期刊文献+
任意字段
题名或关键词
题名
关键词
文摘
作者
第一作者
机构
刊名
分类号
参考文献
作者简介
基金资助
栏目信息

荣昌猪杂交群体基因组拷贝数变异鉴定与分析 被引量：2

Identification and Analysis of Copy Number Variations in Rongchang Pig Hybridization Population
下载PDF
导出
摘要 为找出可能的性状相关遗传标记,本研究利用猪SNP60芯片对150头荣昌猪杂交群体基因组拷贝数变异区域(CNV regions,CNVRs)进行检测。结果,发现5个CNVRs,其中缺失CNVRs 3个(CNVRs 2,4,5),重复CNVRs 2个(CNVRs 1,3),分别位于1、7、8、13、14号染色体上。其中CNVR1和CNVR5为新发现的CNVRs,CNVR2和CNVR3为已有报道但还未验证过的区域。采用qPCR方法对CNVRs进行拷贝数变异验证,发现CNVR2、CNVR3和CNVR5在多个猪种中都具有丰富多态性;而CNVR4为芯片假阳性结果。在qPCR验证的3个CNVRs中有46个蛋白编码基因,这些基因主要富集在嗅觉受体活性、乙醇代谢、神经系统发育以及脂肪酸代谢通路中。本研究结果为解析品种间表型变异的遗传基础提供了新的遗传变异素材。 The aim of this study was to detect CNV regions(CNVRs)from 150Rongchang pig hybridization population using the Porcine SNP60BeadChip.In this study,5CNVRs(CNV regions) were identified across five autosomal chromosomes(chromosomes 1,7,8,13,14)and the predicted status for the CNVRs was 3for deletion,2for duplication.Among these 5CNVRs,CNVR5and CNVR1were the novel found states,and CNVR2and CNVR3were reported by others but not had been validated.The CNVRs were validated by real time quantitative PCR.The results showed that CNVR2,CNVR3,CNVR5had extensive polymorphism in different pig breeds.CNVR4was the false positive states.Gene Ontology(GO)and Kyoto Encyclopedia of Genes and Genomes(KEGG)pathway analysis revealed that 46protein-coding genes in verifying CNVRs possessed a great variety of molecular functions,such as olfactory receptor activity,ethanol metabolic process, neurological system development and fatty acid metabolism pathway.The result provide genetic variation materials for analyzing the genetic base of phenotypic variation between pig breeds.
作者 龙熙 邱小田 陈磊 王金勇 李学伟
机构地区 四川农业大学动物科技学院 重庆市畜牧科学院
出处 《畜牧兽医学报》 CAS CSCD 北大核心 2014年第4期524-532,共9页 ACTA VETERINARIA ET ZOOTECHNICA SINICA
基金 重庆市杰出青年基金(CSTC2010BA1007) 国家自然科学基金(31101701 31372284)
关键词 荣昌猪杂交群体 猪SNP60芯片 荧光定量PCR 拷贝数变异 Rongchang pig hybridization populations porcine SNP60BeadChip quantitative real time PCR copy number variations
分类号 S828 [农业科学—畜牧学]
  • 相关文献

参考文献6

二级参考文献94

  • 1张刚,罗少军,汤少明,梁杰.比较基因组杂交研究瘢痕疙瘩遗传变异[J].中华整形外科杂志,2005,21(1):29-31. 被引量：18
  • 2曾长英,徐芳森,孟金陵,王运华,胡承孝.从QTL到QTG的路还有多远?[J].遗传,2006,28(9):1191-1198. 被引量：8
  • 3Helentjaris T, Burr B. Development and Application of Molecular Markers to Problems in Plant Genetics. America: Gold Spring Harbor Laboratory Press, 1989, 1-165.
  • 4Iafrate AJ, Feuk L, Rivera MN, Listewnik ML, Donahoe PK, Qi Y, Scherer SW, Lee C. Detection of large-scale variation in the human genome. Nat Genet, 2004, 36(9): 949-951.
  • 5Jonathan S, Lakshmi B, Jennifer Troge, Alexander J, Young J, Lundin P, Maner S, Massa H, Walker M, Chi M, Navin N, Lucito R, Healy J, Hicks J, Ye K, Reiner A, Gilliam TC, Trask B, Patterson N, Zetterberg A, Wigler M Large-scale copy number polymorphism in the human genome. Science, 2004, 305(23): 525-528.
  • 6Beckmann JS, Estivill X, Antonarakis SE. Copy number variants and genetic traits: closer to the resolution of phenotypic to genotypic variability. Nat Rev Genet, 2007, 8(8): 639-646.
  • 7Freeman JL, Perry GH, Feuk L, Redon R, McCarroll SA, Altshuler DM, Aburatani H, Jones KW, Tyler-Smith C, Hurles ME, Carter NP, Scherer SW, Lee C. Copy number variation: New insights in genome diversity, Genorne Res, 2007, 16(8): 949-961.
  • 8Lee JA, Carvalho CM, Lupski JR. A DNA replication mechanism for generating nonrecurrent rearrangements associated with genomic disorders. Cell, 2007, 28 (131): 1235-1247.
  • 9Gonzalez E, Kulkarni H, Bolivar H, Mangano A, Sanchez R, Catano G, Nibbs RJ, Freedman BI, Quinones MP, Bamshad MJ. The influence of CCL3L1 gene-containing segmental duplications on HIV-1/AIDS susceptibility. Science, 2005, 307(5714): 1434-1440.
  • 10Redon R, Ishikawa S, Fitch KR, Feuk L, Perry GH, Andrews TD, Fiegler H, Shapero MH, Carson AR, Chen W, Cho EK, Dallaire S, Freeman JL, Gonzalez JR, Gratacos M, Huang J, Kalaitzopoulos D, Komura D, MacDonald JR, Marshall CR, Mei R, Montgomery L, Nishimura K, Okamura K, Sben F, Somerville M J, Tcbinda J, Valsesia A, Woodwark C, Yang F, Zhang J, Zerjal T, Zhang J, Armengol L, Conrad DF, Estivill X, Tyler-Smith C, Carter NP, Aburatani H, Lee C, Jones KW, Scherer SW, Hurles ME. Global variation in copy number in the human genome. Nature, 2006, 23(444): 444-454.

共引文献35

同被引文献20

  • 1Sebat J, Lakshmi B, Troge J, et al. Large-scale copy number polymorphism in the human genome[J]. Sci- ence, 2004,305 (5683) : 525-528.
  • 2Iafrate A J, Feuk L, Rivera M N, et al. Detection of large-scale variation in the human genome[J]. Nat Genet ,2004,36(9) : 949-951.
  • 3Redon R, Ishikawa S, Fitch K R, et al. Global varia- tion in copy number in the human genome[J]. Na- ture,2006,444(7118) :444%54.
  • 4Pinkel D, Segraves R, Sudar D, et al. High resolution analysis o{ DNA copy number variation using compar- ative genomic hybridization to rnicroarrays [J]. Nat Genet, 1998,20(2) : 207-211.
  • 5Carvalho C M, Lupski J R. Copy number variation at the breakpoint region of isoehromosome 17q[J]. Ge- nome Res, 2008,18(11) : 1724-1732.
  • 6Fontanesi L, Beretti F, Martelli P L, et al. A {irst comparative map of copy number variations in the sheep genome[J]. Genomics ,2011,97 : 158-165.
  • 7Turner D J, Miretti M, Raian D, et a[. Germline rates ofde novo meiotic deletions and duplications causing several genomic disorders[J]. Nat Genet, 2008,40 : 909 5.
  • 8Bickhart D M, Hou Y, Schroeder S G, et al. Copy number variation of individual cattle gertomes using next-generation sequencing [J]. Genorne Res, 2012, 22:778-790.
  • 9Wright D,Boije H, Meadows J R, et al. Copy number variation in intron 1 of SOX5 causes the pea comb phenotype in chickens [J ]. PLoS Genet, 2009, 5(6) e1000512.
  • 10Pielberg G R, Golovko A, Sundstrm E, et al. A cis- acting regulatory mutation causes premature hair gra- ying and susceptibility to melanoma in the horse[J]. Nat Genet, 2008,40 (8) : 1004-1009.

引证文献2

二级引证文献2

畜牧兽医学报
2014年 第4期

相关作者

内容加载中请稍等...

相关机构

内容加载中请稍等...

相关主题

内容加载中请稍等...

浏览历史

内容加载中请稍等...
;
使用帮助 返回顶部