Development of test systems for the analysis of polymorphism of the TNFAIP3 and CDS1 genes associated with the fat thickness in pigs

Abstract

Relevance. In pig husbandry, one of the main issue in selection and breeding work is the efficiency of increasing the yield of quality products. The development of molecular genetic research methods using chips of various densities and subsequent genome-wide association studies made it possible to identify a large number of new genes potentially associated with selectively significant traits. Some of these potential genes are the TNFα-induced protein 3 (TNFAIP3) and CDP-diacylglycerol synthase 1 (CDS1) genes. The results of domestic and foreign studies show that these genes are associated with the regulation of the process of catabolism of cellular proteins and differentiation of fat cells.Methods. For further investigation, two polymorphisms were selected that showed a reliable association with the signs: the thickness of the fat over the 6–7 thoracic vertebrae and the thickness of the fat over the 10–12 thoracic vertebrae — in the TNFAIP3 genes (SSC1, rs81351586, A/G) and CDS1 (SSC8, rs331818788, C/A). Polymorphism was determined by real-time PCR. The selection of oligonucleotide probes and primers was carried out based on the localization of the mutation using the BLAST online resource. To test the information content of the developed RT-PCR test systems, alternative primer pairs were selected for RFLP analysis. DNA samples from 50 Large White pigs were used as genetic material.Results. The developed test systems for potential marker genes of productivity TNFAIP3 and CDS1 made it possible to clearly determine the genotypes of animals in the PCR-RT format. Both studied loci were found to be polymorphic. The developed test system can be used for genotyping a large number of animals and selecting animals with certain genotypes.