Identification of candidate genes associated with conformation in Holsteinized Black and White cattle based on GWAS analysis

There was conducted a study aimed at identifying genome-wide associations with phenotypic exterior traits in Holsteinized Black-and-White cattle (n=356 heads for 42,247 daughters). During the research there has been used the methodology of the Mosplem Union which includes 4 traits according to system A and 17 traits according to system B. Genotyping was performed on the basis of the Illumina BovineSNP50 (54609 SNPs). The search for candidate genes localized in the region of identified SNPs was performed in the NCBI database for the Bos_taurus_UMD_3.1.1 genome assembly. The CattleQTLdb database was used to search for QTL and areas under selection pressure. According to system "A" in the data region of significantly significant SNPs, 26 candidate genes associated with the studied exterior traits were identified. According to system "B", 22 SNPs associated with exterior traits were identified. The following genes are localized on chromosomes 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 13, 14, 15, 16, 17, 19, 20, 21, 22, 25, 26, 28: ADCY5, FRYL, GOLGB1, ILDR1, ITGB5, MAPK10, SEC22A, STXBP5L, ZP2, ALDH1A2, ERGIC1, KCND2, PAPPA2, PPFIA2, PRDM16, RABGAP1L, SECISBP2, SMYD3, ANO3, DPP10, HPSE2, MAML3, PRKCE, SLCO3A1, ANTXR1, KCTD2, NCOA1, NRG3, TIGAR, VAV3, XYLT1, PRR5L, BFSP1, CDH4, HECW1, MAPKAP1, SPOCK1, SRP68, SYNJ2, DAB1, EPS8, PCDH15, PTPRR, TRPM7, TTYH2, UBR1, USP32, ANGPT1, ITCH, OSBPL10, RAI1, RGS22, SLA2, ZFHX4, BCL9, GFRA2, SLC25A12, CNNM2, IGFBP7, KALRN, MACROD2, PCSK5, UCK2, CNKSR3, CUL3, CYP27A1, RHPN1, TSNARE1, EBF1, PTCH1. The identified genes are associated with quantitative trait loci associated with various indicators that are consistent with those previously annotated by other researchers. The reliability of significant associations for point mutations was within the range of p<1.80E-08 – 0.0001474. Such a tool of genetic research as GWAS analysis allows more efficient planning of obtaining individuals that would meet the economic needs of dairy cattle breeding.

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