Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing
Abstract Background Salmonella enterica remains a leading cause of food-borne diseases worldwide. Serotype information is important in food safety and public health activities to reduce the burden of salmonellosis. In the current study, two methods were used to determine serotypes of 111 strains of...
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| Format: | Article |
| Language: | English |
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BMC
2021-01-01
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| Series: | BMC Microbiology |
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| Online Access: | https://doi.org/10.1186/s12866-021-02085-6 |
| _version_ | 1818456800432750592 |
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| author | Assèta Kagambèga Lari M. Hiott David S. Boyle Elizabeth A. McMillan Poonam Sharma Sushim K. Gupta Hazem Ramadan Sohyun Cho Shaheen B. Humayoun Tiffanie A. Woodley Nicolas Barro Charlene R. Jackson Jonathan G. Frye |
| author_facet | Assèta Kagambèga Lari M. Hiott David S. Boyle Elizabeth A. McMillan Poonam Sharma Sushim K. Gupta Hazem Ramadan Sohyun Cho Shaheen B. Humayoun Tiffanie A. Woodley Nicolas Barro Charlene R. Jackson Jonathan G. Frye |
| author_sort | Assèta Kagambèga |
| collection | DOAJ |
| description | Abstract Background Salmonella enterica remains a leading cause of food-borne diseases worldwide. Serotype information is important in food safety and public health activities to reduce the burden of salmonellosis. In the current study, two methods were used to determine serotypes of 111 strains of Salmonella isolated from poultry feces in Burkina Faso. First, Salmonella Multiplex Assay for Rapid Typing (SMART) Polymerase Chain Reaction (PCR) was used to determine the serovars of the S. enterica isolates. Second, serovar prediction based on whole genome sequencing (WGS) data was performed using SeqSero 2.0. Results Among the 111 Salmonella isolates, serotypes for 17 (15.31%) isolates were identified based on comparison to a panel of representative SMART codes previously determined for the 50 most common serovars in the United States. Forty-four (44) new SMART codes were developed for common and uncommon serotypes. A total of 105 (94.59%) isolates were serotyped using SeqSero 2.0 for serovar prediction based on WGS data. Conclusion We determined that SeqSero 2.0 was more comprehensive for identifying Salmonella serotypes from Burkina Faso than SMART PCR. |
| first_indexed | 2024-12-14T22:32:26Z |
| format | Article |
| id | doaj.art-402de6121afd4bd1a0bffdfc8f46ee35 |
| institution | Directory Open Access Journal |
| issn | 1471-2180 |
| language | English |
| last_indexed | 2024-12-14T22:32:26Z |
| publishDate | 2021-01-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Microbiology |
| spelling | doaj.art-402de6121afd4bd1a0bffdfc8f46ee352022-12-21T22:45:14ZengBMCBMC Microbiology1471-21802021-01-012111910.1186/s12866-021-02085-6Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencingAssèta Kagambèga0Lari M. Hiott1David S. Boyle2Elizabeth A. McMillan3Poonam Sharma4Sushim K. Gupta5Hazem Ramadan6Sohyun Cho7Shaheen B. Humayoun8Tiffanie A. Woodley9Nicolas Barro10Charlene R. Jackson11Jonathan G. Frye12Bacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSPATHBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSLaboratoire de Biologie Moléculaire, d’épidémiologie et de surveillance des bactéries et virus transmissibles par les aliments (LaBESTA)/Ecole Doctorale Sciences et Technologies (EDST)/Université Joseph KI-ZERBOBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSBacterial Epidemiology and Antimicrobial Resistance Research Unit, U.S. National Poultry Research Center, USDA, ARSAbstract Background Salmonella enterica remains a leading cause of food-borne diseases worldwide. Serotype information is important in food safety and public health activities to reduce the burden of salmonellosis. In the current study, two methods were used to determine serotypes of 111 strains of Salmonella isolated from poultry feces in Burkina Faso. First, Salmonella Multiplex Assay for Rapid Typing (SMART) Polymerase Chain Reaction (PCR) was used to determine the serovars of the S. enterica isolates. Second, serovar prediction based on whole genome sequencing (WGS) data was performed using SeqSero 2.0. Results Among the 111 Salmonella isolates, serotypes for 17 (15.31%) isolates were identified based on comparison to a panel of representative SMART codes previously determined for the 50 most common serovars in the United States. Forty-four (44) new SMART codes were developed for common and uncommon serotypes. A total of 105 (94.59%) isolates were serotyped using SeqSero 2.0 for serovar prediction based on WGS data. Conclusion We determined that SeqSero 2.0 was more comprehensive for identifying Salmonella serotypes from Burkina Faso than SMART PCR.https://doi.org/10.1186/s12866-021-02085-6SalmonellaSerotypingMolecular method |
| spellingShingle | Assèta Kagambèga Lari M. Hiott David S. Boyle Elizabeth A. McMillan Poonam Sharma Sushim K. Gupta Hazem Ramadan Sohyun Cho Shaheen B. Humayoun Tiffanie A. Woodley Nicolas Barro Charlene R. Jackson Jonathan G. Frye Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing BMC Microbiology Salmonella Serotyping Molecular method |
| title | Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing |
| title_full | Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing |
| title_fullStr | Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing |
| title_full_unstemmed | Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing |
| title_short | Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing |
| title_sort | serotyping of sub saharan africa salmonella strains isolated from poultry feces using multiplex pcr and whole genome sequencing |
| topic | Salmonella Serotyping Molecular method |
| url | https://doi.org/10.1186/s12866-021-02085-6 |
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