Phylodynamic applications in 21^(st)century global infectious disease research  

作　　者：Brittany D Rife Carla Mavian Xinguang Chen Massimo Ciccozzi Marco Salemi Jae Min Mattia CF Prosperi 

机构地区：[1]Emerging Pathogens Institute and Department of Pathology,Immunology and Laboratory Medicine,University of Florida,Gainesville,FL,USA [2]Department of Epidemiology,University of Florida,Gainesville,FL,USA [3]Department of Infectious,Parasitic and Immune-Mediated Diseases,Istituto Superiore di Sanità,Rome,Italy [4]Unit of Clinical Pathology and Microbiology,University Campus Biomedico of Rome,Rome,Italy

出　　处：《Global Health Research and Policy》2017年第1期244-253,共10页全球健康研究与政策（英文）

摘　　要：Background:Phylodynamics,the study of the interaction between epidemiological and pathogen evolutionary processes within and among populations,was originally defined in the context of rapidly evolving viruses and used to characterize transmission dynamics.The concept of phylodynamics has evolved since the early 21^(st)century,extending its reach to slower-evolving pathogens,including bacteria and fungi,and to the identification of influential factors in disease spread and pathogen population dynamics.Results:The phylodynamic approach has now become a fundamental building block for the development of comparative phylogenetic tools capable of incorporating epidemiological surveillance data with molecular sequences into a single statistical framework.These innovative tools have greatly enhanced scientific investigations of the temporal and geographical origins,evolutionary history,and ecological risk factors associated with the growth and spread of viruses such as human immunodeficiency virus(HIV),Zika,and dengue and bacteria such as Methicillin-resistant Staphylococcus aureus.Conclusions:Capitalizing on an extensive review of the literature,we discuss the evolution of the field of infectious disease epidemiology and recent accomplishments,highlighting the advancements in phylodynamics,as well as the challenges and limitations currently facing researchers studying emerging pathogen epidemics across the globe.

关 键 词：Molecular epidemiology PHYLODYNAMICS PHYLOGEOGRAPHY Comparative phylogenetics HIV Zika DENGUE WGS MRSA 

分 类 号：R51[医药卫生—内科学]