Contribution of farms to the microbiota in the swine value chain
Introduction: A thorough understanding of the microbial ecology within the swine value chain is essential to develop new strategies to optimize the microbiological quality of pork products. To our knowledge, no study to date has followed the microbiota through the value chain from live farm animals...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-07-01
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| Series: | Frontiers in Systems Biology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fsysb.2023.1183868/full |
| _version_ | 1827161966655832064 |
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| author | Pascal Laforge Pascal Laforge Pascal Laforge Antony T. Vincent Antony T. Vincent Antony T. Vincent Caroline Duchaine Caroline Duchaine Perrine Feutry Annick Dion-Fortier Pier-Luc Plante Éric Pouliot Sylvain Fournaise Linda Saucier Linda Saucier Linda Saucier |
| author_facet | Pascal Laforge Pascal Laforge Pascal Laforge Antony T. Vincent Antony T. Vincent Antony T. Vincent Caroline Duchaine Caroline Duchaine Perrine Feutry Annick Dion-Fortier Pier-Luc Plante Éric Pouliot Sylvain Fournaise Linda Saucier Linda Saucier Linda Saucier |
| author_sort | Pascal Laforge |
| collection | DOAJ |
| description | Introduction: A thorough understanding of the microbial ecology within the swine value chain is essential to develop new strategies to optimize the microbiological quality of pork products. To our knowledge, no study to date has followed the microbiota through the value chain from live farm animals to the cuts of meat obtained for market. The objective of this study is to evaluate how the microbiota of pigs and their environment influence the microbial composition of samples collected throughout the value chain, including the meat plant and meat cuts.Method and results: Results from 16S rDNA sequencing, short-chain fatty acid concentrations and metabolomic analysis of pig feces revealed that the microbiota from two farms with differing sanitary statuses were distinctive. The total aerobic mesophilic bacteria and Enterobacteriaceae counts from samples collected at the meat plant after the pre-operation cleaning and disinfection steps were at or around the detection limit and the pigs from the selected farms were the first to be slaughtered on each shipment days. The bacterial counts of individual samples collected at the meat plant did not vary significantly between the farms. Alpha diversity results indicate that as we move through the steps in the value chain, there is a clear reduction in the diversity of the microbiota. A beta diversity analysis revealed a more distinct microbiota at the farms compared to the meat plant which change and became more uniform as samples were taken towards the end of the value chain. The source tracker analysis showed that only 12.92% of the microbiota in shoulder samples originated from the farms and 81% of the bacteria detected on the dressed carcasses were of unknown origin.Discussion: Overall, the results suggest that with the current level of microbial control at farms, it is possible to obtain pork products with similar microbiological quality from different farms. However, broader studies are required to determine the impact of the sanitary status of the herd on the final products. |
| first_indexed | 2024-03-13T00:05:29Z |
| format | Article |
| id | doaj.art-1379d569ffb640c5be9332ed1fbba820 |
| institution | Directory Open Access Journal |
| issn | 2674-0702 |
| language | English |
| last_indexed | 2025-03-21T00:37:19Z |
| publishDate | 2023-07-01 |
| publisher | Frontiers Media S.A. |
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| series | Frontiers in Systems Biology |
| spelling | doaj.art-1379d569ffb640c5be9332ed1fbba8202024-08-03T06:37:28ZengFrontiers Media S.A.Frontiers in Systems Biology2674-07022023-07-01310.3389/fsysb.2023.11838681183868Contribution of farms to the microbiota in the swine value chainPascal Laforge0Pascal Laforge1Pascal Laforge2Antony T. Vincent3Antony T. Vincent4Antony T. Vincent5Caroline Duchaine6Caroline Duchaine7Perrine Feutry8Annick Dion-Fortier9Pier-Luc Plante10Éric Pouliot11Sylvain Fournaise12Linda Saucier13Linda Saucier14Linda Saucier15Département des sciences animales, Université Laval, Québec, QC, CanadaInstitut sur la nutrition et les aliments fonctionnels, Université Laval, Québec, QC, CanadaCentre de recherche en infectiologie porcine et avicole, Faculté de médecine vétérinaire, Université de Montréal, Saint-Hyacinthe, QC, CanadaDépartement des sciences animales, Université Laval, Québec, QC, CanadaInstitut sur la nutrition et les aliments fonctionnels, Université Laval, Québec, QC, CanadaCentre de recherche en infectiologie porcine et avicole, Faculté de médecine vétérinaire, Université de Montréal, Saint-Hyacinthe, QC, CanadaCentre de recherche en infectiologie porcine et avicole, Faculté de médecine vétérinaire, Université de Montréal, Saint-Hyacinthe, QC, CanadaDépartement de biochimie, microbiologie et bio-Informatique, Université Laval, Québec, QC, CanadaInstitut sur la nutrition et les aliments fonctionnels, Université Laval, Québec, QC, CanadaInstitut sur la nutrition et les aliments fonctionnels, Université Laval, Québec, QC, CanadaInstitut sur la nutrition et les aliments fonctionnels, Université Laval, Québec, QC, CanadaOlymel S.E.C./L.P., Boucherville, QC, CanadaOlymel S.E.C./L.P., Boucherville, QC, CanadaDépartement des sciences animales, Université Laval, Québec, QC, CanadaInstitut sur la nutrition et les aliments fonctionnels, Université Laval, Québec, QC, CanadaCentre de recherche en infectiologie porcine et avicole, Faculté de médecine vétérinaire, Université de Montréal, Saint-Hyacinthe, QC, CanadaIntroduction: A thorough understanding of the microbial ecology within the swine value chain is essential to develop new strategies to optimize the microbiological quality of pork products. To our knowledge, no study to date has followed the microbiota through the value chain from live farm animals to the cuts of meat obtained for market. The objective of this study is to evaluate how the microbiota of pigs and their environment influence the microbial composition of samples collected throughout the value chain, including the meat plant and meat cuts.Method and results: Results from 16S rDNA sequencing, short-chain fatty acid concentrations and metabolomic analysis of pig feces revealed that the microbiota from two farms with differing sanitary statuses were distinctive. The total aerobic mesophilic bacteria and Enterobacteriaceae counts from samples collected at the meat plant after the pre-operation cleaning and disinfection steps were at or around the detection limit and the pigs from the selected farms were the first to be slaughtered on each shipment days. The bacterial counts of individual samples collected at the meat plant did not vary significantly between the farms. Alpha diversity results indicate that as we move through the steps in the value chain, there is a clear reduction in the diversity of the microbiota. A beta diversity analysis revealed a more distinct microbiota at the farms compared to the meat plant which change and became more uniform as samples were taken towards the end of the value chain. The source tracker analysis showed that only 12.92% of the microbiota in shoulder samples originated from the farms and 81% of the bacteria detected on the dressed carcasses were of unknown origin.Discussion: Overall, the results suggest that with the current level of microbial control at farms, it is possible to obtain pork products with similar microbiological quality from different farms. However, broader studies are required to determine the impact of the sanitary status of the herd on the final products.https://www.frontiersin.org/articles/10.3389/fsysb.2023.1183868/fullsanitary statusswine value chainfood safety16S rDNAmicrobiotamicrobial ecology |
| spellingShingle | Pascal Laforge Pascal Laforge Pascal Laforge Antony T. Vincent Antony T. Vincent Antony T. Vincent Caroline Duchaine Caroline Duchaine Perrine Feutry Annick Dion-Fortier Pier-Luc Plante Éric Pouliot Sylvain Fournaise Linda Saucier Linda Saucier Linda Saucier Contribution of farms to the microbiota in the swine value chain Frontiers in Systems Biology sanitary status swine value chain food safety 16S rDNA microbiota microbial ecology |
| title | Contribution of farms to the microbiota in the swine value chain |
| title_full | Contribution of farms to the microbiota in the swine value chain |
| title_fullStr | Contribution of farms to the microbiota in the swine value chain |
| title_full_unstemmed | Contribution of farms to the microbiota in the swine value chain |
| title_short | Contribution of farms to the microbiota in the swine value chain |
| title_sort | contribution of farms to the microbiota in the swine value chain |
| topic | sanitary status swine value chain food safety 16S rDNA microbiota microbial ecology |
| url | https://www.frontiersin.org/articles/10.3389/fsysb.2023.1183868/full |
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