title: The Promise of Whole Genome Pathogen Sequencing for the Molecular Epidemiology of Emerging Aquaculture Pathogens.
abstract: Aquaculture is the fastest growing food-producing sector, and the sustainability of this industry is critical both for global food security and economic welfare. The management of infectious disease represents a key challenge. Here, we discuss the opportunities afforded by whole genome sequencing of bacterial and viral pathogens of aquaculture to mitigate disease emergence and spread. We outline, by way of comparison, how sequencing technology is transforming the molecular epidemiology of pathogens of public health importance, emphasizing the importance of community-oriented databases and analysis tools.
authors.affiliation: The Milner Centre for Evolution, Department of Biology and Biochemistry, University of Bath Bath, UK.
authors.forename: Sion C
authors.initials: SC
authors.lastname: Bayliss
authors.affiliation: Cefas Weymouth Laboratory Weymouth, UK.
authors.forename: David W
authors.initials: DW
authors.lastname: Verner-Jeffreys
authors.affiliation: Institute of Aquaculture, University of Stirling Stirling, UK.
authors.forename: Kerry L
authors.initials: KL
authors.lastname: Bartie
authors.affiliation: Department of Infectious Disease Epidemiology, School of Public Health, Imperial College LondonLondon, UK; The Centre for Genomic Pathogen Surveillance, Wellcome Genome CampusCambridge, UK.
authors.forename: David M
authors.initials: DM
authors.lastname: Aanensen
authors.affiliation: The Milner Centre for Evolution, Department of Biology and Biochemistry, University of Bath Bath, UK.
authors.forename: Samuel K
authors.initials: SK
authors.lastname: Sheppard
authors.affiliation: Institute of Aquaculture, University of Stirling Stirling, UK.
authors.forename: Alexandra
authors.initials: A
authors.lastname: Adams
authors.affiliation: The Milner Centre for Evolution, Department of Biology and Biochemistry, University of Bath Bath, UK.
authors.forename: Edward J
authors.initials: EJ
authors.lastname: Feil
keywords: aquaculture; bacteria; genomics; infectious disease; molecular epidemiology; pathogens; viruses; whole genome sequencing