枢纽，强调城市间的合作和数据共享，以限制其在全国范围内的扩散。
