Understanding microbiomes of the ruminant holobiont

Informazioni relative al progetto

HoloRuminant

ID dell’accordo di sovvenzione: 101000213

DOI

10.3030/101000213

Data della firma CE 6 Maggio 2021

Data di avvio 1 Ottobre 2021

Data di completamento 30 Settembre 2026

Finanziato da

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

Costo totale

€ 10 895 021,00

Contributo UE

€ 9 724 763,75

Coordinato da

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

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Risultati finali

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

Pubblicazioni

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

Autori: Yang, H., Heirbaut, S., Jing, X. et al.
Pubblicato in: Journal of Animal Science and Biotechnology, 2022, ISSN 1674-9782
Editore: 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

Autori: A. Ait Sidhoum, A. Stygar, F. Bedoin, J.K. Niemi
Pubblicato in: animal, Numero 19, 2025, Pagina/e 101380, ISSN 1751-7311
Editore: Cambridge University Press
DOI: 10.1016/j.animal.2024.101380

Protozoal populations drive system-wide variation in the rumen microbiome

Autori: 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
Pubblicato in: Nature Communications, Numero 16, 2025, ISSN 2041-1723
Editore: Nature Publishing Group
DOI: 10.1038/s41467-025-61302-2

Metabolic capabilities of key rumen microbiota drive methane emissions in cattle

Autori: 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
Pubblicato in: mSystems, Numero 10, 2025, ISSN 2379-5077
Editore: American Society for Microbiology
DOI: 10.1128/msystems.00601-25

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

Autori: Stephanie O’Donoghue, Sinéad M. Waters, Derek W. Morris, Bernadette Earley
Pubblicato in: Veterinary Sciences, Numero 12, 2025, Pagina/e 778, ISSN 2306-7381
Editore: 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

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

Empowering bioinformatics communities with Nextflow and nf-core

Autori: 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
Pubblicato in: Genome Biology, Numero 26, 2025, ISSN 1474-760X
Editore: 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

Autori: 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
Pubblicato in: Journal of Dairy Science, Numero 108, 2025, Pagina/e 375-394, ISSN 0022-0302
Editore: 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

Autori: Abimael Ortiz-Chura, Karla Fabiola Corral-Jara, Jeremy Tournayre, Gonzalo Cantalapiedra-Hijar, Milka Popova, Diego P. Morgavi
Pubblicato in: Animal Nutrition, Numero 21, 2025, Pagina/e 378-389, ISSN 2405-6545
Editore: 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

Autori: Terhi Iso-Touru, Daniel Fischer, Frank Panitz, Suvi Taponen, Zexi Cai, Goutam Sahana, Ilma Tapio, Johanna Vilkki
Pubblicato in: Genomics, Numero Volume 117, Numero 5, 2025, ISSN 0888-7543
Editore: 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?

Autori: N. Ayanfe, I. Tapio, S. Ahvenjärvi, M. Rinne, A. Sairanen, A.R. Bayat
Pubblicato in: Journal of Dairy Science, Numero 108, 2025, Pagina/e 8350-8366, ISSN 0022-0302
Editore: American Dairy Science Association
DOI: 10.3168/jds.2024-26108

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

Autori: Carl M Kobel, Velma T E Aho, Ove Øyås, Niels Nørskov-Lauritsen, Ben J Woodcroft, Phillip B Pope
Pubblicato in: Bioinformatics, Numero 41, 2025, ISSN 1367-4803
Editore: Oxford University Press
DOI: 10.1093/bioinformatics/btaf517

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

Autori: Laurianne Voland, Abimael Ortiz-Chura, Jeremy Tournayre, Bruno Martin, Matthieu Bouchon, Alessandra Nicolao, Dominique Pomiès, Diego P. Morgavi, Milka Popova
Pubblicato in: Frontiers in Veterinary Science, Numero 12, 2025, ISSN 2297-1769
Editore: 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

Autori: E. Romera-Recio, E. Ramos-Morales, A. Belanche, M. Hassan, P. Romero, A. Gómez, I. Rivelli, N. Llanes, J. Torra, D.R. Yáñez-Ruiz
Pubblicato in: Animal Feed Science and Technology, Numero 321, 2025, Pagina/e 116243, ISSN 0377-8401
Editore: 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

Autori: S.M. Waters, E. Roskam, P.E. Smith, D.A. Kenny, M. Popova, M. Eugène, D.P. Morgavi
Pubblicato in: Journal of Dairy Science, Numero 108, 2025, Pagina/e 7591-7606, ISSN 0022-0302
Editore: 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

Autori: Terhi Iso-Touru, Frank Panitz, Daniel Fischer, Minna K. Kyläniemi, Suvi Taponen, Jonna Tabell, Anneli Virta, Johanna Vilkki
Pubblicato in: Veterinary Research, Numero 55, 2024, ISSN 1297-9716
Editore: Veterinary research
DOI: 10.1186/s13567-024-01269-y

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

Autori: Abimael Ortiz-Chura, Milka Popova, Diego P. Morgavi
Pubblicato in: Animal Microbiome, Numero 6, 2024, ISSN 2524-4671
Editore: 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

Autori: Sabine Scully, Bernadette Earley, Paul E. Smith, Catherine McAloon, Sinéad M. Waters
Pubblicato in: Frontiers in Microbiology, Numero 15, 2024, ISSN 1664-302X
Editore: Frontiers Media
DOI: 10.3389/fmicb.2024.1359611

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

Autori: Simon Roques, Gonzalo Martinez-Fernandez, Yuliaxis Ramayo-Caldas, Milka Popova, Stuart Denman, Sarah J. Meale, Diego P. Morgavi
Pubblicato in: Annual Review of Animal Biosciences, Numero 12, 2024, Pagina/e 321-343, ISSN 2165-8102
Editore: 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

Autori: Sabine Scully, Bernadette Earley, Paul E. Smith, Matthew S. J. Finnie, Catherine McAloon, Frank Buckley, David A. Kenny, Sinéad M. Waters
Pubblicato in: PLOS One, Numero 20, 2025, Pagina/e e0335718, ISSN 1932-6203
Editore: 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

Autori: 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
Pubblicato in: Genetics Selection Evolution, Numero 57, 2025, ISSN 1297-9686
Editore: Springer Science and Business Media LLC
DOI: 10.1186/s12711-025-00979-x

Integrating host and microbiome biology using holo-omics

Autori: Carl M. Kobel, Jenny Merkesvik, Idun Maria Tokvam Burgos, Wanxin Lai, Ove Øyås, Phillip B. Pope, Torgeir R. Hvidsten, Velma T. E. Aho
Pubblicato in: Molecular Omics, Numero 20, 2024, Pagina/e 438-452, ISSN 2515-4184
Editore: Royal Society of Chemistry (RSC)
DOI: 10.1039/d4mo00017j