Understanding microbiomes of the ruminant holobiont

Información del proyecto

HoloRuminant

Identificador del acuerdo de subvención: 101000213

DOI

10.3030/101000213

Fecha de la firma de la CE 6 Mayo 2021

Fecha de inicio 1 Octubre 2021

Fecha de finalización 30 Septiembre 2026

Financiado con arreglo a

• SOCIETAL CHALLENGES - Food security, sustainable agriculture and forestry, marine, maritime and inland water research, and the bioeconomy

Coste total

€ 10 895 021,00

Aportación de la UE

€ 9 724 763,75

Coordinado por

INSTITUT NATIONAL DE RECHERCHE POUR L'AGRICULTURE, L'ALIMENTATION ET L'ENVIRONNEMENT
France

CORDIS proporciona enlaces a los documentos públicos y las publicaciones de los proyectos de los programas marco HORIZONTE.

Los enlaces a los documentos y las publicaciones de los proyectos del Séptimo Programa Marco, así como los enlaces a algunos tipos de resultados específicos, como conjuntos de datos y «software», se obtienen dinámicamente de OpenAIRE .

Resultado final

Open Research Data Pilot (2)

HoloRuminant Data Management Plan (update at M18)

HoloRuminant Data Management Plan update at M18

HoloRuminant Data Management Plan

Documents, reports (1)

Communication toolkit and project identity

Publicaciones

Peer reviewed articles (22)

Susceptibility of dairy cows to subacute ruminal acidosis is reflected in both prepartum and postpartum bacteria as well as odd- and branched-chain fatty acids in feces

Autores: Yang, H., Heirbaut, S., Jing, X. et al.
Publicado en: Journal of Animal Science and Biotechnology, 2022, ISSN 1674-9782
Editor: BioMed Central
DOI: 10.1186/s40104-022-00738-8

Public acceptance of microbiome management strategy in dairy calves: a European survey on colostrum, probiotic provision and prolonged cow-calf contact

Autores: A. Ait Sidhoum, A. Stygar, F. Bedoin, J.K. Niemi
Publicado en: animal, Edición 19, 2025, Página(s) 101380, ISSN 1751-7311
Editor: Cambridge University Press
DOI: 10.1016/j.animal.2024.101380

Protozoal populations drive system-wide variation in the rumen microbiome

Autores: Carl M. Kobel, Andy Leu, Arturo Vera-Ponce de León, Ove Øyås, Wanxin Lai, Ianina Altshuler, Live H. Hagen, Rasmus D. Wollenberg, Mads T. Søndergaard, Cassie R. Bakshani, William G. T. Willats, Laura Nicoll, Simon J. McIlroy, Torgeir R. Hvidsten, Oliver Schmidt, Chris Greening, Gene W. Tyson, Rainer Roehe, Velma T. E. Aho, Phillip B. Pope
Publicado en: Nature Communications, Edición 16, 2025, ISSN 2041-1723
Editor: Nature Publishing Group
DOI: 10.1038/s41467-025-61302-2

Metabolic capabilities of key rumen microbiota drive methane emissions in cattle

Autores: Wanxin Lai, Antton Alberdi, Andy Leu, Arturo V. P. de Leon, Carl M. Kobel, Velma T. E. Aho, Rainer Roehe, Phil B. Pope, Torgeir R. Hvidsten
Publicado en: mSystems, Edición 10, 2025, ISSN 2379-5077
Editor: American Society for Microbiology
DOI: 10.1128/msystems.00601-25

A Comprehensive Review: Bovine Respiratory Disease, Current Insights into Epidemiology, Diagnostic Challenges, and Vaccination

Autores: Stephanie O’Donoghue, Sinéad M. Waters, Derek W. Morris, Bernadette Earley
Publicado en: Veterinary Sciences, Edición 12, 2025, Página(s) 778, ISSN 2306-7381
Editor: MDPI AG
DOI: 10.3390/vetsci12080778

Subacute ruminal acidosis phenotypes in periparturient dairy cows differ in ruminal and salivary bacteria and in the in vitro fermentative activity of their ruminal microbiota

Autores: H. Yang, S. Heirbaut, J. Jeyanathan, X.P. Jing, N. De Neve, L. Vandaele, V. Fievez
Publicado en: Journal of Dairy Science, 2022, ISSN 0022-0302
Editor: American Dairy Science Association
DOI: 10.3168/jds.2021-21115

Empowering bioinformatics communities with Nextflow and nf-core

Autores: Björn E. Langer, Andreia Amaral, Marie-Odile Baudement, Franziska Bonath, Mathieu Charles, Praveen Krishna Chitneedi, Emily L. Clark, Paolo Di Tommaso, Sarah Djebali, Philip A. Ewels, Sonia Eynard, James A. Fellows Yates, Daniel Fischer, Evan W. Floden, Sylvain Foissac, Gisela Gabernet, Maxime U. Garcia, Gareth Gillard, Manu Kumar Gundappa, Cervin Guyomar, Christopher Hakkaart, Friederike Hanssen
Publicado en: Genome Biology, Edición 26, 2025, ISSN 1474-760X
Editor: Springer Science and Business Media LLC
DOI: 10.1186/s13059-025-03673-9

Feed additives for methane mitigation: A guideline to uncover the mode of action of antimethanogenic feed additives for ruminants

Autores: Alejandro Belanche, André Bannink, Jan Dijkstra, Zoey Durmic, Florencia Garcia, Fernanda G. Santos, Sharon Huws, Jeyamalar Jeyanathan, Peter Lund, Roderick I. Mackie, Tim A. McAllister, Diego P. Morgavi, Stefan Muetzel, Dipti W. Pitta, David R. Yáñez-Ruiz, Emilio M. Ungerfeld
Publicado en: Journal of Dairy Science, Edición 108, 2025, Página(s) 375-394, ISSN 0022-0302
Editor: American Dairy Science Association
DOI: 10.3168/jds.2024-25046

Rumen microbiota associated with feed efficiency in beef cattle are highly influenced by diet composition

Autores: Abimael Ortiz-Chura, Karla Fabiola Corral-Jara, Jeremy Tournayre, Gonzalo Cantalapiedra-Hijar, Milka Popova, Diego P. Morgavi
Publicado en: Animal Nutrition, Edición 21, 2025, Página(s) 378-389, ISSN 2405-6545
Editor: Elsevier BV
DOI: 10.1016/j.aninu.2024.11.027

Response of Primary Mammary Epithelial Cells to Pathogen Challenge in Dairy Cows with Divergent Genomic Breeding Values for Udder Health

Autores: Terhi Iso-Touru, Daniel Fischer, Frank Panitz, Suvi Taponen, Zexi Cai, Goutam Sahana, Ilma Tapio, Johanna Vilkki
Publicado en: Genomics, Edición Volume 117, Edición 5, 2025, ISSN 0888-7543
Editor: Academic Press
DOI: 10.2139/ssrn.5277413

Can high-lipid concentrates offset the high enteric methane production caused by high-forage diets fed to lactating dairy cows?

Autores: N. Ayanfe, I. Tapio, S. Ahvenjärvi, M. Rinne, A. Sairanen, A.R. Bayat
Publicado en: Journal of Dairy Science, Edición 108, 2025, Página(s) 8350-8366, ISSN 0022-0302
Editor: American Dairy Science Association
DOI: 10.3168/jds.2024-26108

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes

Autores: Carl M Kobel, Velma T E Aho, Ove Øyås, Niels Nørskov-Lauritsen, Ben J Woodcroft, Phillip B Pope
Publicado en: Bioinformatics, Edición 41, 2025, ISSN 1367-4803
Editor: Oxford University Press
DOI: 10.1093/bioinformatics/btaf517

Duration of dam contact had a long effect on calf rumen microbiota without affecting growth

Autores: Laurianne Voland, Abimael Ortiz-Chura, Jeremy Tournayre, Bruno Martin, Matthieu Bouchon, Alessandra Nicolao, Dominique Pomiès, Diego P. Morgavi, Milka Popova
Publicado en: Frontiers in Veterinary Science, Edición 12, 2025, ISSN 2297-1769
Editor: Frontiers Media SA
DOI: 10.3389/fvets.2025.1548892

Effects of feed additives in the diet of male dairy beef calves on physiological status and rumen microbial fermentation pre- and postweaning

Autores: E. Romera-Recio, E. Ramos-Morales, A. Belanche, M. Hassan, P. Romero, A. Gómez, I. Rivelli, N. Llanes, J. Torra, D.R. Yáñez-Ruiz
Publicado en: Animal Feed Science and Technology, Edición 321, 2025, Página(s) 116243, ISSN 0377-8401
Editor: Elsevier BV
DOI: 10.1016/j.anifeedsci.2025.116243

International Symposium on Ruminant Physiology: The role of rumen microbiome in the development of methane mitigation strategies for ruminant livestock

Autores: S.M. Waters, E. Roskam, P.E. Smith, D.A. Kenny, M. Popova, M. Eugène, D.P. Morgavi
Publicado en: Journal of Dairy Science, Edición 108, 2025, Página(s) 7591-7606, ISSN 0022-0302
Editor: American Dairy Science Association
DOI: 10.3168/jds.2024-25778

Genes and pathways revealed by whole transcriptome analysis of milk derived bovine mammary epithelial cells after Escherichia coli challenge

Autores: Terhi Iso-Touru, Frank Panitz, Daniel Fischer, Minna K. Kyläniemi, Suvi Taponen, Jonna Tabell, Anneli Virta, Johanna Vilkki
Publicado en: Veterinary Research, Edición 55, 2024, ISSN 1297-9716
Editor: Veterinary research
DOI: 10.1186/s13567-024-01269-y

Ruminant microbiome data are skewed and unFAIR, undermining their usefulness for sustainable production improvement

Autores: Abimael Ortiz-Chura, Milka Popova, Diego P. Morgavi
Publicado en: Animal Microbiome, Edición 6, 2024, ISSN 2524-4671
Editor: National Library of Medicine
DOI: 10.1186/s42523-024-00348-x

Health-associated changes of the fecal microbiota in dairy heifer calves during the pre-weaning period

Autores: Sabine Scully, Bernadette Earley, Paul E. Smith, Catherine McAloon, Sinéad M. Waters
Publicado en: Frontiers in Microbiology, Edición 15, 2024, ISSN 1664-302X
Editor: Frontiers Media
DOI: 10.3389/fmicb.2024.1359611

Recent Advances in Enteric Methane Mitigation and the Long Road to Sustainable Ruminant Production

Autores: Simon Roques, Gonzalo Martinez-Fernandez, Yuliaxis Ramayo-Caldas, Milka Popova, Stuart Denman, Sarah J. Meale, Diego P. Morgavi
Publicado en: Annual Review of Animal Biosciences, Edición 12, 2024, Página(s) 321-343, ISSN 2165-8102
Editor: Annual Reviews Inc.
DOI: 10.1146/annurev-animal-021022-024931

Characterisation of the bacterial and archaeal microbiota in fresh colostrum collected from a single, spring-calving dairy herd

Autores: Sabine Scully, Bernadette Earley, Paul E. Smith, Matthew S. J. Finnie, Catherine McAloon, Frank Buckley, David A. Kenny, Sinéad M. Waters
Publicado en: PLOS One, Edición 20, 2025, Página(s) e0335718, ISSN 1932-6203
Editor: Public Library of Science
DOI: 10.1371/journal.pone.0335718

Co-occurring microbial guilds in pig fecal microbiota: key drivers and effects on host performance

Autores: Ioanna-Theoni Vourlaki, Raquel Rio-Lopez, Adrià Clavell-Sansalvador, Lino C. Ramírez-Ayala, Maria Ballester, Juan P. Sanchez, Miriam Piles, Raquel Quintanilla, Angela C. da Fonseca de Oliveira, Leandro Batista Costa, Antoni Dalmau, Yuliaxis Ramayo-Caldas
Publicado en: Genetics Selection Evolution, Edición 57, 2025, ISSN 1297-9686
Editor: Springer Science and Business Media LLC
DOI: 10.1186/s12711-025-00979-x

Integrating host and microbiome biology using holo-omics

Autores: Carl M. Kobel, Jenny Merkesvik, Idun Maria Tokvam Burgos, Wanxin Lai, Ove Øyås, Phillip B. Pope, Torgeir R. Hvidsten, Velma T. E. Aho
Publicado en: Molecular Omics, Edición 20, 2024, Página(s) 438-452, ISSN 2515-4184
Editor: Royal Society of Chemistry (RSC)
DOI: 10.1039/d4mo00017j