title: Shotgun Metagenomic Sequencing Analysis of Soft-Rot Enterobacteriaceae in Polymicrobial Communities.
abstract: Shotgun metagenomic sequencing of bacterial communities in necrotic plant lesions allows insights of host-pathogen molecular interactions. Soft-rot Enterobacteriaceae are significant crop pathogens with a wide host range. Reconstructed polymicrobial community DNA from soft-rot affected crops provides details of species relative abundance and functional potential, enabling significant insights into their lifestyle. Here, we describe a workflow for DNA recovery, metagenomic shotgun sequencing and in particular, an in silico analysis of bacterial isolates from affected plant tissue.
authors.affiliation: School of Biological Sciences, Bangor University, Bangor, Gwynedd, LL57 2UW, UK.
authors.forename: James
authors.initials: J
authors.lastname: Doonan
authors.affiliation: Centre for Ecosystems Society and Biosecurity, Forest Research, Surrey, UK.
authors.forename: Sandra
authors.initials: S
authors.lastname: Denman
authors.affiliation: School of Biological Sciences, Bangor University, Bangor, Gwynedd, LL57 2UW, UK.
authors.forename: James E
authors.initials: JE
authors.lastname: McDonald
authors.affiliation: School of Biological Sciences, Bangor University, Bangor, Gwynedd, LL57 2UW, UK. p.golyshin@bangor.ac.uk.
authors.forename: Peter N
authors.initials: PN
authors.lastname: Golyshin
mesh_terms: D019295:Computational Biology / Q000379:methods; D058893:DNA Barcoding, Taxonomic; D004755:Enterobacteriaceae / Q000145:classification* / Q000235:genetics*; D016680:Genome, Bacterial; D015698:Genomic Library; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods; D056186:Metagenomics / Q000379:methods; D058977:Molecular Sequence Annotation
keywords: Host–pathogen molecular interactions; In silico; Polymicrobial; Shotgun metagenomics; Soft-rot Enterobacteriaceae