title: Application of high-throughput DNA sequencing in phytopathology.
abstract: The new sequencing technologies are already making a big impact in academic research on medically important microbes and may soon revolutionize diagnostics, epidemiology, and infection control. Plant pathology also stands to gain from exploiting these opportunities. This manuscript reviews some applications of these high-throughput sequencing methods that are relevant to phytopathology, with emphasis on the associated computational and bioinformatics challenges and their solutions. Second-generation sequencing technologies have recently been exploited in genomics of both prokaryotic and eukaryotic plant pathogens. They are also proving to be useful in diagnostics, especially with respect to viruses.
authors.affiliation: Biosciences, College of Life and Environmental Sciences, University of Exeter, Exeter, Devon, EX4 4QD, United Kingdom. d.j.studholme@exeter.ac.uk
authors.forename: David J
authors.initials: DJ
authors.lastname: Studholme
authors.forename: Rachel H
authors.initials: RH
authors.lastname: Glover
authors.forename: Neil
authors.initials: N
authors.lastname: Boonham
mesh_terms: D019295:Computational Biology / Q000379:methods*; D023281:Genomics / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D061066:Plant Pathology / Q000639:trends; D010942:Plant Viruses / Q000235:genetics / Q000302:isolation & purification*; D010944:Plants / Q000235:genetics / Q000382:microbiology*; D017422:Sequence Analysis, DNA