华北农学报
華北農學報
화북농학보
ACTA AGRICULTURAE BOREALI-SINICA
2013年
6期
53-58
,共6页
王朝风%岳耀敬%张勇%刘建斌%韩吉龙%赵兴绪%杨博辉
王朝風%嶽耀敬%張勇%劉建斌%韓吉龍%趙興緒%楊博輝
왕조풍%악요경%장용%류건빈%한길룡%조흥서%양박휘
藏羊%VEGF-A基因%多态性%生物信息学分析
藏羊%VEGF-A基因%多態性%生物信息學分析
장양%VEGF-A기인%다태성%생물신식학분석
Tibetan sheep%VEGF-A gene%Polymorphisms%Bioinformatics analysis
为研究藏羊VEGF-A基因编码区多态性与藏羊耐高寒、缺氧环境的相关性,以藏羊的血样为材料,运用DNA池测序和直接测序法检测VEGF-A基因的序列变异,比较其基因型频率和等位基因频率的差异,并对不同的多态位点间进行连锁不平衡和单倍型分析。然后预测蛋白质序列的改变,并用生物信息学软件对蛋白质序列的结构及性质进行分析。结果表明,在藏羊VEGF-A的编码区中有3个多态性位点,SNP2(g.15020T/A)碱基的突变导致了半胱氨酸变为丝氨酸。此氨基酸的变化并没有引起基因所编码蛋白的二级结构的变化。二级结构主要以无规则卷曲和α螺旋为主。 SNP1(g.15005T/A)的基因型频率和等位基因频率在藏羊群体中和湖羊群体中差异不显著(P>0.05),而SNP2(g.15020T/A)、SNP3(g.15020T/A)的基因型频率和等位基因频率在藏羊群体和湖羊群体中差异显著(P<0.05),SNP2(g.15020T/A)、SNP3(g.15020T/A)的等位基因A是藏羊群体中的优势等位基因,SNP2和SNP3处于紧密连锁不平衡状态(D′>0.75,r2>0.33)。在单倍型分析中发现6种单倍型,其中TTT是藏羊群体中的主要单倍型。这可能与藏羊耐高寒、缺氧环境有关,可以尝试作为藏羊低氧适应性的候选分子标记,为藏羊遗传资源的保护、开发与新品种的选育提供科学依据。
為研究藏羊VEGF-A基因編碼區多態性與藏羊耐高寒、缺氧環境的相關性,以藏羊的血樣為材料,運用DNA池測序和直接測序法檢測VEGF-A基因的序列變異,比較其基因型頻率和等位基因頻率的差異,併對不同的多態位點間進行連鎖不平衡和單倍型分析。然後預測蛋白質序列的改變,併用生物信息學軟件對蛋白質序列的結構及性質進行分析。結果錶明,在藏羊VEGF-A的編碼區中有3箇多態性位點,SNP2(g.15020T/A)堿基的突變導緻瞭半胱氨痠變為絲氨痠。此氨基痠的變化併沒有引起基因所編碼蛋白的二級結構的變化。二級結構主要以無規則捲麯和α螺鏇為主。 SNP1(g.15005T/A)的基因型頻率和等位基因頻率在藏羊群體中和湖羊群體中差異不顯著(P>0.05),而SNP2(g.15020T/A)、SNP3(g.15020T/A)的基因型頻率和等位基因頻率在藏羊群體和湖羊群體中差異顯著(P<0.05),SNP2(g.15020T/A)、SNP3(g.15020T/A)的等位基因A是藏羊群體中的優勢等位基因,SNP2和SNP3處于緊密連鎖不平衡狀態(D′>0.75,r2>0.33)。在單倍型分析中髮現6種單倍型,其中TTT是藏羊群體中的主要單倍型。這可能與藏羊耐高寒、缺氧環境有關,可以嘗試作為藏羊低氧適應性的候選分子標記,為藏羊遺傳資源的保護、開髮與新品種的選育提供科學依據。
위연구장양VEGF-A기인편마구다태성여장양내고한、결양배경적상관성,이장양적혈양위재료,운용DNA지측서화직접측서법검측VEGF-A기인적서렬변이,비교기기인형빈솔화등위기인빈솔적차이,병대불동적다태위점간진행련쇄불평형화단배형분석。연후예측단백질서렬적개변,병용생물신식학연건대단백질서렬적결구급성질진행분석。결과표명,재장양VEGF-A적편마구중유3개다태성위점,SNP2(g.15020T/A)감기적돌변도치료반광안산변위사안산。차안기산적변화병몰유인기기인소편마단백적이급결구적변화。이급결구주요이무규칙권곡화α라선위주。 SNP1(g.15005T/A)적기인형빈솔화등위기인빈솔재장양군체중화호양군체중차이불현저(P>0.05),이SNP2(g.15020T/A)、SNP3(g.15020T/A)적기인형빈솔화등위기인빈솔재장양군체화호양군체중차이현저(P<0.05),SNP2(g.15020T/A)、SNP3(g.15020T/A)적등위기인A시장양군체중적우세등위기인,SNP2화SNP3처우긴밀련쇄불평형상태(D′>0.75,r2>0.33)。재단배형분석중발현6충단배형,기중TTT시장양군체중적주요단배형。저가능여장양내고한、결양배경유관,가이상시작위장양저양괄응성적후선분자표기,위장양유전자원적보호、개발여신품충적선육제공과학의거。
To detect the polymorphisms of VEGF-A gene CDS ( Coding domain sequence ) with the correlation of cold resistant ,anoxic environment in Tibetan sheep .The sample material is Tibetan sheep blood .The polymor-phisms of VEGF-A gene CDS were identificated by DNA pools and direct sequencing in Tibetan sheep .The change of VEGF-A protein was predicted ,then the structure and characteristics around mutation change of VEGF-A protein sequences were analyzed by bioinformatics software .To campare the differences of genotype and allele frequencies . Then to analysis the different single nudeotide polymorphisms of linkage disequilibrium and haplotype .Three SNPs were discovered in VEGF-A gene CDS ( Coding domain sequence ) in Tibetan sheep .SNP2 in Tibetan sheep was ca-pable of cysteine to serine .This amino acid changes did not cause the protein encoded changes in secondary struc -ture.The secondary structures are mainly composed of Helix and Coli .The genotype and allele frequencies of SNP 1 in the Tibetan sheep breeds and Hu sheep breeeds was not significant (P>0.05),the genotype and allele frequen-cies of SNP2,SNP3 in Tibetan sheep breeds and Hu sheep breeds were significant (P<0.05).Allele A of SNP2 (g.15020T/A)、SNP3(g.15020T/A) is the advantage alleles within Tibetan sheep breeds .SNP2 and SNP3 were in close linkage disequilibrium (D′>0.75,r2 >0.33).We found six haplotypes in haplotype analysis ,TTT is the main haplotype in Tibetan sheep population .This may be related to resistant to cold ,lack of oxygen to the environ-ment in Tibetan sheep .We can try as hypoxic adaptation candidate molecular markers for the Tibetan sheep and for Tibetan sheep genetic resources protection ,development and breeding of new varieties to provide a scientific basis .