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ARS Home » Southeast Area » Athens, Georgia » U.S. National Poultry Research Center » Endemic Poultry Viral Diseases Research » Research » Publications at this Location » Publication #400287

Research Project: Enhancing Genetic Resistance and Vaccinal Response to Control Marek's Disease, Infectious Laryngotracheitis, and Infectious Bursal Disease in Chicken

Location: Endemic Poultry Viral Diseases Research

Title: Chicken genomic diversity consortium: large-scale genomics to unravel the origins and adaptations of chickens

item FIDDAMAN, STEVEN - University Of Oxford
item CHARLES, MATHIEU - Université Paris-Saclay
item BARDOU, PHILIPPE - University Of Toulouse
item LEBRASSEUR, OPHELIE - National Institute Of Anthropology And Latin American Thought
item DERKS, MARTIJN - Wageningen University And Research Center
item SCHAUER, JENS - Goettingen University
item REIMER, CHRISTIAN - Wageningen University And Research Center
item GEIBEL, JOHANNES - Goettingen University
item GHEYAS, ALMAS - Roslin Institute
item SMITH, ADRIAN - Oxford University
item SCHNABEL, ROBERT - University Of Missouri
item MARTIN CEREZO, MARIA LUISA - Linköping University
item NISHIBORI, MASAHIDE - University Of Hiroshima
item GODINEZ, CYRILL JOHN - Visayas State University
item LAYOS, JOHN KING - Capiz State University
item LARSON, GREGER - University Of Oxford
item NG'ANG'A, ISMAEL - Queen Mary University Of London
item MUIR, WILLIAM - Purdue University
item LANGE, MARGARET - University Of Missouri
item WRIGHT, DOMINIC - Linköping University
item SIMIANER, HENNER - Goettingen University
item Cheng, Hans
item WEIGEND, STEFFEN - Goettingen University
item WARREN, WESLEY - University Of Missouri
item CROOIJMANS, RICHARD - Wageningen University And Research Center
item HANOTTE, OLIVIER - University Of Nottingham
item SMITH, JACQUELINE - Roslin Institute
item TIXIER-BOICHARD, MICHELE - Université Paris-Saclay
item FRANTZ, LAURENT - Queen Mary University Of London

Submitted to: Cytogenetics and Genome Research
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 1/24/2023
Publication Date: 6/26/2023
Citation: Fiddaman, S., Klopp, C., Charles, M., Bardou, P., Lebrasseur, O., Derks, M., Schauer, J., Reimer, C., Geibel, J., Gheyas, A., Smith, A., Schnabel, R., Martin Cerezo, M., Nishibori, M., Godinez, C.P., Layos, J.N., Larson, G., Ng'Ang'A, I., Muir, W., Lange, M., Wright, D., Simianer, H., Cheng, H.H., Weigend, S., Warren, W., Crooijmans, R., Hanotte, O., Smith, J., Tixier-Boichard, M., Frantz, L. 2023. Chicken genomic diversity consortium: large-scale genomics to unravel the origins and adaptations of chickens. Cytogenetics and Genome Research. 90-94.

Interpretive Summary: With major advances in DNA sequencing, it is technically and economically feasible to determine the genome sequence of almost any species including chicken. To harness the power of the rapidly increasing number of sequenced chicken genomes, a worldwide consortium has been formed to address a number of fundamental and applied questions especially on connecting genotypic variation to phenotypic variation. The establishment of this consortium and the open access to the data and results greatly enhances the ability of both academic and applied scientists to understand the genetic basis of chicken biology, especially those controlling complex traits such as disease resistance.

Technical Abstract: On October 25-26, 2019, a satellite meeting devoted to the preparation of a Chicken Genome Diversity Consortium was organised after the 11th European Symposium of Poultry Genetics in Prague. Researchers involved in chicken genomics from Europe, Africa and China, discussed the objectives of such a consortium with some presenting their data. However, the technical aspects of how to share and jointly analyse the data were not finalized, nor was the funding model for the cost of data storage and computation. In 2021, an opportunity arose with the call for projects of the SuperMUC computing cluster of the Leibniz-Rechenzentrum in Germany. A new consortium of scientists re-launched the discussion to establish a project with the aim to explore how the high-throughput genomics age can be harnessed to answer evolutionary questions surrounding the chicken. The FARMGENOMIC project (23826) was accepted for funding in autumn 2021, gathering around 20 members from 10 institutions in Europe, North America and Africa. This newly-formed Chicken Genomic Diversity consortium brings together members from a variety of disciplines, including genomics, palaeogenetics, animal breeding, immunology, organismal biology, evolutionary biology, and archaeology. Central to the consortium are the concepts of inclusivity and openness – all data are to be made available to all members of the consortium, and later distributed to the wider community, and collaborations between groups are fostered and actively encouraged. It is hoped this state-of-the-art resource, curated in-house by bioinformaticians, will enable the community to answer previously intractable questions in chicken evolution.