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

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

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 se...

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Bibliographic Details
Published in:Scientific data Vol. 11; no. 1; pp. 801 - 10
Main Authors: Tijjani, Abdulfatai, Kambal, Sumaya, Terefe, Endashaw, Njeru, Regina, Ogugo, Moses, Ndambuki, Gideon, Missohou, Ayao, Traore, Amadou, Salim, Bashir, Ezeasor, Chukwunonso, D’andre H., Claire, Obishakin, Emmanuel T., Diallo, Boubacar, Talaki, Essodina, Abdoukarim, Issaka Y., Nash, Oyekanmi, Osei-Amponsah, Richard, Ravaorimanana, Simeone, Issa, Youssouf, Zegeye, Tsadkan, Mukasa, Christopher, Tiambo, Christian, Prendergast, James G. D., Kemp, Stephen J., Han, Jianlin, Marshall, Karen, Hanotte, Olivier
Format: Journal Article
Language:English
Published: London Nature Publishing Group UK 19-07-2024
Nature Publishing Group
Nature Portfolio
Subjects:
631/181/2474
631/208/457/649
Africa
Animals
Bos taurus
Breeding
Cattle
Cattle - genetics
Data Descriptor
Genetic Variation
Genome
Genomes
Genomics
Genotyping
Humanities and Social Sciences
Livestock
multidisciplinary
Nucleotide sequence
Science
Science (multidisciplinary)
Africa
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Summary: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.
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ISSN:2052-4463
2052-4463
DOI:10.1038/s41597-024-03589-2