Scientific Reports (Jul 2017)
Phylodynamics of major CRF01_AE epidemic clusters circulating in mainland of China
- Xiaolin Wang,
- Xiang He,
- Ping Zhong,
- Yongjian Liu,
- Tao Gui,
- Dijing Jia,
- Hanping Li,
- Jianjun Wu,
- Jin Yan,
- Dianmin Kang,
- Yang Han,
- Taisheng Li,
- Rongge Yang,
- Xiaoxu Han,
- Lin Chen,
- Jin Zhao,
- Hui Xing,
- Shu Liang,
- Jianmei He,
- Yansheng Yan,
- Yile Xue,
- Jiafeng Zhang,
- Xun Zhuang,
- Shujia Liang,
- Zuoyi Bao,
- Tianyi Li,
- Daomin Zhuang,
- Siyang Liu,
- Jingwan Han,
- Lei Jia,
- Jingyun Li,
- Lin Li
Affiliations
- Xiaolin Wang
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Xiang He
- Guangdong Provincial Institute of Public Health, Guangdong Provincial Center for Disease Control and Prevention
- Ping Zhong
- Shanghai Municipal Center for Diseases Control and Prevention
- Yongjian Liu
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Tao Gui
- The 59th hospital of PLA
- Dijing Jia
- Anhui Medical University
- Hanping Li
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Jianjun Wu
- Anhui Provincial Center for Disease Control and Prevention
- Jin Yan
- Guangdong Provincial Center for Disease Control and Prevention
- Dianmin Kang
- Institute of AIDS Control and Prevention, Shandong Center for Disease Control and Prevention
- Yang Han
- Department of Infectious Diseases, Peking Union Medical College Hospital, Peking Union Medical College and Chinese Academy of Medical Sciences
- Taisheng Li
- Department of Infectious Diseases, Peking Union Medical College Hospital, Peking Union Medical College and Chinese Academy of Medical Sciences
- Rongge Yang
- Research Group of HIV Molecular Epidemiology and Virology, Center for Molecular Virology, The State Key Laboratory of Virology, Wuhan Institute of Virology, Chinese Academy of Sciences
- Xiaoxu Han
- Key Laboratory of AIDS Immunology of National Health and Family Planning Commission, Department of Laboratory Medicine, The First Affiliated Hospital of China Medical University
- Lin Chen
- Shenzhen Municipal Center for Disease Control and Prevention
- Jin Zhao
- Shenzhen Municipal Center for Disease Control and Prevention
- Hui Xing
- State Key Laboratory of Infectious Disease Prevention and Control, National Center for AIDS/STD Control and Prevention (NCAIDS), Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Chinese Center for Disease Control and Prevention
- Shu Liang
- Sichuan provincial center for disease control and prevention
- Jianmei He
- Hunan Provincial Center for Disease Control and Prevention
- Yansheng Yan
- Fujian Provincial Center for Disease Control and Prevention
- Yile Xue
- Shanghai Municipal Center for Diseases Control and Prevention
- Jiafeng Zhang
- Zhejiang Provincial Center for Disease Control and Prevention
- Xun Zhuang
- School of Public Health, Nantong University
- Shujia Liang
- Guangxi Center for Disease Prevention and Control
- Zuoyi Bao
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Tianyi Li
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Daomin Zhuang
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Siyang Liu
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Jingwan Han
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Lei Jia
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Jingyun Li
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- Lin Li
- Department of AIDS Research, State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
- DOI
- https://doi.org/10.1038/s41598-017-06573-6
- Journal volume & issue
-
Vol. 7,
no. 1
pp. 1 – 9
Abstract
Abstract As the most dominant HIV-1 strain in China, CRF01_AE needs to have its evolutionary and demographic history documented. In this study, we provide phylogenetic analysis of all CRF01_AE pol sequences identified in mainland China. CRF01_AE sequences were collected from the Los Alamos HIV Sequence Database and the local Chinese provincial centers of disease control and prevention. Phylogenetic trees were constructed to identify major epidemic clusters. Bayesian coalescent-based method was used to reconstruct the time scale and demographic history. There were 2965 CRF01_AE sequences from 24 Chinese provinces that were collected, and 5 major epidemic clusters containing 85% of the total CRF01_AE sequences were identified. Every cluster contains sequences from more than 10 provinces with 1 or 2 dominant transmission routes. One cluster arose in the 1990s and 4 clusters arose in the 2000s. Cluster I is in the decline stage, while the other clusters are in the stable stage. Obvious lineage can be observed among sequences from the same transmission route but not the same area. Two large clusters in high-level prevalence were found in MSM (Men who have sex with men), which highlighted that more emphasis should be placed on MSM for HIV control in mainland China.
