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Identification of hub genes associated with somatic cell score in dairy cow

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Abstract

Context

Somatic cell count (SCC) is used as an indicator of udder health. The log transformation of SCC is called somatic cell score (SCS).

Aim

Several QTL and genes have been identified that are associated with SCS. This study aimed to identify the most important genes associated with SCS.

Methods

This study compiled 168 genes that were reported to be significantly linked to SCS. Pathway analysis and network analysis were used to identify hub genes.

Key results

Pathway analysis of these genes identified 73 gene ontology (GO) terms associated with SCS. These GO terms are associated with molecular function, biological processes, and cellular components, and the identified pathways are directly or indirectly linked with the immune system. In this study, a gene network was constructed, and from this network, the 17 hub genes (CD4, CXCL8, TLR4, STAT1, TLR2, CXCL9, CCR2, IGF1, LEP, SPP1, GH1, GHR, VWF, TNFSF11, IL10RA, NOD2, and PDGFRB) associated to SCS were identified. The subnetwork analysis yielded 10 clusters, with cluster 1 containing all identified hub genes (except for the VWF gene).

Conclusion

Most hub genes and pathways identified in our study were mainly involved in inflammatory and cytokine responses.

Implications

Result obtained in current study provides knowledge of the genetic basis and biological mechanisms controlling SCS. Therefore, the identified hub genes may be regarded as the main gene for the genomic selection of mastitis resistance.

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Data availability

All genes used in this study were extracted from (https://www.animalgenome.org/cgi-bin/QTLdb/BT/gene%20srch?gwords).

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Acknowledgements

The authors would like to acknowledge the Payame Noor University for financial support of this research.

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Authors and Affiliations

  1. Department of Animal Science, Faculty of Agricultural Science, Payame Noor University, Tehran, 19395-4697, Iran

    Heydar Ghiasi & Reza Taherkhani

  2. Department of Animal Science, Faculty of Agriculture, Lorestan University, Khorram-Abad, Iran

    Majid Khaldari

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  1. Heydar Ghiasi
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Contributions

HG and MK contributed to conceptualization, methodology and reviewed and edited the final manuscript, RT contributed to revision and edited the final manuscript.

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Correspondence to Heydar Ghiasi.

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Ghiasi, H., Khaldari, M. & Taherkhani, R. Identification of hub genes associated with somatic cell score in dairy cow. Trop Anim Health Prod 55, 349 (2023). https://doi.org/10.1007/s11250-023-03766-2

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