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Genome-Wide Assessment of Signatures of Selection in the Pakistan Sahiwal Cattle

Genome-Wide Assessment of Signatures of Selection in the Pakistan Sahiwal Cattle

Abdul Rahman Sesay1,2, Muhammad Saif-ur-Rehman1*, Faisal Ramzan1 and Faisal Saeed Awan3

1Institute of Animal and Dairy Sciences, Faculty of Animal Husbandry, University of Agriculture, Faisalabad, Pakistan 
2Department of Animal Science, School of Agriculture, Njala University, Freetown, Sierra Leone
3Centre of Agricultural Biochemistry and Biotechnology, University of Agriculture, Faisalabad, Pakistan
*      Corresponding author:


The Sahiwal breed of dairy cattle holds significant importance in Pakistan, mostly attributed to its ability to withstand high temperatures, resilience to diseases, and satisfactory performance when fed low-quality roughages. Domestication and breeding of mammals have exerted a consistent selection pressure on a wide range of characteristics in many domesticated species, resulting in discernible genetic modifications at the individual genome level. The study aimed to discover and analyze potential indicators of recent selection in Sahiwal cattle, specifically identifying the genes and quantitative trait loci associated with these selection indicators. The study utilized a sample size of 98 Sahiwal bulls. The genotyping of all animals was conducted using the BovineHD140k BeadChip. After undergoing quality control measures, 87 samples as well as 74,070 SNPs located throughout 29 autosomes were selected as well as included in the study. The selection signatures were examined using the iHS and the Tajima D approach. The result reveals the current positive selections on BTA 1, 2, 6, 11, 12, 15, 17, 21, and 27 with the iHS test, while for the Tajima D test, the current positive selections were detected on BTA 1, 2, 3, 4, 5, 6, 7, 9, 10, 14, 18, 20, 23, and 24. A total of 47 genes were detected within selection regions associated with vital economic traits. The QTL enrichment analysis has shown eight substantial QTLs in BTA19 and BTA20 linked with milk, production, as well as reproduction traits. Therefore, understanding the selection signatures and candidate genes that influence important economic traits can provide foundational knowledge that can be used effectively to gain insight into the underlying mechanisms controlling these traits in Sahiwal cattle.

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Pakistan Journal of Zoology


Pakistan J. Zool., Vol. 56, Iss. 3, pp. 1001-1500


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