IMAGE001: A new livestock multispecies SNP array to characterize genomic variation in European livestock gene bank collections
Title (eng)
IMAGE001: A new livestock multispecies SNP array to characterize genomic variation in European livestock gene bank collections
Author
R. P. M. A. Crooijmans
Wageningen University & Research, Animal Breeding and Genomics, Wageningen, The Netherlands
R. Gonzalez Prendes
Wageningen University and Research, Animal Breeding and Genomics, Wageningen, The Netherlands
L. Colli
Facoltà di Scienze Agrarie, Alimentari e Ambientali/DIANA Dipartimento di Scienze Animali, Della Nutrizione e Degli Alimenti, Università Cattolica del Sacro Cuore, Piacenza, Italy
M. Del Corvo
Facoltà di Scienze Agrarie, Alimentari e Ambientali/DIANA Dipartimento di Scienze Animali, Della Nutrizione e Degli Alimenti, Università Cattolica del Sacro Cuore, Piacenza, Italy
M. Barbato
Facoltà di Scienze Agrarie, Alimentari e Ambientali/DIANA Dipartimento di Scienze Animali, Della Nutrizione e Degli Alimenti, Università Cattolica del Sacro Cuore, Piacenza, Italy
E. Somenzi
Facoltà di Scienze Agrarie, Alimentari e Ambientali/DIANA Dipartimento di Scienze Animali, Della Nutrizione e Degli Alimenti, Università Cattolica del Sacro Cuore, Piacenza, Italy
P. Ajmone‐Marsan
Facoltà di Scienze Agrarie, Alimentari e Ambientali/DIANA Dipartimento di Scienze Animali, Della Nutrizione e Degli Alimenti, Università Cattolica del Sacro Cuore, Piacenza, Italy
S. Weigend
Friedrich‐Loeffler‐Institut, Institute of Farm Animal Genetics, Neustadt‐Mariensee, Germany
Barbara Wallner
Department of Biomedical Sciences and Pathobiology, Animal Breeding and Genetics, University of Veterinary Medicine Vienna, Vienna, Austria
M. E. McCue
University of Minnesota, College of Veterinary Medicine, St Paul, Minnesota, USA
L. Orlando
Centre d'Anthropobiologie et de Génomique de Toulouse, CNRS UMR 5288, Université Paul Sabatier, Toulouse, France
D. Bradley
Trinity College Dublin, University of Dublin, Dublin, Ireland
S. J. Hiemstra
Centre for Genetic Resources, the Netherlands (CGN) of Wageningen University & Research, Wageningen, The Netherlands
D. Schokker
Wageningen Bioveterinary Research, Lelystad, The Netherlands
N. Peynot
Université Paris-Saclay, INRAE, AgroParisTech, GABI, Jouy- en-Josas, France
A. Stella
Institute of Agricultural Biology and Biotechnology, National Research Council (IBBA- CNR), Milan, Italy
G. Restoux
Université Paris-Saclay, INRAE, AgroParisTech, GABI, Jouy- en-Josas, France
M. A. M. Groenen
Wageningen University & Research, Animal Breeding and Genomics, Wageningen, The Netherlands
M. Tixier‐Boichard
Université Paris-Saclay, INRAE, AgroParisTech, GABI, Jouy- en-Josas, France
Abstract (eng)
Molecular genetic characterization of genetic resources is essential to study biodiversity. Whereas whole genome sequencing is still relatively expensive, low density SNP arrays offer a cost‐effective and standardized solution. However, most of the current arrays are species specific. Their high SNP density often exceeds diversity mapping requirements and remains too costly for many genetic resource managers. The IMAGE H2020 project aimed at developing a low‐cost multispecies SNP array to facilitate mapping of the genetic diversity in samples stored in gene banks and in vivo (on farm) traditional populations. This farm animal multispecies array contains approximately 10 K SNPs per species. The species included are cattle, sheep, goat, horse, pig, and chicken. We developed and tested this array on many samples from each of the six species. We describe here the SNP coverage and informativity across 253 breeds. We show that the array can be used to cluster local breeds according to history and genetic diversity. We illustrate its use for parentage testing. The array is publicly available at a reasonable price if ordered in multiples of 384 samples, leading to an overall cost of genotyping of approximately 15 euros per sample.
Keywords (eng)
BiodiversityFarm AnimalsMultispecies SNP Array
Type (eng)
Language
[eng]
Persistent identifier
Is in series
Title (eng)
Animal Genetics
Volume
56
Issue
5
ISSN
0268-9146
Issued
2025
Number of pages
13
Publication
Wiley
Version type (eng)
Date issued
2025
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Rights statement (eng)
© 2025 The Author(s)
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https://phaidra.vetmeduni.ac.at/o:5031 - Other links and identifiers
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- RightsLicenseRights statement© 2025 The Author(s)
- DetailsResource typeText (PDF)Formatapplication/pdfCreated31.03.2026 08:21:44 UTC
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