Kolosov Anatoly, Getmantseva Lyubov, Kolosova Maria, Romanets Timofey, Bakoev Nekruz, Romanets Elena, Bakoeva Ilona, Kostyunina Olga, Prytkov Yuri, Tretiakova Olga, Bakoev Siroj
Don State Agrarian University, 346493 Persianovski, Russia.
Centre for Strategic Planning and Management of Biomedical Health Risks Disabled, 119435 Moscow, Russia.
Genes (Basel). 2022 Jan 22;13(2):197. doi: 10.3390/genes13020197.
Pigs are strategically important animals for the agricultural industry. An assessment of genetic differentiation between pigs, undergone and not undergone to selection intensification, is of particular interest. Our research was conducted on two groups of Large White pigs grown on the same farm but in different years. A total of 165 samples were selected with 78 LW_А ( = 78, the Russian selection) and LW_B ( = 87, a commercial livestock). For genotyping, we used GeneSeek GGP Porcine HD Genomic Profiler v1 (Illumina Inc, San Diego, CA, USA). To define breeding characteristics of selection, we used smoothing FST and segment identification of HBD (Homozygous-by-Descent). The results of smoothing FST showed 20 areas of a genome with strong ejection regions of the genome located on all chromosomes except SSC2, SSC3, and SSC8. The average realized autozygosity in Large White pigs of native selection was in (LW_A)-0.21, in LW_В-0.29. LW_А showed 13,338 HBD segments, 171 per one animal, and LW_B-15,747 HBD segments, 181 per one animal. The ejections found by the smoothing FST method were partially localized in the HBD regions. In these areas, the genes ((NCBP1, PLPPR1, GRIN3A, NBEA, TRPC4, HS6ST3, NALCN, SMG6, TTC3, KCNJ6, IKZF2, OBSL1, CARD10, ETV6, VWF, CCND2, TSPAN9, CDH13, CEP128, SERPINA11, PIK3CG, COG5, BCAP29, SLC26A4) were defined. The revealed genes can be of special interest for further studying their influence on an organism of an animal since they can act as candidate genes for selection-significant traits.
猪对农业产业具有重要的战略意义。评估经过和未经过强化选择的猪之间的遗传分化情况尤其令人关注。我们的研究针对的是在同一农场不同年份饲养的两组大白猪。总共选取了165个样本，其中78个LW_A（=78，俄罗斯选育品种）和LW_B（=87，商业养殖品种）。为了进行基因分型，我们使用了GeneSeek GGP猪HD基因组分析器v1（美国加利福尼亚州圣地亚哥的Illumina公司）。为了确定选择的育种特征，我们使用了平滑FST和纯合子片段识别（HBD）。平滑FST的结果显示，基因组中有20个区域具有强烈的排斥区域，这些区域位于除SSC2、SSC3和SSC8之外的所有染色体上。本地选育的大白猪的平均实际纯合度，LW_A为-0.21，LW_B为-0.29。LW_A显示有13338个HBD片段，每只动物171个，LW_B有15747个HBD片段，每只动物181个。通过平滑FST方法发现的排斥区域部分位于HBD区域。在这些区域中，确定了一些基因（(NCBP1、PLPPR1、GRIN3A、NBEA、TRPC4、HS6ST3、NALCN、SMG6、TTC3、KCNJ6、IKZF2、OBSL1、CARD10、ETV6、VWF、CCND2、TSPAN9、CDH13、CEP128、SERPINA11、PIK3CG、COG5、BCAP29、SLC26A4)）。由于这些基因可能作为选择重要性状的候选基因，因此对于进一步研究它们对动物机体的影响可能具有特殊意义。
