A cattle graph genome incorporating global breed diversity

Talenti, A, Powell, J, Hemmink, JD, Cook, EAJ ORCID: 0000-0001-6081-8363, Wragg, D, Jayaraman, S, Paxton, E, Ezeasor, C, Obishakin, ET, Agusi, ER
et al (show 11 more authors) (2022) A cattle graph genome incorporating global breed diversity. NATURE COMMUNICATIONS, 13 (1). 910-.

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Despite only 8% of cattle being found in Europe, European breeds dominate current genetic resources. This adversely impacts cattle research in other important global cattle breeds, especially those from Africa for which genomic resources are particularly limited, despite their disproportionate importance to the continent's economies. To mitigate this issue, we have generated assemblies of African breeds, which have been integrated with genomic data for 294 diverse cattle into a graph genome that incorporates global cattle diversity. We illustrate how this more representative reference assembly contains an extra 116.1 Mb (4.2%) of sequence absent from the current Hereford sequence and consequently inaccessible to current studies. We further demonstrate how using this graph genome increases read mapping rates, reduces allelic biases and improves the agreement of structural variant calling with independent optical mapping data. Consequently, we present an improved, more representative, reference assembly that will improve global cattle research.

Item Type: Article
Uncontrolled Keywords: Animals, Cattle, Chromosome Mapping, Genomics, Alleles, Genome, Africa, Europe, Male, Genetic Variation
Divisions: Faculty of Health and Life Sciences
Faculty of Health and Life Sciences > Institute of Infection, Veterinary and Ecological Sciences
Depositing User: Symplectic Admin
Date Deposited: 03 May 2022 15:03
Last Modified: 18 Jan 2023 21:04
DOI: 10.1038/s41467-022-28605-0
Open Access URL: https://www.nature.com/articles/s41467-022-28605-0
Related URLs:
URI: https://livrepository.liverpool.ac.uk/id/eprint/3154222