title: Phylogenetic Analysis of Poliovirus Sequences.
abstract: Comparative genomic sequencing is a major surveillance tool in the Polio Laboratory Network. Due to the rapid evolution of polioviruses (~1 % per year), pathways of virus transmission can be reconstructed from the pathways of genomic evolution. Here, we describe three main phylogenetic methods; estimation of genetic distances, reconstruction of a maximum-likelihood (ML) tree, and estimation of substitution rates using Bayesian Markov chain Monte Carlo (MCMC). The data set used consists of complete capsid sequences from a survey of poliovirus sequences available in GenBank.
authors.affiliation: Polio and Picornavirus Laboratory Branch, Division of Viral Diseases, National Center for Immunization and Respiratory Disease, Centers for Disease Control and Prevention, 1600 Clifton Rd., NE MS G-10, Atlanta, GA, 30333, USA. JJorba@cdc.gov.
authors.forename: Jaume
authors.initials: J
authors.lastname: Jorba
mesh_terms: D001499:Bayes Theorem; D036022:Capsid Proteins / Q000235:genetics*; D006801:Humans; D016013:Likelihood Functions; D008390:Markov Chains; D009010:Monte Carlo Method; D010802:Phylogeny; D011051:Poliomyelitis / Q000821:virology*; D017955:Poliovirus / Q000235:genetics*; D012984:Software
chemical_list: D036022:Capsid Proteins
keywords: Bayesian MCMC; Maximum-likelihood; Phylogenetic analysis; Poliovirus evolution