Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia
Background: Scavenging indigenous village chickens play a vital role in sub-Saharan Africa, sustaining the livelihood of millions of farmers. These chickens are exposed to vastly different environments and feeds compared to commercial chickens. In this study, we analysed the caecal microbiota of 243...
| Main Authors: | , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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BioMed Central
2024
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/149215 |
| _version_ | 1855534025957965824 |
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| author | Glendinning, L. Jia, X. Kebede, Adebabay Oyola, Samuel O. Park, J.-E. Park, W. Assiri, A. Holm, J.B. Kristiansen, K. Han Jianlin Hanotte, Olivier H. |
| author_browse | Assiri, A. Glendinning, L. Han Jianlin Hanotte, Olivier H. Holm, J.B. Jia, X. Kebede, Adebabay Kristiansen, K. Oyola, Samuel O. Park, J.-E. Park, W. |
| author_facet | Glendinning, L. Jia, X. Kebede, Adebabay Oyola, Samuel O. Park, J.-E. Park, W. Assiri, A. Holm, J.B. Kristiansen, K. Han Jianlin Hanotte, Olivier H. |
| author_sort | Glendinning, L. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Background: Scavenging indigenous village chickens play a vital role in sub-Saharan Africa, sustaining the livelihood of millions of farmers. These chickens are exposed to vastly different environments and feeds compared to commercial chickens. In this study, we analysed the caecal microbiota of 243 Ethiopian village chickens living in different altitude-dependent agro-ecologies.
Results: Differences in bacterial diversity were significantly correlated with differences in specific climate factors, topsoil characteristics, and supplemental diets provided by farmers. Microbiota clustered into three enterotypes, with one particularly enriched at high altitudes. We assembled 9977 taxonomically and functionally diverse metagenome-assembled genomes. The vast majority of these were not found in a dataset of previously published chicken microbes or in the Genome Taxonomy Database.
Conclusions: The wide functional and taxonomic diversity of these microbes highlights their importance in the local adaptation of indigenous poultry, and the significant impacts of environmental factors on the microbiota argue for further discoveries in other agro-ecologies. |
| format | Journal Article |
| id | CGSpace149215 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | BioMed Central |
| publisherStr | BioMed Central |
| record_format | dspace |
| spelling | CGSpace1492152025-12-08T10:06:44Z Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia Glendinning, L. Jia, X. Kebede, Adebabay Oyola, Samuel O. Park, J.-E. Park, W. Assiri, A. Holm, J.B. Kristiansen, K. Han Jianlin Hanotte, Olivier H. poultry metagenomics microbiomes agroecology Background: Scavenging indigenous village chickens play a vital role in sub-Saharan Africa, sustaining the livelihood of millions of farmers. These chickens are exposed to vastly different environments and feeds compared to commercial chickens. In this study, we analysed the caecal microbiota of 243 Ethiopian village chickens living in different altitude-dependent agro-ecologies. Results: Differences in bacterial diversity were significantly correlated with differences in specific climate factors, topsoil characteristics, and supplemental diets provided by farmers. Microbiota clustered into three enterotypes, with one particularly enriched at high altitudes. We assembled 9977 taxonomically and functionally diverse metagenome-assembled genomes. The vast majority of these were not found in a dataset of previously published chicken microbes or in the Genome Taxonomy Database. Conclusions: The wide functional and taxonomic diversity of these microbes highlights their importance in the local adaptation of indigenous poultry, and the significant impacts of environmental factors on the microbiota argue for further discoveries in other agro-ecologies. 2024-07-23 2024-07-24T06:53:42Z 2024-07-24T06:53:42Z Journal Article https://hdl.handle.net/10568/149215 en Open Access BioMed Central Glendinning, L., Jia, X., Kebede, A., Oyola, S.O., Park, J.-E., Park, W., Assiri, A., Holm, J.B., Kristiansen, K., Han, J. and Hanotte, O. 2024. Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia. Microbiome 12: 138. |
| spellingShingle | poultry metagenomics microbiomes agroecology Glendinning, L. Jia, X. Kebede, Adebabay Oyola, Samuel O. Park, J.-E. Park, W. Assiri, A. Holm, J.B. Kristiansen, K. Han Jianlin Hanotte, Olivier H. Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia |
| title | Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia |
| title_full | Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia |
| title_fullStr | Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia |
| title_full_unstemmed | Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia |
| title_short | Altitude-dependent agro-ecologies impact the microbiome diversity of scavenging indigenous chicken in Ethiopia |
| title_sort | altitude dependent agro ecologies impact the microbiome diversity of scavenging indigenous chicken in ethiopia |
| topic | poultry metagenomics microbiomes agroecology |
| url | https://hdl.handle.net/10568/149215 |
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