A heritable subset of the core rumen microbiome dictates dairy cow productivity and emissions
Open accessAbstract
A 1000-cow study across four European countries was undertaken to understand to what extent ruminant microbiomes can be controlled by the host animal and to identify characteristics of the host rumen microbiome axis that determine productivity and methane emissions. A core rumen microbiome, phylogenetically linked and with a preserved hierarchical structure, was identified. A 39-member subset of the core formed hubs in co-occurrence networks linking microbiome structure to host genetics and phenotype (methane emissions, rumen and blood metabolites, and milk production efficiency). These phenotypes can be predicted from the core microbiome using machine learning algorithms. The heritable core microbes, therefore, present primary targets for rumen manipulation toward sustainable and environmentally friendly agriculture.
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Shotgun metagenomics can identify rumen microbial communities and genetic markers associated with CH4 emissions, allowing selection of cattle with less CH4 emissions.
“Shotgun metagenomics provides a platform to identify rumen microbial communities and genetic markers associated with CH4 emissions, allowing the selection of cattle with less CH4 emissions.135, 136, 137”
From Technologies and perspectives for achieving carbon neutrality (2021) · cites this paper as [136]
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- Authors
- Wallace, R. J., Sasson, G., Garnsworthy, P. C., Tapio, I., Gregson, E., Bani, P., Huhtanen, P., Bayat, A. R., Strozzi, F., Biscarini, F., Snelling, T. J., Saunders, N., Potterton, S. L., Craigon, J., Minuti, A., Trevisi, E., Callegari, M. L., Cappelli, F. P., Cabezas-Garcia, E. H., Vilkki, J., Pinares-Patino, C., Fliegerová, K. O., Mrázek, J., Sechovcová, H., Kopečný, J., Bonin, A., Boyer, F., Taberlet, P., Kokou, F., Halperin, E., Williams, J. L., Shingfield, K. J., & Mizrahi, I.
- Affiliations
- University of Aberdeen (GB)
- Ben-Gurion University of the Negev (IL)
- University of Nottingham (GB)
- Natural Resources Institute Finland (FI)
- Università Cattolica del Sacro Cuore (IT)
- Swedish University of Agricultural Sciences (SE)
- Parco Tecnologico Padano (IT)
- University of Nottingham, School of Biosciences, Sutton Bonington Campus, Loughborough LE12 5RD, UK.
- Department of Animal Science, Food and Nutrition-DIANA, Università Cattolica del Sacro Cuore, 29122 Piacenza, Italy.
- Production Systems, Natural Resources Institute Finland (Luke), 31600 Jokioinen, Finland.
- Institute of Animal Physiology and Genetics, CAS, v.v.i., Vídeňská 1083, Prague 14220, Czech Republic.
- Czech Academy of Sciences, Institute of Animal Physiology and Genetics (CZ)
- Centre National de la Recherche Scientifique (FR)
- University of California, Los Angeles (US)
- Corresponding author
- Wallace, R. John
- Mizrahi, Itzhak
- ORCID
- Wallace, R. John
- Sasson, Goor
- Garnsworthy, Philip C.
- Tapio, Ilma
- Gregson, Emma
- Bani, Paolo
- Huhtanen, Pekka
- Bayat, Ali R.
- Strozzi, Francesco
- Biscarini, Filippo
- Snelling, Timothy J.
- Saunders, Neil
- Craigon, James
- Minuti, Andrea
- Trevisi, Erminio
- Callegari, Maria L.
- Cappelli, Fiorenzo Piccioli
- Cabezas-Garcia, Edward H.
- Vilkki, Johanna
- Fliegerová, Kateřina O.
- Mrázek, Jakub
- Sechovcová, Hana
- Kopečný, Jan
- Bonin, Aurélie
- Boyer, Frédéric
- Taberlet, Pierre
- Kokou, Fotini
- Halperin, Eran
- Williams, John L.
- Mizrahi, Itzhak
- Venue
- Science Advances
- Published
- 2019-07-05
- Volume
- 5
- Issue
- 7
- Pages
- eaav8391-eaav8391
- ISSN
- 2375-2548 (ISSN-L)
- PMC
- PMC6609165
- OpenAlex
- W2955957648
- Cited by
- 410
- References
- 65
- Citations by year
- 2026: 40 · 2025: 58 · 2024: 78 · 2023: 68 · 2022: 65 · 2021: 48 · 2020: 50 · 2019: 3
- FWCI
- 58.52
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Locations
- Science Advances (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion, cc-by-nc)
- PubMed Central (publishedVersion, cc-by-nc)
- PubMed (publishedVersion)
- Repository@Nottingham (University of Nottingham) (submittedVersion, cc-by-nc)
- HAL (submittedVersion, other-oa)
- Adelaide Research & Scholarship (AR&S) (University of Adelaide) (submittedVersion, cc-by-nc)
- Jukuri (Natural Resources Institute Finland (Luke)) (submittedVersion)
- PubliCatt (Università Cattolica del Sacro Cuore) (submittedVersion, cc-by-nc)
- Funders
- European Commission Directorate-General for Research and Innovation (289319)
- Horizon 2020 (640384)
- Topics
- Life Sciences › Agricultural and Biological Sciences › Agronomy and Crop Science › Ruminant Nutrition and Digestive Physiology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Physical Sciences › Engineering › Building and Construction › Anaerobic Digestion and Biogas Production
- Keywords
- rumen microbiome, dairy cattle, core microbiome, host genetics, methane emissions, milk production efficiency, rumen metabolites, blood metabolites, co-occurrence networks, host-microbe interactions, heritability, sustainable agriculture
- MeSH terms
- Gastrointestinal Microbiome, Animals, Blood, Cattle, Female, Methane, Milk, Phenotype, Phylogeny, Rumen, Cohort Studies
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