Diversity of Salmonella enterica phages isolated from chicken farms in Kenya
In 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 sequen...
| Main Authors: | , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
American Society for Microbiology
2024
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/135409 |
| _version_ | 1855540810202742784 |
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| author | Gunathilake, K.M.D. Makumi, Angela Loignon, S. Tremblay, D. Labrie, S. Svitek, Nicholas Moineau, S. |
| author_browse | Gunathilake, K.M.D. Labrie, S. Loignon, S. Makumi, Angela Moineau, S. Svitek, Nicholas Tremblay, D. |
| author_facet | Gunathilake, K.M.D. Makumi, Angela Loignon, S. Tremblay, D. Labrie, S. Svitek, Nicholas Moineau, S. |
| author_sort | Gunathilake, K.M.D. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | In 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. |
| format | Journal Article |
| id | CGSpace135409 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | American Society for Microbiology |
| publisherStr | American Society for Microbiology |
| record_format | dspace |
| spelling | CGSpace1354092025-10-26T12:51:19Z Diversity of Salmonella enterica phages isolated from chicken farms in Kenya Gunathilake, K.M.D. Makumi, Angela Loignon, S. Tremblay, D. Labrie, S. Svitek, Nicholas Moineau, S. animal production poultry chickens antimicrobial resistance In 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. 2024-01-11 2023-12-15T02:58:32Z 2023-12-15T02:58:32Z Journal Article https://hdl.handle.net/10568/135409 en Open Access American Society for Microbiology Gunathilake, 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. |
| spellingShingle | animal production poultry chickens antimicrobial resistance Gunathilake, K.M.D. Makumi, Angela Loignon, S. Tremblay, D. Labrie, S. Svitek, Nicholas Moineau, S. Diversity of Salmonella enterica phages isolated from chicken farms in Kenya |
| title | Diversity of Salmonella enterica phages isolated from chicken farms in Kenya |
| title_full | Diversity of Salmonella enterica phages isolated from chicken farms in Kenya |
| title_fullStr | Diversity of Salmonella enterica phages isolated from chicken farms in Kenya |
| title_full_unstemmed | Diversity of Salmonella enterica phages isolated from chicken farms in Kenya |
| title_short | Diversity of Salmonella enterica phages isolated from chicken farms in Kenya |
| title_sort | diversity of salmonella enterica phages isolated from chicken farms in kenya |
| topic | animal production poultry chickens antimicrobial resistance |
| url | https://hdl.handle.net/10568/135409 |
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