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Two new sine insertion polymorphisms in pig Vertnin(VRTN)gene revealed by comparative genomic alignment

Journal of Integrative Agriculture 2020年第10期19卷 2514-2522页

作者： ZHENG Yao CHEN Cai CHEN Wei WANG Xiao-yan WANG Wei GAO Bo Klaus WIMMERS MAO Jiu-de SONG Cheng-yi Institute of Animal Mobilome and Genome College of Animal Science&TechnologyYangzhou UniversityYangzhou 225009P.R.China Leibniz Institute for Farm Animal Biology(FBN) Dummerstorf 18196Germany Life Science Center University of MissouriColumbiaMO65211USA

Despite one sine retrotransposon insertion polymorphism(sRTIP)in the vertebrae development-associated(VRTN)gene was identified in pigs,the structural variations(SVs)in VRTN gene and its proximal flank regions were largely *** genic and flanking sequences from 14 breeds were assembled or downloaded from whole genome shotgun contings(WGS)database,and aligned to identify the SVs with Clustalx,and retrotransposons in VRTN gene were annotated by RepeatMasker,the splicing patterns of VRTN gene were predicted by Genescan,and large SVs were evaluated by PCR.A total of 12 small SVs and three large SVs in intron of VRTN,derived from sine insertion *** identifed,and two of them(VRTN-sRTIP2 and VRTN-sRTIP3)were not reported *** VRTN-sRTIPs may affect the splicing patterns of *** displayed polymorphisms in most detected eight ***-sRTIP2 and VRTN-sRTIP3 showed Hardy-Weinberg equilibrium distributions in most populations except the Chinese local Erhualian pigs,while VRTN-sRTIP1 showed genetic equilbrium in Erhualian *** VRTN-sRTIPs were identified,and displayed polymorphisms in pigs,and two of them were not reported *** SVs provide a useful molecular markers for genetic analysis in pigs,and offer new information to facilitate the understanding the SVs of VRTN gene and their putative roles in the variation of vertebral number.

关键词： VRTN gene structural variations sine insertion polymorphism pig

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