Transmission restriction and genomic evolution co-shape the genetic diversity patterns of influenza A virus
作者机构：State Key Laboratory of Common Mechanism Research for Major Diseases Suzhou Institute of Systems Medicine Chinese Academy of Medical Sciences & Peking Union Medical College Suzhou 215123 China Key Laboratory of Pathogen Infection Prevention and Control (Peking Union Medical College) Ministry of Education Beijing 100730 China Guangzhou National Laboratory Guangzhou 510006 China State Key Laboratory of Respiratory Disease The Key Laboratory of Advanced Interdisciplinary Studies Center The First Affiliated Hospital of Guangzhou Medical University Guangzhou 510030 China
出 版 物：《Virologica Sinica》 (中国病毒学（英文版）)
年 卷 期：2024年第39卷第4期
页 面：525-536页
核心收录：
学科分类：1004[医学-公共卫生与预防医学(可授医学、理学学位)] 100401[医学-流行病与卫生统计学] 10[医学]
基 金：Non-profit Central Research Institute Fund of Chinese Academy of Medical Sciences, (2021-PT180-001) National Natural Science Foundation of China, NSFC, (32370703, 9216910042, 92169106, 32070678) National Natural Science Foundation of China, NSFC National Key Plan for Scientific Research and Development of China, (2021YFC2301305, 2021YFC2302001) CAMS Innovation Fund for Medical Science, (2021-I2M-1-051, 2022-I2M-1-021) Guangzhou Laboratory, (EKPG21-12)
主 题：Genetic diversity Genetic pattern Genotype Influenza A virus Transmission
摘 要：Influenza A virus (IAV) shows an extensive host range and rapid genomic variations, leading to continuous emergence of novel viruses with significant antigenic variations and the potential for cross-species transmission. This causes global pandemics and seasonal flu outbreaks, posing sustained threats worldwide. Thus, studying all IAVs evolutionary patterns and underlying mechanisms is crucial for effective prevention and control. We developed FluTyping to identify IAV genotypes, to explore overall genetic diversity patterns and their restriction factors. FluTyping groups isolates based on genetic distance and phylogenetic relationships using whole genomes, enabling identification of each isolate s genotype. Three distinct genetic diversity patterns were observed: one genotype domination pattern comprising only H1N1 and H3N2 seasonal influenza subtypes, multi-genotypes co-circulation pattern including majority avian influenza subtypes and swine influenza H1N2, and hybrid-circulation pattern involving H7N9 and three H5 subtypes of influenza viruses. Furthermore, the IAVs in multi-genotypes co-circulation pattern showed region-specific dominant genotypes, implying the restriction of virus transmission is a key factor contributing to distinct genetic diversity patterns, and the genomic evolution underlying different patterns was more influenced by host-specific factors. In summary, a comprehensive picture of the evolutionary patterns of overall IAVs is provided by the FluTyping s identified genotypes, offering important theoretical foundations for future prevention and control of these viruses. © 2024 The Authors
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