Phylogenomics: Foundations, Methods, and Pathogen Analysis offers a deep overview of phylogenomics as a field, compelling recent developments, and detailed methods and approaches for conducting new research. Early chapters introduce phylogenomic taxonomies of organisms and pathogens, phylogenomic networks, phylogenomics of virus virulence, and ancient DNA analysis, with a second section offering methods, detailed descriptions and step-by-step instruction in genome assembly and annotation, horizontal gene transfer studies, Bayesian evaluation, phylogenetic tree building, microbial evolution...