Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East Africa
Since its emergence in the beginning of the 90’s, multidrug-resistant (MDR) Salmonella enterica subsp. enterica serovar Kentucky has become a significant public health problem, especially in East Africa. This study aimed to investigate the antimicrobial resistance profile and the genotypic relatedne...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-06-01
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| Series: | Frontiers in Cellular and Infection Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fcimb.2022.772829/full |
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| author | Mauro de Mesquita Sousa Saraiva Mauro de Mesquita Sousa Saraiva Valdinete Pereira Benevides Núbia Michelle Vieira da Silva Alessandro de Mello Varani Oliveiro Caetano de Freitas Neto Ângelo Berchieri Enrique Jesús Delgado-Suárez Alan Douglas de Lima Rocha Tadesse Eguale Janet Agnes Munyalo Samuel Kariuki Wondwossen Abebe Gebreyes Wondwossen Abebe Gebreyes Celso José Bruno de Oliveira Celso José Bruno de Oliveira |
| author_facet | Mauro de Mesquita Sousa Saraiva Mauro de Mesquita Sousa Saraiva Valdinete Pereira Benevides Núbia Michelle Vieira da Silva Alessandro de Mello Varani Oliveiro Caetano de Freitas Neto Ângelo Berchieri Enrique Jesús Delgado-Suárez Alan Douglas de Lima Rocha Tadesse Eguale Janet Agnes Munyalo Samuel Kariuki Wondwossen Abebe Gebreyes Wondwossen Abebe Gebreyes Celso José Bruno de Oliveira Celso José Bruno de Oliveira |
| author_sort | Mauro de Mesquita Sousa Saraiva |
| collection | DOAJ |
| description | Since its emergence in the beginning of the 90’s, multidrug-resistant (MDR) Salmonella enterica subsp. enterica serovar Kentucky has become a significant public health problem, especially in East Africa. This study aimed to investigate the antimicrobial resistance profile and the genotypic relatedness of Salmonella Kentucky isolated from animal sources in Ethiopia and Kenya (n=19). We also investigated population evolutionary dynamics through phylogenetic and pangenome analyses with additional publicly available Salmonella Kentucky ST198 genomes (n=229). All the 19 sequenced Salmonella Kentucky isolates were identified as ST198. Among these isolates, the predominant genotypic antimicrobial resistance profile observed in ten (59.7%) isolates included the aac(3)-Id, aadA7, strA-strB, blaTEM-1B, sul1, and tet(A) genes, which mediated resistance to gentamicin, streptomycin/spectinomycin, streptomycin, ampicillin, sulfamethoxazole and tetracycline, respectively; and gyrA and parC mutations associated to ciprofloxacin resistance. Four isolates harbored plasmid types Incl1 and/or Col8282; two of them carried both plasmids. Salmonella Pathogenicity islands (SPI-1 to SPI-5) were highly conserved in the 19 sequenced Salmonella Kentucky isolates. Moreover, at least one Pathogenicity Island (SPI 1–4, SPI 9 or C63PI) was identified among the 229 public Salmonella Kentucky genomes. The phylogenetic analysis revealed that almost all Salmonella Kentucky ST198 isolates (17/19) stemmed from a single strain that has accumulated ciprofloxacin resistance-mediating mutations. A total of 8,104 different genes were identified in a heterogenic and still open Salmonella Kentucky ST198 pangenome. Considering the virulence factors and antimicrobial resistance genes detected in Salmonella Kentucky, the implications of this pathogen to public health and the epidemiological drivers for its dissemination must be investigated. |
| first_indexed | 2024-04-12T13:58:07Z |
| format | Article |
| id | doaj.art-ac1058a4595240aea9ebfaa4055e14ad |
| institution | Directory Open Access Journal |
| issn | 2235-2988 |
| language | English |
| last_indexed | 2024-04-12T13:58:07Z |
| publishDate | 2022-06-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Cellular and Infection Microbiology |
| spelling | doaj.art-ac1058a4595240aea9ebfaa4055e14ad2022-12-22T03:30:19ZengFrontiers Media S.A.Frontiers in Cellular and Infection Microbiology2235-29882022-06-011210.3389/fcimb.2022.772829772829Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East AfricaMauro de Mesquita Sousa Saraiva0Mauro de Mesquita Sousa Saraiva1Valdinete Pereira Benevides2Núbia Michelle Vieira da Silva3Alessandro de Mello Varani4Oliveiro Caetano de Freitas Neto5Ângelo Berchieri6Enrique Jesús Delgado-Suárez7Alan Douglas de Lima Rocha8Tadesse Eguale9Janet Agnes Munyalo10Samuel Kariuki11Wondwossen Abebe Gebreyes12Wondwossen Abebe Gebreyes13Celso José Bruno de Oliveira14Celso José Bruno de Oliveira15Department of Pathology, Theriogenology, and One Health, Sao Paulo State University (FCAV-Unesp), Jaboticabal, BrazilDepartment of Preventive Veterinary Medicine, College of Veterinary Medicine, The Ohio State University, Columbus, OH, United StatesDepartment of Pathology, Theriogenology, and One Health, Sao Paulo State University (FCAV-Unesp), Jaboticabal, BrazilDepartment of Animal Science, Center for Agricultural Sciences, Federal University of Paraiba (CCA/UFPB), Areia, BrazilDepartment of Technology, Sao Paulo State University (FCAV-Unesp), Jaboticabal, BrazilDepartment of Preventive Veterinary Medicine, Veterinary School, Federal University of Minas Gerais (UFMG), Belo Horizonte, BrazilDepartment of Pathology, Theriogenology, and One Health, Sao Paulo State University (FCAV-Unesp), Jaboticabal, BrazilFacultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Autónoma de México (UNAM), Mexico City, MexicoDepartment of Animal Science, Center for Agricultural Sciences, Federal University of Paraiba (CCA/UFPB), Areia, BrazilAklilu Lemma Institute of Pathobiology, Addis Ababa University, Addis Ababa, EthiopiaCentre for Microbiology Research, Kenya Medical Research Institute, Nairobi, KenyaCentre for Microbiology Research, Kenya Medical Research Institute, Nairobi, KenyaDepartment of Preventive Veterinary Medicine, College of Veterinary Medicine, The Ohio State University, Columbus, OH, United StatesGlobal One Health Initiative (GOHi), The Ohio State University, Columbus, OH, United StatesDepartment of Animal Science, Center for Agricultural Sciences, Federal University of Paraiba (CCA/UFPB), Areia, BrazilGlobal One Health Initiative (GOHi), The Ohio State University, Columbus, OH, United StatesSince its emergence in the beginning of the 90’s, multidrug-resistant (MDR) Salmonella enterica subsp. enterica serovar Kentucky has become a significant public health problem, especially in East Africa. This study aimed to investigate the antimicrobial resistance profile and the genotypic relatedness of Salmonella Kentucky isolated from animal sources in Ethiopia and Kenya (n=19). We also investigated population evolutionary dynamics through phylogenetic and pangenome analyses with additional publicly available Salmonella Kentucky ST198 genomes (n=229). All the 19 sequenced Salmonella Kentucky isolates were identified as ST198. Among these isolates, the predominant genotypic antimicrobial resistance profile observed in ten (59.7%) isolates included the aac(3)-Id, aadA7, strA-strB, blaTEM-1B, sul1, and tet(A) genes, which mediated resistance to gentamicin, streptomycin/spectinomycin, streptomycin, ampicillin, sulfamethoxazole and tetracycline, respectively; and gyrA and parC mutations associated to ciprofloxacin resistance. Four isolates harbored plasmid types Incl1 and/or Col8282; two of them carried both plasmids. Salmonella Pathogenicity islands (SPI-1 to SPI-5) were highly conserved in the 19 sequenced Salmonella Kentucky isolates. Moreover, at least one Pathogenicity Island (SPI 1–4, SPI 9 or C63PI) was identified among the 229 public Salmonella Kentucky genomes. The phylogenetic analysis revealed that almost all Salmonella Kentucky ST198 isolates (17/19) stemmed from a single strain that has accumulated ciprofloxacin resistance-mediating mutations. A total of 8,104 different genes were identified in a heterogenic and still open Salmonella Kentucky ST198 pangenome. Considering the virulence factors and antimicrobial resistance genes detected in Salmonella Kentucky, the implications of this pathogen to public health and the epidemiological drivers for its dissemination must be investigated.https://www.frontiersin.org/articles/10.3389/fcimb.2022.772829/fullantimicrobial resistancefoodborne pathogengenetic diversitySalmonella pathogenicity islandssalmonellosiswhole genome sequencing |
| spellingShingle | Mauro de Mesquita Sousa Saraiva Mauro de Mesquita Sousa Saraiva Valdinete Pereira Benevides Núbia Michelle Vieira da Silva Alessandro de Mello Varani Oliveiro Caetano de Freitas Neto Ângelo Berchieri Enrique Jesús Delgado-Suárez Alan Douglas de Lima Rocha Tadesse Eguale Janet Agnes Munyalo Samuel Kariuki Wondwossen Abebe Gebreyes Wondwossen Abebe Gebreyes Celso José Bruno de Oliveira Celso José Bruno de Oliveira Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East Africa Frontiers in Cellular and Infection Microbiology antimicrobial resistance foodborne pathogen genetic diversity Salmonella pathogenicity islands salmonellosis whole genome sequencing |
| title | Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East Africa |
| title_full | Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East Africa |
| title_fullStr | Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East Africa |
| title_full_unstemmed | Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East Africa |
| title_short | Genomic and Evolutionary Analysis of Salmonella enterica Serovar Kentucky Sequence Type 198 Isolated From Livestock In East Africa |
| title_sort | genomic and evolutionary analysis of salmonella enterica serovar kentucky sequence type 198 isolated from livestock in east africa |
| topic | antimicrobial resistance foodborne pathogen genetic diversity Salmonella pathogenicity islands salmonellosis whole genome sequencing |
| url | https://www.frontiersin.org/articles/10.3389/fcimb.2022.772829/full |
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