Workshop overview -- Contributed manuscripts -- The microbial forensics pathway for use of massively parallel sequencing technologies -- Microbial virulence as an emergent property: consequences and opportunities -- Microbial genome sequencing to understand pathogen transmission -- Presence of oseltamivir-resistant pandemic A/H1N1 minor variants before drug therapy with subsequent selection and transmission -- Design considerations for home and hospital microbiome studies -- Sequencing errors, diversity estimates, and the rare biosphere -- Phylogeography and molecular epidemiology of Yersinia pestis in Madagascar -- Big data in biology: pitfalls when using shotgun metagenomics to define hypotheses about microbial communities -- High-throughput bacterial genome sequencing: embarrassment of choice, a world of opportunity -- Evidence for several waves of global transmission in the seventh cholera pandemic -- Multi-partner interactions in corals in the face of climate -- Change genomic transition to pathogenicity in chytrid fungi -- Natural and experimental infection of Caenorhabditis nematodes by novel viruses related to nodaviruses -- Genomic approaches to studying the human microbiota -- Sequence analysis of the human virome in febrile and afebrile children.