GEroNIMO: Genome and Epigenome eNabled breedIng in MOnogastrics

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

Practice Abstracts - batch 1

This deliverable contains at least 2 practice abstracts.

Adaptation of the optiSel R Package

Adaptation of the optiSel R Package to account for major genes.

Report on communication and dissemination activities

Report summarizing the main communication and dissemination materials and events.

Models to define the causal relationships between main ELP traits

A report describing the relationships between ELP traits and identifying the factors, including epigenetic, that influence the trade-offs between traits, using data from WP1 and WP2.

Report on the surveys assessing management schemes of local breeds over Europe in monogastrics

A compilation of the answers of different breeds and species will be performed.

Models to predict phenotypes and breeding values based on genomic and epigenetic profiles

A report with results regarding phenotype prediction quality of the different models evaluated will be delivered.

Characterization of DNA methylation in pig and chicken

Analysis of DNA methylation data and estimation of DNA methylation heritability to be used in WP4.

Comprehensive phenotype recording for ELP traits in pig and chicken

Large-scale phenotype recording will be made available for traits related to quality (egg, sperm and meat), egg production, feed efficiency, health and growth.

Empirical validation of models considering epigenetic profiles when dissecting phenotypic variance in its underlying sources

This deliverable will describe empirical validation of all the models developed in Task 4.1, using data generated in WP1 and WP2. This includes demonstration of how the models work, as well as reporting the proportions of phenotypic variance explained by each source.

Simulation study of breeding strategies for a dual-purpose breed

A simulation study of different breeding strategies for establishing a dual-purpose breed from two divergently selected chicken breeds, incorporating optimum contributions selection to control for genetic diversity, will be reported.

Stakeholders devoted tools to deal with genomics innovation

Propose early warning systems to highlight unexpected consequences of using genomics innovation and tools for professionals to deal with both the societal and ethical dimensions of genomics innovation.

Genetic and epigenetic landscape for pigs and chicken

A report on landscape genetic and epigenetic analysis for pig and chicken.

Characterization of feed and heat stress on epigenetic variation in chicken and pig

Differential methylated regions between control and stressed individuals will be detected in different breeds of pigs and chickens and integrated with transcriptomes and phenotypes for better understanding epi/genetic adaptation to feed and heat stresses.

Multi-actor Approach Report

Report summarizing main activities done with stakeholders including an assessment of main problems faced by partners working with stakeholders and contingency measures implemented to tackle and resolve them. Update at M60 includes an assessment of the impact and effectiveness of Stakeholders participation in the project.

Report on training activities

Report summarizing the training materials and events.

Identification of methylation lifetime changes in relation to welfare in chicken

Epigenetic variation throughout chicken lifetime will be estimated and will be correlated with behavioural and welfare traits phenotypic variation.

The importance of national and regional dimensions on the societal and ethical concerns of genomics innovations

An analysis of national and regional dimensions for the societal and ethical concerns will be delivered, tailored to the context of genomics innovation and animal breeding.

Interviews and focus groups feedbacks about the evaluation of genomics innovations

A report on the results of the interviews and focus groups in four countries will be made available.

Technical, societal and ethical feasibility of epigenetic editing

A broad analysis of feasibility of performance of targeted epimutations in pigs will be performed to highlight technical feasibility and societal and ethical acceptance.

Outreach, Dissemination and Training Plan (ODTP)

ODTP will be submitted at M6 and will be regularly updated in the course of the project depending on the project progress, newly available opportunities for communication and dissemination activities.

Characterization of the seasonality impact on epigenetic variation in pig

Data integration of methylation patterns with other data (RNA-seq, phenotypes and climate indices) will be performed to identify significant correlations between epigenetic variation, seasonality in relation to female prolificacy and male sperm quality.

Pubblicazioni

Intra-individual variation of hen movements is associated with later keel bone fractures in a quasi-commercial aviary

Autori: Camille M. Montalcini, Michael J. Toscano, Sabine G. Gebhardt-Henrich, Matthew B. Petelle
Pubblicato in: Scientific Reports, Numero 13, 2023, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-023-29587-9

O197 Assessing multiphase feeding sequencing plan designed for fatty type pigs in indoor and outdoor heavy pig production systems by modeling – an example of Krškopolje pig

Autori: N. Batorek-Lukač, M. Škrlep, K. Poklukar, S. Millet, M. Čandek-Potokar
Pubblicato in: Animal - science proceedings, Numero 13, 2023, Pagina/e 495-496, ISSN 2772-283X
Editore: Elsevier BV
DOI: 10.1016/j.anscip.2022.07.207

Keel bone fractures affect laying hens’ mobility, but no evidence for reciprocal effects

Autori: Camille M. Montalcini, Michael J. Toscano, Lucy Asher, Matthew B. Petelle
Pubblicato in: PLOS ONE, Numero 19, 2024, Pagina/e e0306384, ISSN 1932-6203
Editore: Public Library of Science
DOI: 10.1371/journal.pone.0306384

Detection of quantitative trait loci and genetic correlations of lipid reserves and production traits in aging laying hens

Autori: Alexandre Hubert, Fabien Degalez, Nicolas Bedere, Coralie Allain, Lorry Becot, Quentin Berger, Thierry Burlot, Mathieu Emily, Alexandre Ferry, Laetitia Lagoutte, Alexandre Langon, Bénédicte Lebez, Marie-Pierre Sanchez, Thierry Tribout, Frédérique Pitel, Tatiana Zerjal, Sophie Allais, Sandrine Lagarrigue
Pubblicato in: Poultry Science, Numero 105, 2026, Pagina/e 106963, ISSN 0032-5791
Editore: Poultry Science Association Inc.
DOI: 10.1016/j.psj.2026.106963

Genetic architecture of backfat thickness in laying hens: implications for extended egg production

Autori: Nicolas Bédère, Frédéric Hérault, Lorry Bécot, Thierry Burlot, Christian Diot, Sandrine Lagarrigue, Pascale Le Roy
Pubblicato in: Genetics Selection Evolution, Numero 58, 2026, ISSN 1297-9686
Editore: Springer Science and Business Media LLC
DOI: 10.1186/s12711-026-01036-x

Turopolje Pig: Between Conservation and Sustainability

Autori: D. Skorput, A. Kaic, M. Spehar, D. Karolyi, Z. Lukovic
Pubblicato in: Sustainability, 2024, ISSN 2071-1050
Editore: MDPI Open Access Publishing
DOI: 10.3390/su16051786

Commercial hatchery practices have long-lasting effects on laying hens’ spatial behaviour and health

Autori: Camille M. Montalcini, Matthew B. Petelle, Michael J. Toscano
Pubblicato in: PLOS ONE, Numero 18, 2023, Pagina/e e0295560, ISSN 1932-6203
Editore: Public Library of Science
DOI: 10.1371/journal.pone.0295560

Enriched atlas of IncRNA and protein-coding genes for the GRCg7b chicken assembly and its functional annotation across 47 tissues

Autori: F. Degalez, M. Charles, S. Foissac, H. Zhou, D. Guan, L. Fang, C. Klopp, C. Allain, L. Lagoutte, F. Lecerf, H. Acloque, E. Giuffra, F. Pitel, S. Lagarrigue
Pubblicato in: Scientific Reports, 2024, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-024-56705-y

Establishing the ELIXIR Domestic Animals Genome and Phenome Community

Autori: Emily L Clark, Andreia Amaral, Damir Baranasic, Endre Barta, Geena Cartick, Physilia Chua, Jose Espinosa-Carrasco, Lingzhao Fang, Daniel Fischer, Sarah O Fischer, Sylvain Foissac, Gareth Gillard, Elisabetta Giuffra, Tina Hartwig, Katharina F Heil, Christiaan Henkel, Haja N. Kadarmideen, Tomas Klingström, David E MacHugh, Brenda M Murdoch, Cedric Notredame, John O-Grady, Joseph Robertson, Patrick
Pubblicato in: F1000Research, Numero 15, 2026, Pagina/e 339, ISSN 2046-1402
Editore: F1000 Research Ltd.
DOI: 10.12688/f1000research.177500.1

A single-locus quantitative genetic model incorporating DNA methylation

Autori: L. Ayres, H. Bovenhuis, M.P.L. Calus
Pubblicato in: Journal of Theoretical Biology, Numero 607, 2025, Pagina/e 112110, ISSN 0022-5193
Editore: Academic Press
DOI: 10.1016/j.jtbi.2025.112110

Incorporating transcriptomic data into genomic prediction models to improve the prediction accuracy of phenotypes of efficiency traits

Autori: Valentin P. Haas, Robin Wellmann, Pascal Duenk, Michael Oster, Siriluck Ponsuksili, Jörn Bennewitz, Mario P. L. Calus
Pubblicato in: Genetics Selection Evolution, Numero 57, 2025, ISSN 1297-9686
Editore: Springer Science and Business Media LLC
DOI: 10.1186/s12711-025-01008-7

Commercial laying hens exhibit long-term consistent individual differences and behavioural syndromes in spatial traits

Autori: Camille M. Montalcini, Matthew B. Petelle, Michael J. Toscano
Pubblicato in: Royal Society Open Science, Numero 10, 2023, Pagina/e 230043, ISSN 2054-5703
Editore: The Royal Society
DOI: 10.1098/rsos.230043

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: BioMed
DOI: 10.1186/s12711-025-00979-x

The effect of aging on genetic parameters of boar semen traits

Autori: Pedro Sá, Rodrigo M Godinho, Marta Gòdia, Claudia A Sevillano, Barbara Harlizius, Ole Madsen, Henk Bovenhuis
Pubblicato in: Journal of Animal Science, Numero 103, 2025, ISSN 0021-8812
Editore: American Society of Animal Science
DOI: 10.1093/jas/skaf257

Growth Performance, Carcass Quality, and Lipid Metabolism in Krškopolje Pigs and Modern Hybrid Pigs: Comparison of Genotypes and Evaluation of Dietary Protein Reduction

Autori: Martin Škrlep, Klavdija Poklukar, Milka Vrecl, Jana Brankovič, Marjeta Čandek-Potokar
Pubblicato in: Animals, Numero 14, 2025, Pagina/e 3331, ISSN 2076-2615
Editore: MDPI AG
DOI: 10.3390/ani14223331

Transmissibility model to evaluate transgenerational transmission of environmental effects in quails

Autori: K. Karami, S. Rousse, F. Pitel, S. Eynard, D. Gourichon, S. Leroux, A. Ricard, I. David
Pubblicato in: animal, Numero 19, 2026, Pagina/e 101636, ISSN 1751-7311
Editore: Cambridge University Press
DOI: 10.1016/j.animal.2025.101636

Genetic parameters and parental and early-life effects of boar semen traits

Autori: Pedro Sá, Rodrigo M. Godinho, Marta Gòdia, Claudia A. Sevillano, Barbara Harlizius, Ole Madsen, Henk Bovenhuis
Pubblicato in: Genetics Selection Evolution, Numero 57, 2025, ISSN 1297-9686
Editore: Springer Science and Business Media LLC
DOI: 10.1186/s12711-025-00954-6

Attitudes towards Genome Editing in Farmed Animals – a Cross-Cultural Study

Autori: Leon Borgdorf, Elsa Delanoue, Meta Candek-Potokar, Valentin P. Haas, Koen Kramer, Franck L.B. Meijboom
Pubblicato in: Food Ethics, Numero 11, 2026, ISSN 2364-6853
Editore: Springer Science and Business Media LLC
DOI: 10.1007/s41055-026-00205-4

The Effect of Reduced Dietary Protein on Adipose Tissue in Local Krškopolje Pigs

Autori: Klavdija Poklukar, Marjeta Čandek-Potokar, Milka Vrecl, Jana Brankovič, Matjaž Uršič, Martin Škrlep
Pubblicato in: International Journal of Molecular Sciences, Numero 26, 2025, Pagina/e 4440, ISSN 1422-0067
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms26094440

ASPA 25th Congress Book of Abstract

Autori: Manuela Renna
Pubblicato in: Italian Journal of Animal Science, Numero 24, 2026, Pagina/e 1-463, ISSN 1828-051X
Editore: Informa UK Limited
DOI: 10.1080/1828051x.2025.2520034

Molecular responses of chicken embryos to maternal heat stress through DNA methylation and gene expression: a pilot study

Autori: Keyvan Karami, Jules Sabban, Chloé Cerutti, Guillaume Devailly, Sylvain Foissac, David Gourichon, Alexandre Hubert, Jean-Noël Hubert, Sophie Leroux, Tatiana Zerjal, Sandrine Lagarrigue, Frédérique Pitel
Pubblicato in: Environmental Epigenetics, Numero 11, 2025, ISSN 2058-5888
Editore: Oxford University Press (OUP)
DOI: 10.1093/eep/dvaf009

Reducing Protein Levels in Diets for Local Pig Breeds: A Case Study on Fat-Type Krškopolje Pig

Autori: Martin Škrlep, Klavdija Poklukar, Sam Millet, Marjeta Čandek-Potokar
Pubblicato in: Animal Science Journal, Numero 96, 2025, Pagina/e e70077, ISSN 1740-0929
Editore: Wiley
DOI: 10.1111/asj.70077

Incorporating genomic and transcriptomic effects in joint linear and non-linear structural models for predicting complex traits in pigs

Autori: I-T. Vourlaki, M. Piles, T. Jové-Juncà, Y. Ramayo-Caldas, R. Quintanilla, M. Ballester
Pubblicato in: animal, Numero 20, 2026, Pagina/e 101765, ISSN 1751-7311
Editore: Cambridge University Press
DOI: 10.1016/j.animal.2026.101765

Genomic, transcriptomic and epigenomic analysis towards the understanding of porcine semen quality traits. Past, current and future trends

Autori: Pedro Sa, Marta Gòdia, Nicole Lewis, Yu Lian, Alex Clop
Pubblicato in: Animal Reproduction Science, Numero 269, 2025, Pagina/e 107543, ISSN 0378-4320
Editore: Elsevier BV
DOI: 10.1016/j.anireprosci.2024.107543

A genome-wide association study reveals additive and recessive alleles affecting male fertility in pigs

Autori: Pedro Sá, Marta Gòdia, Rodrigo M. Godinho, Claudia A. Sevillano, Barbara Harlizius, Ole Madsen, Henk Bovenhuis
Pubblicato in: Journal of Animal Science and Biotechnology, Numero 16, 2025, ISSN 2049-1891
Editore: Springer Science and Business Media LLC
DOI: 10.1186/s40104-025-01312-8

Simulation of dual-purpose chicken breeding programs implementing gene editing

Autori: E. Y. S. Chuang, R. Wellmann, F. L. B. Meijboom, J. Tetens, J. Bennewitz
Pubblicato in: Genetics Selection Evolution, 2024, ISSN 0999-193X
Editore: BioMed Central
DOI: 10.1186/s12711-023-00874-3

GEGA (Gallus Enriched Gene Annotation): an online tool providing genomics and functional information across 47 tissues for a chicken gene-enriched atlas gathering Ensembl and Refseq genome annotations

Autori: Fabien Degalez, Philippe Bardou, Sandrine Lagarrigue
Pubblicato in: NAR Genomics and Bioinformatics, Numero 6, 2024, ISSN 2631-9268
Editore: Oxford University Press (OUP)
DOI: 10.1093/nargab/lqae101

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

An improved transmissibility model to detect transgenerational transmitted environmental effects

Autori: I. David, A. Ricard
Pubblicato in: Genetics Selection Evolution, 2023, ISSN 0999-193X
Editore: BioMed Central
DOI: 10.1186/s12711-023-00833-y

Influence of early rearing system on later performance of commercial laying hens

Autori: Q. Berger, N. Bedere, P. Le-Roy, S. Lagarrigue, T. Burlot, T. Zerjal
Pubblicato in: Book of abstracts of 74th European Federation of Animal Science Annual Meeting, Numero August 2023, 2023
Editore: Proceedings EAAP https://doi.org/10.3920/978-90-8686-936-7

Body weight variation is a good proxy of abdominal fat weight in laying hens at 90 weeks of age

Autori: Hubert A., Bedere N., Degalez F., Allain C., Becot L., Berger Q., Burlot T., Emily M., Ferry A., Lagoutte L., Lebez B., Sanchez M.-P., Tribout T., Pitel F., Zerjal T., Allais S., Lagarrigue S.
Pubblicato in: Abstracts of PAG33, 2026
Editore: PAG

Studying husbandry and nutrition in Krškopolje pig: Implications for fat deposition and meat quality with insights into metabolism and gene expression

Autori: Martin Škrlep, Klavdija Poklukar, Bojana Savić, Marjeta Čandek-Potokar
Pubblicato in: "Proceedings of the 15th International Symposium ""Modern Trends in Livestock Production"" - zbornik radova", 2025, Pagina/e 174-186
Editore: Institute of Animal Husbandry, Belgrade-Zemun
DOI: 10.5937/animtrend25174s

Transgenerational response to the ingestion of an endocrine disruptor: phenotypic, genetic, and epigenetic analyses in quail

Autori: Stacy Rousse, Sophie Leroux, David Gourichon, Ludovic Calandreau, Remi Seraphin, Ingrid David, Alexandre Hubert, Guillaume Cossard, Ole Madsen, Marta Godia Perello, Tatiana Zerjal, Sandrine Lagarrigue, Frédérique Pitel, Sonia E Eynard
Pubblicato in: Abstracts of PAG33, 2026
Editore: PAG

Unravelling gene switches for the regulation of litter size through the study of swine with high and low prolificacy

Autori: Endika Varela-Martínez, Beatrice Tadeu-Querido, Fábio Teixeira, Graça Ferreira-Dias, Jordana lopes, Elisa Bettencourt, Pamela Valente, Maria Salomé Gonçalves, Luís Telo da Gama, Carlos Bettencourt, Branco, Sofia VanHarten, Kiala Sebastino, Hermenegildo Chiaia, Maria Cristina Bressan, Luísa Mateus, Andreia J. Amaral
Pubblicato in: Book of Abstracts of the 76th Annual Meeting of the European Federation of Animal Science, 2025, Pagina/e 625
Editore: EAAP

Genetic architecture of the persistency of production, quality, and efficiency traits in laying hens

811. Estimating vertical path coefficients of transmission of non-genetic inherited effects from a similarity matrix

Autori: I. David, C. Larzul, A. Ricard
Pubblicato in: Proceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP), 2023
Editore: Wageningen Academic Publishers
DOI: 10.3920/978-90-8686-940-4_811

The effect of on-farm hatching on spatial traits in a quasi-commercial barn

Autori: M. B. Petelle, C. M. Montalcini, M. J. Toscano
Pubblicato in: European's Poultry Conference Journal - The Book of Abstracts, Numero 24th-28th June 2024, 2024
Editore: meap

Gene Polymorphism Frequencies in Krskopolje Pig Breed

Autori: K. Poklukar, M. Čandek-Potokar, N. Batorek Lukač, MJ. Mercat, D. Picard Druet, M. Škrlep
Pubblicato in: Book of abstracts of the 14th International Symposium Modern Trends in Livestock Production, Numero October 2023, 2023, ISBN 978-86-82431-80-0
Editore: Proceedings of the 14th International Symposium Modern Trends in Livestock Production

Compsim, a shiny app to build and compare similarity matrices

Autori: David, Ingrid; Guibert, Julien; Marie-Etancelin, Christel
Pubblicato in: 7th ICQG Vienna, 2024
Editore: ResearchGate
DOI: 10.13140/rg.2.2.22281.66405

Growth potential of Krškopolje pigs in different production systems.

Autori: BATOREK LUKAČ, Nina, ČANDEK-POTOKAR, Marjeta
Pubblicato in: Book of abstracts of the XIth International Symposium on Mediterranean Pig, Numero October 11-13, 2022, 2022, Pagina/e 43-44, ISBN 978-953-8276-35-4
Editore: University of Zagreb

Leveraging local breeds and landscape genomics to detect adaptive genes

Autori: Carl Kroger, Romuald Rouger, Michel Sourdioux, Michèle Tixier-Boichard, Tatiana Zerjal, Gwendal Restoux
Pubblicato in: Abstract book of the 13th ESPG, 2025, Pagina/e 40
Editore: WPSA

The effect of PRKAG3 and RYR1 genes on meat quality traits in the local Krskopolje pig breed

Modelling genetic and epigenetic selection signatures from pool sequencing.

Autori: Sonia E Eynard, Kossi-Julien Kowou, Cécile Donnadieu, Loïc Flatres-Grall, Carole Iampietro, Sandrine Lagarrigue, Sophie Leroux, Joanna Lledo, Marie-José Mercat, Juliette Riquet, Céline Vandecasteele, Frédérique Pitel, Bertrand Servin
Pubblicato in: Book of Abstracts EAGS 2026, 2026, Pagina/e 21
Editore: France Génomique

Modelling genetic and epigenetic selection signatures from pool sequencing

Autori: Sonia E Eynard, Kossi-Julien Kowou, Cécile Donnadieu, Loïc Flatres-Grall, Carole Iampietro, Sandrine Lagarrigue, Sophie Leroux, Joanna Lledo, Marie-José Mercat, Juliette Riquet, Céline Vandecasteele, Frédérique Pitel, Bertrand Servin
Pubblicato in: Booklet of abstracts of the Zurich EPIGENETIC INHERITANCE SYMPOSIUM 2025, 2025, Pagina/e 19
Editore: ETH Zurich

Using functional annotation and individual omics in genomic prediction

Autori: M. P. L. Calus, B. C. Perez, J. de Vos, O. Madsen, L. Ayres, H. Bovenhuis, M. Ballester, MJ. Mercat, M. C. A. M. Bink
Pubblicato in: Book of abstracts of 39th International Society for Animal Genetics Conference, Numero July 2023, 2023, Pagina/e 45
Editore: ISAG

Taming the Genome: Epigenetic Contributions to Domestication and Sex-Specific Regulation in Chickens

Autori: C. Guerrero-Bosagna
Pubblicato in: Book of Abstracts of the Congress of the European Society for Evolucionary Biology 2025 (ESEB2025), Numero 17th-22th August 2025, 2025, Pagina/e p30
Editore: Sociedad Española de Biologia Evolutiva (Sesbe)

The effect of low protein diet on adipose tissue transcriptome in Krškopolje pig breed

Autori: K. Poklukar, M. Čandek-Potokar, N. Batorek Lukač, M. Vrecl, G. Fazarinc, M. Škrlep
Pubblicato in: Book of abstracts of the 1st Regional Meeting of The European Federation of Animal Science, Numero April 2024, 2024
Editore: 1st Regional Meeting of The European Federation of Animal Science

Transgenerational response to endocrine disruptor: phenotypic, genotypic and epigenotypic analyses in quail

Autori: S. Rousse, S. Leroux, D. Gourichon, L. Calandreau, C. Cerutti, G. Devailly, T. Zerjal, S. Lagarrigue, F. Pitel, S. E. Eynard
Pubblicato in: Book of abstracts of the Environmental and Agronomical Genomics Symposium, Numero February 2024, 2024
Editore: France Genomic

Perceptions of stakeholders involved in preserving local breeds - a survey by the GEroNIMO project

Autori: Mercat, Marie-José; Amaral, Andreia; Bozzi, Riccardo; Čandek-Potokar, Marjeta; Fernandes, Pedro; Gutiérrez Vallejos, Jetsabell; Karolyi, Danijel; Laloë, Denis; Lukovic, Zoran; Lenoir, Herveline; Restoux, Gwendal; Vicente, Antonio; Ribeiro, Virginia; Rodriguez Silva, Tamara; Rouger, Romuald; Škorput, Dubravko; Škrlep, Martin
Pubblicato in: 55es journées de la recherche porcine, Ifip; Inrae, Jan 2023, Saint-Malo (France), Numero 1, 2023
Editore: JRP

The impact of chronic heat stress on DNA methylation and gene expression in laying hens

Autori: Marie Courbariaux, Odile Rogier, Remi Seraphin, Sonia E Eynard, Sophie Leroux, Laetitia Lagoutte, Florence Jaffrezic, Andrea Rau, Thierry Burlot, Frédérique Pitel, Sandrine lagarrigue, Tatiana Zerjal
Pubblicato in: 2025
Editore: EAAP- 76th Annual meeting

Using henomic and transcriptomic information for complex trait prediction

Autori: V. Haas, R. Wellmann, M. P. L. Calus, J. Bennewitz
Pubblicato in: Book of Abstracts of the 75th Annual Meeting of the European Federation of Animal Science (EAAP), Numero 1st-5th September 2024, 2024
Editore: EAAP

HenTrack: Improving breeding programs with superior behavior and welfare phenotypes

Autori: M. Toscano
Pubblicato in: Book of Abstracts of the 75th Annual Meeting of the European Federation of Animal Science (EAAP), Numero 1st-5th September 2024, 2024
Editore: EAAP

The Banija Spotted Pig: Current Population Status, Genetic Diversity and Prospects for Sustainable Conservation

Autori: Dubravko Škorput, Ana Kaić, Danijel Karolyi, Krešimir Salajpal, Zoran Luković, Ivona Djurkin Kušec, Marie-Jose Mercat, Klavdija Poklukar, Marjeta Čandek-Potokar, Martin Škrlep
Pubblicato in: Abstracts of the 35th Annual Meeting and International Conference of the International Association for the Conservation of Animal Breeds in the Danube Region, 2026
Editore: International Association for the Conservation of Animal Breeds in the Danubian Region

Transcriptomic profiling of laying hen livers in relation to age and interaction with early liferearing conditions

Autori: Guillaume Cossard, Alexandre Hubert, Laetitia Lagoutte, Bénédicte Lebez, Coralie Allain, Fabien Degalez, Alexandre Ferry, Lorry Becot, Thierry Burlot, Frédérique Pitel, Tatiana Zerjal, Sandrine Lagarrigue
Pubblicato in: Abstracts of PAG33, 2026
Editore: PAG

Assessing multiphase feeding sequencing plan designed for fatty type pigs in indoor and outdoor heavy pig production systems by modeling: an example of Krškopolje pig.

Autori: BATOREK LUKAČ, Nina, ŠKRLEP, Martin, POKLUKAR ŽNIDARŠIČ, Klavdija, MILLET, Sam, ČANDEK-POTOKAR, Marjeta.
Pubblicato in: Book of abstracts of the 7th EAAP International Symposium on Energy and Protein Metobolism and Nutrition (ISEP), Numero September 12-15, 2022, 2022
Editore: EAAP

Characterization of DNA methylation patterns and genomic regulation of DNA methylation of skeletal muscle in three commercial pig breeds.

Autori: Maria Luigi-Sierra, Marta Gòdia, Ole Madsen, Peter Karlskov-Mortensen
Pubblicato in: Book of Abstracts of the 76th annual meeting of the European Federation of Animal Science, 2025, Pagina/e 624
Editore: EAAP

Integrating Multi-Omics Data in Deep Learning Prediction of Pig Production Traits

Autori: Ioanna-Theoni Vourlaki, Maria Gracia Luigi-Sierra, Levi Ayres, Yuliaxis Ramayo-Caldas, Mario P.L. Calus, Peter Karlskov-Mortensen, Miriam Piles
Pubblicato in: 2026
Editore: WCGALP
DOI: 10.31274/wcgalp.23672

Stakeholders’ perception of the local breeds’ sector in six European countries - a survey by the GEroNIMO project

Autori: Marie-José MERCAT, Andreia AMARAL, Riccardo BOZZI, Marjeta ČANDEK-POTOKAR, Pedro FERNANDES, Jetsabell GUTIERREZ VALLEJOS, Danijel KAROLYI, Denis LALOë, Zoran LUKOVIć, Gwendal RESTOUX, António VICENTE, Virginia RIBEIRO, Tamara RODRIGUEZ SILVA, Romuald ROUGER, Dubravko ŠKORPUT, Martin ŠKRLEP
Pubblicato in: Book of abstracts of the XIth International Symposium on the Mediterranean pig, Numero October 11-13, 2022, 2022, Pagina/e 87-88, ISBN 978-953-8276-35-4
Editore: UNIZG

GEroNIMO (Genome and Epigenome eNabled breedIng in MOnogastrics)

Autori: S. Lagarrigue, F. Pitel, T. Zerjal for the GEroNIMO consortium
Pubblicato in: Book of abstracts of 74th European Federation of Animal Science Annual Meeting, Numero August 2023, 2023
Editore: Proceedings EAAP https://doi.org/10.3920/978-90-8686-936-7

Perceptions of stakeholders involved in preserving local breeds - a survey by the GEroNIMO project

Autori: MJ. Mercat, A. Amaral, R. Bozzi, M. Candek-Potokar, P. Fernandes, J. Gutierrez Vallejos, D. Karolyi, D. Laloë, Z. Lukovic, H. Lenoir, G. Restoux, A. Vicente, V. Ribeiro, T. Rodriguez Silva, R. Rouger, D. Skroput, M. Skrlep
Pubblicato in: Journées de la Recherche Porcine, Numero 9, 2023
Editore: Ifip; Inrae,

NIRS Prediction of Pork Intramuscular Fat for Future Use in Genetic Evaluation of Local Breeds

Autori: M.J Mercat, A. Vautier, P. Ganier, S. Dare, G. Flého, K. Poklukar, M. Škrlep, H. Lenoir, J. Magadray, G. Lenoir, B. Ligonesche, D. Karolyi, D. Škorput, A. Amaral, M. Čandek-Potokar and B. Lebret
Pubblicato in: 2026
Editore: 2026 World Congress on Genetics Applied to Livestock Production
DOI: 10.31274/wcgalp.23839

Unravelling the genetic architecture of persistence in production, quality, and efficiency traits in laying hens at late production stages

Autori: Quentin Berger, Nicolas Bedere, Sandrine Lagarrigue, Thierry Burlot, Pascale Le-Roy, Thierry Tribout, Tatiana Zerjal
Pubblicato in: British Poultry Science, 2026
Editore: openRxiv
DOI: 10.1101/2025.02.26.640268

A IncRNA gene-enriched atlas for GRCg7b chicken genome gathering EMBL-EBI EnsembI, NCBI-RefSeq and two FAANG databases

Autori: F. Degalez, M. Charles, S. Foissac, H. Zhou, D. Guan, L. Fang, C. Klopp, C. Alain, L. Lagoutte, B. Lebez, F. Lecerf, B. Vourch, T. Zerjal, F. Pitel, S. Lagarrigue
Pubblicato in: Book of abstracts of 74th European Federation of Animal Sciences Annual Meeting, Numero August 2023, 2023
Editore: Proceedings EAAP https://doi.org/10.3920/978-90-8686-936-7

Whole genome sequencing and epigenotyping for multiple generations of selection using Oxford Nanopore Technology

Autori: S. E. Eynard, C. Donnadieu, L. Flatres-Grall, C. Iampietro, S. Lagarrigue, S. Leroux, J. Lledo, J. Riquet, B. Servin, C. Vandecasteele, T. Zerjal, F. Pitel
Pubblicato in: Book of abstracts of Environmental and Agronomical Genomics Symposium, Numero February 2024, 2024
Editore: EAGS

Multi-omics approaches for understanding efficient pig production traits

Autori: Maria Luigi-Sierra, Marta Gòdia, Ole Madsen, Peter Karlskov-Mortensen
Pubblicato in: Proceedings of the 40th International Conference on Animal Genetics, 2025, Pagina/e 139
Editore: ISAG

Association between melanocortin 4-receptor (MC4R) polymorphism with carcass and meat quality traits in local Krškopolje pig breed

Autori: K. Poklukar, M. Čandek-Potokar, MJ. Mercat, M. Škrlep
Pubblicato in: 32nd Internaltional Sysposium Animal Science Days 2024 Book of Abstracts, Numero 2nd-4th October 2024, 2024
Editore: Universitat fur Bodenkultur

Unraveling gene switches for the regulation of litter size through the study of swine with high and low prolificacy

Autori: E. Varela-Martínez, B. Tadeu-Querido, F. Teixeira, G. Ferreira-Dias, J. Lopes , E. Bettencourt, P. Valente, M.S. Gonçalves, L.T. Gama, C. Bettencourt, S. Branco, S.
Pubblicato in: 40th International Society for Animal Genetics Conference, ISAG. , 2025
Editore: 40th International Society for Animal Genetics Conference, ISAG.

Assessing the genetic contribution to intramuscular fat content in local Krškopolje pig

Autori: Poklukar K., Čandek-Potokar M., Mercat M.-J., Banville M., Taussat S., Škrlep M.
Pubblicato in: Book of Abstracts of the 76th annual meeting of the European Federation of Animal Science, 2025, Pagina/e 629
Editore: EAAP

Using the transmissibility model to demonstrate transgenerational transmission of environmental effects in quails

Autori: Keyvan Karami, Stacy Rousse, Frederique Pitel, Sonia Eynard, David Gourichon, Sophie Leroux, Anne Ricard, Ingrid David
Pubblicato in: Book of abstracts of the Zurich Epigenetic Inheritance Symposium 2025, 2025, Pagina/e 25
Editore: ETH Zurich

Exploring the Landscape of Local and Distant Intra-vs. Inter-Chromosomal eQTLs Using TensorQTL and GCTA: A case study from 459 Liver Transcriptomes of Aged Laying Hens

Autori: Alexandre Hubert, Fabien Degalez, Coralie Allain, Thierry Burlot, Louis Calvez, Marta Gòdia, Laetitia Lagoutte, Bénédicte Lebez, Frédéric Lecerf, Ole Madsen, Tatiana Zerjal, Frédérique Pitel, Mathieu Emily, Sophie Allais, Sandrine Lagarrigue
Pubblicato in: Abstracts of PAG33, 2026
Editore: PAG

From womb to bloom: conception, early life and maternal effects on boar semen production

Autori: P. Sá, R. M. Godinho, M. Gòdia, C. A. Sevillano, B. Harlizius, O. Madsen, H. Bovenhuis
Pubblicato in: Bookf of Abstracts of the 75th Annual Meeting of the European Federation of Animal Science (EAAP), Numero 1st-5th September 2024, 2024
Editore: EAAP

Integrating Transcriptomics and Epigenomics for Enhanced Breeding Programs in Pigs

Autori: M. Luigi, P. Karlskov-Mortensen
Pubblicato in: 5th Annual congress of Young Researchers (ACYR), Numero 10th-11th March 2025, 2025
Editore: ACYR

Influence of rearing systems on the liver transcriptome profile of krškopolje pigs: indoor vs. outdoor conditions

Autori: Poklukar K., Čandek-Potokar M., Savić B., Škrlep M.
Pubblicato in: Book of Abstracts of the 76th annual meeting of the European Federation of Animal Science, 2025, Pagina/e 649
Editore: EAAP

Polymorphisms of selected genes in Banija spotted and Turopolje pig

Autori: D. Karolyi, K. Poklukar, K. Salajpal, D. Skorput, Z. Lukovic, MJ. Mercat, M. Candek-Potokar, M. Skrlep
Pubblicato in: 32nd International Symposium Animal Science Days 2024, Book of Abstracts, Numero 2nd-4th October 2024, 2024
Editore: Universitat fur Bodenkultur

Banija spotted pig – from science to practise

Autori: Zoran Luković, Dubravko Škorput, Krešimir Salajpal, Sven Menčik, Danijel Karolyi
Pubblicato in: Book of abstracts of the XIth International Symposium on the Mediterranean pig, Numero October 11-13, 2022, 2022, Pagina/e 51-52, ISBN 978-953-8276-35-4
Editore: UNIZG

On the genetic basis of porcine semen traits: a large-scale genome-wide study on a synthetic line

Autori: P. Sá, R. M. Godinho, M. Gòdia, C. A. Sevillano, B. Harlizius, O. Madsen, H. Bovenhuis
Pubblicato in: Book of abstracts of 39th International Society for Animal Genetics Conference, Numero July 2023, 2023, Pagina/e 18
Editore: ISAG

Comparison of haematological profiles between Alentejano and commercial (LWxLR) pigs

Autori: Luísa Mateus, Graça Ferreira Dias, Maria Salomé, Gonçalves, Pamela Valente, Elisa Bettencourt, Luís Telo da Gama, Carlos Bettencourt, Andreia J. Amaral
Pubblicato in: Book of abstracts of the CIISA Congress 2022 Lisbon, Portugal)., Numero November 2022, 2022, Pagina/e 150
Editore: CIISA

Integrated analysis of methylome and transcriptome highlights limited impact of DNA methylation on age-related gene regulation in laying hens

Autori: Guillaume Cossard, Alexandre Hubert, Fabien Degalez, Coralie Allain, Thierry Burlot, Sonia Eynard, Marta Gòdia, Mathieu Emily, Laetitia Lagoutte, Bénédicte Lebez, Ole Madsen, Andrea Rau, Stacy Rousse, Remi Seraphin, Tatiana Zerjal, Frederique Pitel, Sandrine Lagarrigue
Pubblicato in: Abstracts of PAG33, 2026
Editore: PAG

Transgenerational response to an endocrine disruptor ingestion: phenotypic, genetic and epigenetic analyses in quail

Autori: Rousse S., Leroux S., Gourichon D., Calandreau L., Zerjal T., Lagarrigue S., Pitel F., Eynard S.
Pubblicato in: Book of Abstracts of the 76th annual meeting of the European Federation of Animal Science, 2025, Pagina/e 624
Editore: EAAP

Combining LD-Guided QTL Refinement, GEGA Annotation, and Tissue-Specific eQTL for Candidate Gene Prioritization

Autori: Hubert A., Degalez F., Allain C., Becot L., Burlot T., Ferry A., Lagoutte L., Lebez B., Zerjal T., Allais S., Pitel F., Lagarrigue S.
Pubblicato in: Abstracts of PAG33, 2026
Editore: PAG

Local breeds and landscape genomics: A powerful combination for detecting adaptive genes

Autori: Carl Kroger, Michel Sourdioux, Romuald Rouger, Michele Tixier-Boichard, Tatina Zerjal, Gwendal Restoux
Pubblicato in: Book of Abstracts of the 76th annual meeting of the European Federation of Animal Science, 2025, Pagina/e 413
Editore: EAAP

Stakeholders’ perception of the local breeds’ sector in six European countries - a survey by the GEroNIMO project

Autori: Marie-José MERCAT, Andreia AMARAL, Riccardo BOZZI, Marjeta ČANDEK-POTOKAR, Pedro FERNANDES, Jetsabell GUTIERREZ VALLEJOS, Danijel KAROLYI, Denis LALOë, Zoran LUKOVIć, Gwendal RESTOUX, António VICENTE, Virginia RIBEIRO, Tamara RODRIGUEZ SILVA, Romuald ROUGER, Dubravko ŠKORPUT, Martin ŠKRLEP
Pubblicato in: Book of abstracts of the XI International Symposium on the Mediterranean pig, Numero 4, 2022, ISBN 978-953-8276-35-4
Editore: University of Zagreb Faculty of Agriculture
DOI: 10.5281/zenodo.14870239

Lipid traits related to body reserves and egg yolks of laying hens at 90 weeks of age: QTL detection and genetic correlations with production traits

Feed stress-induced transcriptomic changes in the liver of Krškopolje pigs reared in the outdoor system

Autori: K. Poklukar, M. Čandek-Potokar, M. Vrecl, M. Škrlep
Pubblicato in: Book of Abstracts of the 3rd Regional Meeting of the European Federation of Animal Science (EAAP), Numero 9th-11th April 2025, 2025
Editore: EAAP

A single-locus quantitative generic model to include DNA methylation information

Autori: L. Ayres, M. P. L. Calus, H. Bovenhuis
Pubblicato in: Book of abstracts 7th International Conference of Quantitative Genetics, Numero 22nd-26th July 2024, 2024
Editore: Institute of Science and Technology Austria (ISTA)

The evolution of epigenetics across multiple generations

Autori: S. E. Eynard, C. Donnadieu, L. Flatres-Grall, C. Iampietro, S. Lagarrigue, S. Leroux, J. Lledo, J. Riquet, B. Servin, C. Vandecasteele, T. Zerjal, F. Pitel
Pubblicato in: Book of abstracts of Epigenetic Trangenerational Inheritance Meeting, Numero September 2023, 2023
Editore: Epigenetic Trangenerational Inheritance Meeting

A IncRNA gene-enriched atlas for GRCg7b chicken genome & its functional annotation across 47 tissues

Autori: F. Degalez, M. Charles, S. Foissac, H. Zhou, D. Guan, L. Fang, C. Klopp, C. Alain, L. Lagoutte, B. Lebez, F. Lecerf, B. Vourch, T. Zerjal, F. Pitel, S. Lagarrigue
Pubblicato in: Book of abstracts of 39th International Society for Animal Genetics Conference, Numero July 2023, 2023, Pagina/e 49
Editore: ISAG

Genetic polymorphisms in Krškopolje pig breed

Autori: K. Poklukar, M. Čandek-Potokar, MJ. Mercat, M. Škrlep
Pubblicato in: Zadravčevi-Erjavčevi Dnevi 2024, Numero 14th November 2024, 2024
Editore: ZED

Incorporating genomic and transcriptomic effects in linear and structural models for predicting complex traits in pigs

Autori: I. T. Vourlaki, M. Ballester, T. Jove, Y. Ramayo-Caldas, M. Piles
Pubblicato in: ISAG 2025 Abstract Book, 2025, Pagina/e 146
Editore: ISAG

Estimating the heritability of meat quality traits in Krškopolje pigs

Autori: K. Poklukar, M. Čandek-Potokar, MJ. Mercat, M. Banville, M. Škrlep
Pubblicato in: Book of Abstracts of the 3rd Regional Meeting of the European Federation of Animal Science (EAAP), Numero 9th-11th April 2025, 2025
Editore: EAAP

Added value of functional annotation and individual omics in genomic prediction

Autori: M. P. L. Calus
Pubblicato in: AGBT: Agricultural Meeting, Numero April 2024, 2024
Editore: AGBT Ag; DOI not available

Transmission of DNA methylation: genetic or epigenetic ? A transgenerational case study in quails

Autori: Stacy Rousse, Sophie Leroux, Remi Seraphin, David Gourichon, Marta Godia Perello, Ole Madsen, Frédérique Pitel, Sonia E Eynard
Pubblicato in: Book of Abstracts EAGS 2026, 2026, Pagina/e 23
Editore: France Génomique

Local pig and chicken breeds: weaknesses, strengths and challenges by Italian stakeholder concept

Autori: Parrini S., Mercat M.J., Amaral De Jesus A., Karolyi D., Căndek Potokar M., Restoux G., Fabbri M.C., Crovetti A., Sirtori F., Bozzi R.
Pubblicato in: ASPA 25th Congress Book of Abstract, Italian Journal of Animal Science, 24:sup1, 1-463, 2025, Pagina/e 241
Editore: Animal Science and Production Association

Transmission of DNA methylation: genetic or epigenetic? A transgenerational case study in quails

Autori: Stacy Rousse, Sophie Leroux, David Gourichon, Marta Godia Perello, Ole Madsen, Frédérique Pitel, Sonia E Eynard
Pubblicato in: Booklet of abstracts of the Zurich EPIGENETIC INHERITANCE SYMPOSIUM 2025, 2025, Pagina/e 31
Editore: ETH Zurich

Perceptions of stakeholders involved in preserving local breeds - a survey by the GEroNIMO project

Attitudes towards genome editing in farmed animals: An interview study

Autori: L. Borgdorf, F.L.B. Meijboom
Pubblicato in: Back to the future: Sustainable innovations for ethical food production and Consumption, 2024
Editore: Brill Publishers
DOI: 10.3920/978-90-0471-550-9_44

Adipose tissue transcriptome profiles of local Krškopolje pig and modern hybrids receiving reduced protein diets

Autori: K. Poklukar, M. Čandek-Potokar, B. Savić, M. Škrlep
Pubblicato in: animal, Numero 20, 2026, Pagina/e 101864, ISSN 1751-7311
Editore: Cambridge University Press
DOI: 10.1016/j.animal.2026.101864

Enterosignatures of the Fecal Pig Microbiota: Exploring Determinants and Revealing Host-Performance Consequences

Autori: Ioanna-Theoni Vourlaki, Raquel Rio, Adria Clavell, Lino C. Ramírez-Ayala, Maria Ballester, Juan Pablo Sanchez, Miriam Piles, Raquel Quintanilla, Angela Cristina Fonseca de Oliveira, Leandro Batista Costa, Antoni Dalmau, Yuliaxis Ramayo-Caldas
Pubblicato in: Research Square, 2025
Editore: Springer Science and Business Media LLC
DOI: 10.21203/rs.3.rs-3978889/v1

Possibility of selection for meat quality in the Krškopolje Pig breed

Autori: Poklukar, Klavdija
Pubblicato in: Usposabljanje s preizkusom znanja za izvajalce najzahtevnejših strokovnih nalog v živinoreji, 11. in 12. februar 2025 , Ljubljana, 2025
Editore: Zenodo
DOI: 10.5281/zenodo.15648062

Transmission of an environmental modification in quails across three generations: changes in the contribution to phenotypic variability

Autori: Stacy Rousse, Sophie Leroux, David Gourichon, Ludovic Calandreau, Andrea Rau, Sandrine Lagarrigue, Tatiana Zerjal, Frédérique Pitel, Sonia E. Eynard
Pubblicato in: 2026
Editore: openRxiv
DOI: 10.1101/2025.07.04.663137

Stakeholders Engagement through Regional Communities: an interactive multi-actor methodology for co-innovation in rural areas

Autori: N. Rodríguez-Aubó, S. Aparicio Ortega, T. Rodríguez Silva
Pubblicato in: Rethinking the use of antimicrobials in livestock production systems, 2022
Editore: Zenodo
DOI: 10.5281/zenodo.6951851

Growth potential of Krškopolje pigs in different production systems.

Autori: BATOREK LUKAČ, Nina, ČANDEK-POTOKAR, Marjeta
Pubblicato in: Book of abstracts. XIth International Symposium on Mediterranean Pig, Numero 5, 2022, ISBN 978-953-8276-35-4
Editore: University of Zagreb, Faculty of agriculture

GEroNIMO - Book of Abstracts

Autori: GEroNIMO
Pubblicato in: H2020 - Book of Abstracts, 2026
Editore: Zenodo
DOI: 10.5281/zenodo.20623010

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