Cargando…

Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica

Phages infecting members of the opportunistic human pathogen, Salmonella enterica, are widespread in natural environments and offer 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...

Descripción completa

Detalles Bibliográficos
Autores principales: Fong, Karen, Tremblay, Denise M., Delaquis, Pascal, Goodridge, Lawrence, Levesque, Roger C., Moineau, Sylvain, Suttle, Curtis A., Wang, Siyun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6783827/
https://www.ncbi.nlm.nih.gov/pubmed/31540091
http://dx.doi.org/10.3390/v11090854
_version_ 1783457612025561088
author Fong, Karen
Tremblay, Denise M.
Delaquis, Pascal
Goodridge, Lawrence
Levesque, Roger C.
Moineau, Sylvain
Suttle, Curtis A.
Wang, Siyun
author_facet Fong, Karen
Tremblay, Denise M.
Delaquis, Pascal
Goodridge, Lawrence
Levesque, Roger C.
Moineau, Sylvain
Suttle, Curtis A.
Wang, Siyun
author_sort Fong, Karen
collection PubMed
description Phages infecting members of the opportunistic human pathogen, Salmonella enterica, are widespread in natural environments and offer 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.
format Online
Article
Text
id pubmed-6783827
institution National Center for Biotechnology Information
language English
publishDate 2019
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-67838272019-10-16 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 Viruses Article Phages infecting members of the opportunistic human pathogen, Salmonella enterica, are widespread in natural environments and offer 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. MDPI 2019-09-14 /pmc/articles/PMC6783827/ /pubmed/31540091 http://dx.doi.org/10.3390/v11090854 Text en © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Fong, Karen
Tremblay, Denise M.
Delaquis, Pascal
Goodridge, Lawrence
Levesque, Roger C.
Moineau, Sylvain
Suttle, Curtis A.
Wang, Siyun
Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica
title Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica
title_full Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica
title_fullStr Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica
title_full_unstemmed Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica
title_short Diversity and Host Specificity Revealed by Biological Characterization and Whole Genome Sequencing of Bacteriophages Infecting Salmonella enterica
title_sort diversity and host specificity revealed by biological characterization and whole genome sequencing of bacteriophages infecting salmonella enterica
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6783827/
https://www.ncbi.nlm.nih.gov/pubmed/31540091
http://dx.doi.org/10.3390/v11090854
work_keys_str_mv AT fongkaren diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica
AT tremblaydenisem diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica
AT delaquispascal diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica
AT goodridgelawrence diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica
AT levesquerogerc diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica
AT moineausylvain diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica
AT suttlecurtisa diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica
AT wangsiyun diversityandhostspecificityrevealedbybiologicalcharacterizationandwholegenomesequencingofbacteriophagesinfectingsalmonellaenterica