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MALDI–TOF-MS-based high throughput genotyping of mutations associated with body measurement traits in cattle

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Abstract

Exploration of genes in relation to body measurement traits through large-scaled mutation identification is highly conductive for the genomics-assisted breeding of superior productivity cattle. In this investigation, 31 objective mutations were genotyped synchronously in 384 yellow cattle of 8 breeds through the application of optimized MALDI–TOF-MS and multiplex PCR techniques. High genotyping rate was obtained as well as greatly decreased cost which was below one thirtieth of the routine analysis. Results from genotyping revealed 23 mutations as valid mutations in the studied cattle population with gene heterozygosity and effective allele number varying from 0.0052 to 0.4998 and 1.0052 to 1.9991, respectively. Among the 23 effective mutations, 12 was classified as moderate polymorphism (0.25 < PIC < 0.5) while the other 11 belonged to low polymorphism (PIC < 0.25), 7 mutations did not obey the HW equilibrium (p < 0.05) and linkage mainly appeared between mutations of UCP2 and PTHR1 genes. Furthermore, 8 body measurement traits in the 384 cattle were recorded to validate their association with tag mutations, and significant correlations were found in 12 mutations of 9 genes including PTHR1, CDK6, IHH, HHIP, GHRL, COL1A1, INS, GDF5 and UCP2, of which, PTHR1 was proved to be the most potential contributor to bone modeling in cattle. Results highlight the potential application value of 12 novel mutations in enhancing cattle production traits as well as the high genotyping rate achieved by MALDI–TOF-MS coupled with multiplex PCR technique.

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Acknowledgements

This work was supported by the National Key Research and Development Program of China (2018YFD0501700), National Modern Agricultural Industry Special Program (CARS-38), the National Natural Science Foundation of China (U1903109) and the Fundamental Research Funds for the Central Universities of China (GK202001002).

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Author notes

  1. Yongfeng Liu and Yang Jiao contributed equally to this work.

Authors and Affiliations

  1. College of Food Engineering and Nutritional Science, Shaanxi Normal University, Xi’an, 710119, Shaanxi, China

    Yongfeng Liu & Yang Jiao

  2. College of Animal Science and Technology, Northwest Agriculture and Forestry University, Yangling, 712100, Shaanxi, China

    Peiwei Li & Linsen Zan

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  1. Yongfeng Liu
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  2. Yang Jiao
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  3. Peiwei Li
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Correspondence to Linsen Zan.

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Liu, Y., Jiao, Y., Li, P. et al. MALDI–TOF-MS-based high throughput genotyping of mutations associated with body measurement traits in cattle. Mamm Genome 31, 228–239 (2020). https://doi.org/10.1007/s00335-020-09840-6

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  • DOI: https://doi.org/10.1007/s00335-020-09840-6

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