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Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica Fong, Karen; Tremblay, Denise M.; Delaquis, Pascal; Goodridge, Lawrence; Levesque, Roger C.; Moineau, Sylvain; Suttle, Curtis A.; Wang, Siyun

Abstract

Phages infecting members of the opportunistic human pathogen, Salmonella enterica, are widespread in natural environments and o er a potential source of agents that could be used for controlling populations of this bacterium; yet, relatively little is known about these phages. Here we describe the isolation and characterization of 45 phages of Salmonella enterica from disparate geographic locations within British Columbia, Canada. Host-range profiling revealed host-specific patterns of susceptibility and resistance, with several phages identified that have a broad-host range (i.e., able to lyse >40% of bacterial hosts tested). One phage in particular, SE13, is able to lyse 51 out of the 61 Salmonella strains tested. Comparative genomic analyses also revealed an abundance of sequence diversity in the sequenced phages. Alignment of the genomes grouped the phages into 12 clusters with three singletons. Phages within certain clusters exhibited extraordinarily high genome homology (>98% nucleotide identity), yet between clusters, genomes exhibited a span of diversity (<50% nucleotide identity). Alignment of the major capsid protein also supported the clustering pattern observed with alignment of the whole genomes. We further observed associations between genomic relatedness and the site of isolation, as well as genetic elements related to DNA metabolism and host virulence. Our data support the knowledge framework for phage diversity and phage–host interactions that are required for developing phage-based applications for various sectors, including biocontrol, detection and typing.

Item Metadata

Title
Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica
Creator
Fong, Karen; Tremblay, Denise M.; Delaquis, Pascal; Goodridge, Lawrence; Levesque, Roger C.; Moineau, Sylvain; Suttle, Curtis A.; Wang, Siyun
Contributor
University of British Columbia. Food, Nutrition and Health Program
Publisher
Multidisciplinary Digital Publishing Institute
Date Issued
2019-09-14
Description
Phages infecting members of the opportunistic human pathogen, Salmonella enterica, are widespread in natural environments and o er a potential source of agents that could be used for controlling populations of this bacterium; yet, relatively little is known about these phages. Here we describe the isolation and characterization of 45 phages of Salmonella enterica from disparate geographic locations within British Columbia, Canada. Host-range profiling revealed host-specific patterns of susceptibility and resistance, with several phages identified that have a broad-host range (i.e., able to lyse >40% of bacterial hosts tested). One phage in particular, SE13, is able to lyse 51 out of the 61 Salmonella strains tested. Comparative genomic analyses also revealed an abundance of sequence diversity in the sequenced phages. Alignment of the genomes grouped the phages into 12 clusters with three singletons. Phages within certain clusters exhibited extraordinarily high genome homology (>98% nucleotide identity), yet between clusters, genomes exhibited a span of diversity (<50% nucleotide identity). Alignment of the major capsid protein also supported the clustering pattern observed with alignment of the whole genomes. We further observed associations between genomic relatedness and the site of isolation, as well as genetic elements related to DNA metabolism and host virulence. Our data support the knowledge framework for phage diversity and phage–host interactions that are required for developing phage-based applications for various sectors, including biocontrol, detection and typing.
Subject
Bacteriophage; Salmonella; biocontrol; comparative genomics; phage diversity
Genre
Article
Type
Text
Language
eng
Date Available
2019-09-24
Provider
Vancouver : University of British Columbia Library
Rights
CC BY 4.0
DOI
10.14288/1.0380987
URI
http://hdl.handle.net/2429/71757
Affiliation
Science, Faculty of; Other UBC; Non UBC; Botany, Department of; Earth, Ocean and Atmospheric Sciences, Department of; Microbiology and Immunology, Department of; Oceans and Fisheries, Institute for the
Citation
Viruses 11 (9): 854 (2019)
Publisher DOI
10.3390/v11090854
Peer Review Status
Reviewed
Scholarly Level
Faculty
Rights URI
https://creativecommons.org/licenses/by/4.0/
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CC BY 4.0