Optical mapping compendium of structural variants across global cattle breeds

Structural variants (SV) have been linked to important bovine disease phenotypes, but due to the difficulty of their accurate detection with standard sequencing approaches, their role in shaping important traits across cattle breeds is largely unexplored. Optical mapping is an alternative approach f...

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Bibliographic Details
Published in:Scientific data 2022-10, Vol.9 (1), p.618-618, Article 618
Main Authors: Talenti, A., Powell, J., Wragg, D., Chepkwony, M., Fisch, A., Ferreira, B. R., Mercadante, M. E. Z., Santos, I. M., Ezeasor, C. K., Obishakin, E. T., Muhanguzi, D., Amanyire, W., Silwamba, I., Muma, J. B., Mainda, G., Kelly, R. F., Toye, P., Connelley, T., Prendergast, J.
Format: Article
Language:English
Subjects:
631/114/2785
631/208/212
Bos taurus
Cattle
Data Descriptor
DNA sequencing
Gene mapping
Humanities and Social Sciences
multidisciplinary
Phenotypes
Science
Science (multidisciplinary)
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Summary:Structural variants (SV) have been linked to important bovine disease phenotypes, but due to the difficulty of their accurate detection with standard sequencing approaches, their role in shaping important traits across cattle breeds is largely unexplored. Optical mapping is an alternative approach for mapping SVs that has been shown to have higher sensitivity than DNA sequencing approaches. The aim of this project was to use optical mapping to develop a high-quality database of structural variation across cattle breeds from different geographical regions, to enable further study of SVs in cattle. To do this we generated 100X Bionano optical mapping data for 18 cattle of nine different ancestries, three continents and both cattle sub-species. In total we identified 13,457 SVs, of which 1,200 putatively overlap coding regions. This resource provides a high-quality set of optical mapping-based SV calls that can be used across studies, from validating DNA sequencing-based SV calls to prioritising candidate functional variants in genetic association studies and expanding our understanding of the role of SVs in cattle evolution. Measurement(s) Optical Mapping Technology Type(s) Optical Mapping Factor Type(s) Structural variants Sample Characteristic - Organism Bos taurus Sample Characteristic - Location United Kingdom • Kenya • Zambia • Uganda • Brazil • Nigeria
ISSN:2052-4463
2052-4463
DOI:10.1038/s41597-022-01684-w