Diversity of Salmonella enterica phages isolated from chicken farms in Kenya

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cg.authorship.typesCGIAR and advanced research instituteen
cg.contributor.affiliationUniversité Lavalen
cg.contributor.affiliationInternational Livestock Research Instituteen
cg.contributor.affiliationSyntBioLab Inc.en
cg.contributor.crpLivestock
cg.contributor.donorDepartment of Health and Social Care, United Kingdomen
cg.contributor.donorInternational Development Research Centreen
cg.coverage.countryKenya
cg.coverage.iso3166-alpha2KE
cg.coverage.regionAfrica
cg.coverage.regionEastern Africa
cg.creator.identifierAngela Makumi: 0000-0003-3510-972X
cg.creator.identifierNicholas Svitek: 0000-0002-4539-5806
cg.howPublishedFormally Publisheden
cg.identifier.doihttps://doi.org/10.1128/spectrum.02729-23en
cg.isijournalISI Journalen
cg.issn2165-0497en
cg.issue1en
cg.journalMicrobiology Spectrumen
cg.reviewStatusPeer Reviewen
cg.subject.actionAreaResilient Agrifood Systems
cg.subject.ilriAMRen
cg.subject.ilriANIMAL PRODUCTIONen
cg.subject.ilriCHICKENSen
cg.subject.ilriPOULTRYen
cg.subject.impactAreaNutrition, health and food security
cg.subject.impactPlatformNutrition, Health and Food Security
cg.subject.sdgSDG 2 - Zero hungeren
cg.volume12en
dc.contributor.authorGunathilake, K.M.D.en
dc.contributor.authorMakumi, Angelaen
dc.contributor.authorLoignon, S.en
dc.contributor.authorTremblay, D.en
dc.contributor.authorLabrie, S.en
dc.contributor.authorSvitek, Nicholasen
dc.contributor.authorMoineau, S.en
dc.date.accessioned2023-12-15T02:58:32Zen
dc.date.available2023-12-15T02:58:32Zen
dc.identifier.urihttps://hdl.handle.net/10568/135409
dc.titleDiversity of Salmonella enterica phages isolated from chicken farms in Kenyaen
dcterms.abstractIn this study, we describe the characterization of 67 <i>Salmonella enterica</i> phages isolated from Kenya. Specifically, the phages were isolated from chicken feces as well as from swabs and water samples obtained from chicken farms and slaughterhouses in Nairobi and Kiambu counties. Genome sequencing and analysis revealed that 59 phage isolates were distinct and could be grouped into 17 clusters belonging to four major types of phages (MT1–4). Further taxonomic analysis showed that each MT represents one phage genus. Of the 17 selected representative genomes (one per cluster), seven phages belong to the MT1 group and to the genus <i>Jerseyvirus</i>. The MT2 cluster contained eight representative phages that were similar to <i>Escherichia</i> phage T5 and belong to the <i>Tequintavirus</i> genus. The unique MT3 cluster with one phage representative belongs to the <i>Zindervirus</i> genus, while the sole MT4 phage isolate is a member of the <i>Dhillonvirus</i> genus. All representative phages are siphophages, except MT3 phage which is a podophage. All genomes do not contain genes associated with lysogeny and therefore, they are considered exclusively lytic. No known virulence genes or antibiotic resistance genes were detected in any of the genomes. Phage DNA termini analyses showed that MT2 phages have a direct terminal repeat-based packaging mechanism while MT1 has a headful packaging mechanism. Host range studies showed that phages belonging to MT1 and MT3 appear to only infect <i>Salmonella</i> strains, while MT2 and MT4 phages were also capable of infecting <i>Escherichia</i> and <i>Shigella</i> strains.en
dcterms.accessRightsOpen Access
dcterms.audienceAcademicsen
dcterms.audienceScientistsen
dcterms.available2023-12-11
dcterms.bibliographicCitationGunathilake, K.M.D., Makumi, A., Loignon, S., Tremblay, D., Labrie, S., Svitek, N. and Moineau, S. 2024. Diversity of <i>Salmonella enterica</i> phages isolated from chicken farms in Kenya. <i>Microbiology Spectrum</i> 12(1): e02729-23.en
dcterms.extente02729-23en
dcterms.issued2024-01
dcterms.languageen
dcterms.licenseCC-BY-4.0
dcterms.publisherAmerican Society for Microbiologyen
dcterms.subjectanimal productionen
dcterms.subjectpoultryen
dcterms.subjectchickensen
dcterms.subjectantimicrobial resistanceen
dcterms.typeJournal Article

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