Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, Ethiopia
<i>E. coli</i> O157:H7 is a known Shiga toxin-producing <i>Escherichia coli</i> (STEC), causing foodborne disease globally. Cattle are the main reservoir and consumption of beef and beef products contaminated with <i>E. coli</i> O157:H7 is an important source of S...
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MDPI AG
2023-01-01
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| Series: | Microbiology Research |
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| Online Access: | https://www.mdpi.com/2036-7481/14/1/13 |
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| author | Fanta D. Gutema Lieven De Zutter Denis Piérard Bruno Hinckel Hideo Imamura Geertrui Rasschaert Reta D. Abdi Getahun E. Agga Florence Crombé |
| author_facet | Fanta D. Gutema Lieven De Zutter Denis Piérard Bruno Hinckel Hideo Imamura Geertrui Rasschaert Reta D. Abdi Getahun E. Agga Florence Crombé |
| author_sort | Fanta D. Gutema |
| collection | DOAJ |
| description | <i>E. coli</i> O157:H7 is a known Shiga toxin-producing <i>Escherichia coli</i> (STEC), causing foodborne disease globally. Cattle are the main reservoir and consumption of beef and beef products contaminated with <i>E. coli</i> O157:H7 is an important source of STEC infections in humans. To emphasize the cattle-to-human transmission through the consumption of contaminated beef in Bishoftu, Ethiopia, whole-genome sequencing (WGS) was performed on <i>E. coli</i> O157 strains isolated from three sources (cattle, beef, and humans). Forty-four <i>E. coli</i> O157:H7 isolates originating from 23 cattle rectal contents, three cattle hides, five beef carcasses, seven beef cuts at retail shops, and six human stools in Bishoftu between June 2017 and May 2019 were included. This study identified six clusters of closely related <i>E. coli</i> O157:H7 isolates based on core genome multilocus sequence typing (cgMLST) by targeting 2513 loci. A genetic linkage was observed among the isolate genomes from the cattle rectal contents, cattle hides, beef carcasses at slaughterhouses, beef at retail shops, and human stool within a time frame of 20 months. All the strains carried practically the same repertoire of virulence genes except for the <i>stx</i>2 gene, which was present in all but eight of the closely related isolates. All the strains carried the <i>mdf</i>A gene, encoding for the MdfA multi-drug efflux pump. CgMLST analysis revealed genetically linked <i>E. coli</i> O157:H7 isolates circulating in the area, with a potential transmission from cattle to humans through the consumption of contaminated beef and beef products. |
| first_indexed | 2024-03-11T06:09:59Z |
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| institution | Directory Open Access Journal |
| issn | 2036-7481 |
| language | English |
| last_indexed | 2024-03-11T06:09:59Z |
| publishDate | 2023-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Microbiology Research |
| spelling | doaj.art-24a59df293dd4d8aad36d43042fe73352023-11-17T12:41:20ZengMDPI AGMicrobiology Research2036-74812023-01-0114114816010.3390/microbiolres14010013Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, EthiopiaFanta D. Gutema0Lieven De Zutter1Denis Piérard2Bruno Hinckel3Hideo Imamura4Geertrui Rasschaert5Reta D. Abdi6Getahun E. Agga7Florence Crombé8Department of Occupational and Environmental Health, University of Iowa, Iowa City, IA 52242, USADepartment Translational Physiology, Infectiology and Public Health, Faculty of Veterinary Medicine, Ghent University, 9820 Merelbeke, BelgiumLaboratory of Microbiology and Infection Control, Department Clinical Biology, Belgian National Reference Centre for STEC/VTEC, Vrije Universiteit Brussel (VUB), Universitair Ziekenhuis Brussel (UZ Brussel), 1090 Brussels, BelgiumBrussels Interuniversity Genomics High throughput Core (BRIGHTcore) Platform, Vrije Universiteit Brussel (VUB), Universitair Ziekenhuis Brussel (UZ Brussel), Laarbeeklaan, 1090 Brussels, BelgiumBrussels Interuniversity Genomics High throughput Core (BRIGHTcore) Platform, Vrije Universiteit Brussel (VUB), Universitair Ziekenhuis Brussel (UZ Brussel), Laarbeeklaan, 1090 Brussels, BelgiumTechnology and Food Science Unit, Flanders Research Institute for Agriculture, Fisheries and Food, 9090 Melle, BelgiumDepartment of Veterinary Biomedical Sciences, College of Veterinary Medicine, Long Island University, Greenvale, NY 11548, USAFood Animal Environmental Systems Research Unit, U. S. Department of Agriculture, Agricultural Research Service, 2413 Nashville Road, B-5, Bowling Green, KY 42101, USALaboratory of Microbiology and Infection Control, Department Clinical Biology, Belgian National Reference Centre for STEC/VTEC, Vrije Universiteit Brussel (VUB), Universitair Ziekenhuis Brussel (UZ Brussel), 1090 Brussels, Belgium<i>E. coli</i> O157:H7 is a known Shiga toxin-producing <i>Escherichia coli</i> (STEC), causing foodborne disease globally. Cattle are the main reservoir and consumption of beef and beef products contaminated with <i>E. coli</i> O157:H7 is an important source of STEC infections in humans. To emphasize the cattle-to-human transmission through the consumption of contaminated beef in Bishoftu, Ethiopia, whole-genome sequencing (WGS) was performed on <i>E. coli</i> O157 strains isolated from three sources (cattle, beef, and humans). Forty-four <i>E. coli</i> O157:H7 isolates originating from 23 cattle rectal contents, three cattle hides, five beef carcasses, seven beef cuts at retail shops, and six human stools in Bishoftu between June 2017 and May 2019 were included. This study identified six clusters of closely related <i>E. coli</i> O157:H7 isolates based on core genome multilocus sequence typing (cgMLST) by targeting 2513 loci. A genetic linkage was observed among the isolate genomes from the cattle rectal contents, cattle hides, beef carcasses at slaughterhouses, beef at retail shops, and human stool within a time frame of 20 months. All the strains carried practically the same repertoire of virulence genes except for the <i>stx</i>2 gene, which was present in all but eight of the closely related isolates. All the strains carried the <i>mdf</i>A gene, encoding for the MdfA multi-drug efflux pump. CgMLST analysis revealed genetically linked <i>E. coli</i> O157:H7 isolates circulating in the area, with a potential transmission from cattle to humans through the consumption of contaminated beef and beef products.https://www.mdpi.com/2036-7481/14/1/13<i>E. coli</i> O157:H7whole-genome sequencingcgMLSTtransmissionvirulence genesantimicrobial resistance |
| spellingShingle | Fanta D. Gutema Lieven De Zutter Denis Piérard Bruno Hinckel Hideo Imamura Geertrui Rasschaert Reta D. Abdi Getahun E. Agga Florence Crombé Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, Ethiopia Microbiology Research <i>E. coli</i> O157:H7 whole-genome sequencing cgMLST transmission virulence genes antimicrobial resistance |
| title | Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, Ethiopia |
| title_full | Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, Ethiopia |
| title_fullStr | Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, Ethiopia |
| title_full_unstemmed | Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, Ethiopia |
| title_short | Core Genome Sequencing Analysis of <i>E. coli</i> O157:H7 Unravelling Genetic Relatedness among Strains from Cattle, Beef, and Humans in Bishoftu, Ethiopia |
| title_sort | core genome sequencing analysis of i e coli i o157 h7 unravelling genetic relatedness among strains from cattle beef and humans in bishoftu ethiopia |
| topic | <i>E. coli</i> O157:H7 whole-genome sequencing cgMLST transmission virulence genes antimicrobial resistance |
| url | https://www.mdpi.com/2036-7481/14/1/13 |
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