Genomic Reference Resource for African Cattle: Genome Sequences and High-Density Array Variants.

Autor: Tijjani A; Centre for Tropical Livestock Genetics and Health (CTLGH), ILRI Ethiopia, P.O. Box 5689, Addis Ababa, Ethiopia. abdulfatai.tijjani@gmail.com.; The Jackson Laboratory, 600 Main Street, Bar Harbor, Maine, 04609, USA. abdulfatai.tijjani@gmail.com., Kambal S; Centre for Tropical Livestock Genetics and Health (CTLGH), ILRI Ethiopia, P.O. Box 5689, Addis Ababa, Ethiopia.; Department of Genetics and Animal Breeding, Faculty of Animal Production, University of Khartoum, Khartoum, Sudan., Terefe E; Department of Animal Science, College of Agriculture and Environmental Sciences, Arsi University, Asella, Ethiopia., Njeru R; International Livestock Research Institute, P.O. Box 30709, Nairobi, 00100, Kenya., Ogugo M; International Livestock Research Institute, P.O. Box 30709, Nairobi, 00100, Kenya., Ndambuki G; International Livestock Research Institute, P.O. Box 30709, Nairobi, 00100, Kenya., Missohou A; Ecole Inter-Etats des Sciences et Médecine Vétérinaires (EISMV), Dakar, Sénégal., Traore A; Institut de l'Environnement et de Recherches Agricoles (INERA), Ouagadougou, Burkina Faso., Salim B; Faculty of Veterinary Medicine, University of Khartoum, Khartoum, Sudan.; Camel Research Center, King Faisal University, Al-Ahsa, Saudi Arabia., Ezeasor C; Department of Veterinary Pathology and Microbiology, University of Nigeria, Nsukka, Enugu State, Nigeria., D'andre H C; Rwanda Agricultural and Animal Resources Development Board, Kigali, Rwanda., Obishakin ET; Biotechnology Division, National Veterinary Research Institute, Vom, Plateau State, Nigeria., Diallo B; Central Vétérinaire de Diagnostic (LCVD), Conakry, Guinea., Talaki E; École Supérieure d'Agronomie de l'Université de Lomé, Lomé, Togo., Abdoukarim IY; Laboratoire de Biotechnologie Animale et de Technologie des Viandes, Abomey-Calavi, Benin., Nash O; Centre for Genomics Research and Innovation, NABDA, Abuja, Nigeria., Osei-Amponsah R; Department of Animal Science, College of Basic and Applied Sciences, University of Ghana, Legon, Ghana., Ravaorimanana S; Ministère de l'Agriculture, de l'Elevage et de la Pêche, Antananarivo, Madagascar., Issa Y; Institut National supérieur des Sciences et Techniques d'Abéché-INSTA/Tchad, Abéché, Chad., Zegeye T; Mekelle Agricultural Research Center, Tigray Agricultural Research Institute, Mekelle, Ethiopia., Mukasa C; National Animal Genetic Resources Centre and Data Bank (NAGRC&DB), Entebbe, Uganda., Tiambo C; International Livestock Research Institute, P.O. Box 30709, Nairobi, 00100, Kenya., Prendergast JGD; Centre for Tropical Livestock Genetics and Health (CTLGH), Roslin Institute, University of Edinburgh, Easter Bush Campus, Midlothian, EH25 9RG, UK., Kemp SJ; International Livestock Research Institute, P.O. Box 30709, Nairobi, 00100, Kenya., Han J; CAAS-ILRI Joint Laboratory on Livestock and Forage Genetic Resources, Institute of Animal Science, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China.; Yazhouwan National Laboratory, No. 8 Huanjin Road, Yazhou, Sanya, 572024, Hainan, P. R. China., Marshall K; International Livestock Research Institute, P.O. Box 30709, Nairobi, 00100, Kenya. k.marshall@cgiar.org., Hanotte O; Centre for Tropical Livestock Genetics and Health (CTLGH), ILRI Ethiopia, P.O. Box 5689, Addis Ababa, Ethiopia. o.hanotte@cgiar.org.; Cells, Organism and Molecular Genetics, School of Life Sciences, University of Nottingham, Nottingham, UK. o.hanotte@cgiar.org.
Jazyk: angličtina
Zdroj: Scientific data [Sci Data] 2024 Jul 19; Vol. 11 (1), pp. 801. Date of Electronic Publication: 2024 Jul 19.
DOI: 10.1038/s41597-024-03589-2
Abstrakt: The diversity in genome resources is fundamental to designing genomic strategies for local breed improvement and utilisation. These resources also support gene discovery and enhance our understanding of the mechanisms of resilience with applications beyond local breeds. Here, we report the genome sequences of 555 cattle (208 of which comprise new data) and high-density (HD) array genotyping of 1,082 samples (537 new samples) from indigenous African cattle populations. The new sequences have an average genome coverage of ~30X, three times higher than the average (~10X) of the over 300 sequences already in the public domain. Following variant quality checks, we identified approximately 32.3 million sequence variants and 661,943 HD autosomal variants mapped to the Bos taurus reference genome (ARS-UCD1.2). The new datasets were generated as part of the Centre for Tropical Livestock Genetics and Health (CTLGH) Genomic Reference Resource for African Cattle (GRRFAC) initiative, which aspires to facilitate the generation of this livestock resource and hopes for its utilisation for complete indigenous breed characterisation and sustainable global livestock improvement.
(© 2024. The Author(s).)
Databáze: MEDLINE
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