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Volumn 9, Issue 1, 2014, Pages

Enhancing genome-wide copy number variation identification by high density array CGH using diverse resources of pig breeds

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPARATIVE GENOMIC HYBRIDIZATION; CONTROLLED STUDY; COPY NUMBER VARIATION; DUROC PIG; FEMALE; GENETIC IDENTIFICATION; LANDRACE PIG; MALE; MORPHOLOGICAL TRAIT; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPIC VARIATION; PIG BREED; PURIFYING SELECTION; QUANTITATIVE TRAIT LOCUS; REAL TIME POLYMERASE CHAIN REACTION; WILD BOAR; X CHROMOSOME; YORKSHIRE PIG;

EID: 84900298286     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0087571     Document Type: Article
Times cited : (27)

References (42)
  • 1
    • 66149153139 scopus 로고    scopus 로고
    • Earliest domestication of common millet (Panicum miliaceum) in East Asia extended to 10,000 years ago
    • Lu H, Zhang J, Liu KB, Wu N, Li Y, et al. (2009) Earliest domestication of common millet (Panicum miliaceum) in East Asia extended to 10,000 years ago. Proc Natl Acad Sci U S A 106: 7367-7372.
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 7367-7372
    • Lu, H.1    Zhang, J.2    Liu, K.B.3    Wu, N.4    Li, Y.5
  • 3
    • 38949085542 scopus 로고    scopus 로고
    • The development of porcine models of obesity and the metabolic syndrome
    • Spurlock ME, Gabler NK (2008) The development of porcine models of obesity and the metabolic syndrome. J Nutr 138: 397-402. (Pubitemid 351213658)
    • (2008) Journal of Nutrition , vol.138 , Issue.2 , pp. 397-402
    • Spurlock, M.E.1    Gabler, N.K.2
  • 4
    • 84869003221 scopus 로고    scopus 로고
    • Analyses of pig genomes provide insight into porcine demography and evolution
    • Groenen MAM, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, et al. (2012) Analyses of pig genomes provide insight into porcine demography and evolution. Nature 491: 393-398.
    • (2012) Nature , vol.491 , pp. 393-398
    • Groenen, M.A.M.1    Archibald, A.L.2    Uenishi, H.3    Tuggle, C.K.4    Takeuchi, Y.5
  • 5
    • 84877034358 scopus 로고    scopus 로고
    • Copy number variation in the cattle genome
    • Liu GE, Bickhart DM (2012) Copy number variation in the cattle genome. Funct Integr Genomics 12: 609-624.
    • (2012) Funct Integr Genomics , vol.12 , pp. 609-624
    • Liu, G.E.1    Bickhart, D.M.2
  • 6
    • 84975804424 scopus 로고    scopus 로고
    • Mapping copy number variation by population-scale genome sequencing
    • Mills RE, Walter K, Stewart C, Handsaker RE, Chen K, et al. (2011) Mapping copy number variation by population-scale genome sequencing. Nature 470: 59-65.
    • (2011) Nature , vol.470 , pp. 59-65
    • Mills, R.E.1    Walter, K.2    Stewart, C.3    Handsaker, R.E.4    Chen, K.5
  • 12
    • 67651219230 scopus 로고    scopus 로고
    • Copy number variation in intron 1 of SOX5 causes the Pea-comb phenotype in chickens
    • Wright D, Boije H, Meadows JRS, Bed'hom B, Gourichon D, et al. (2009) Copy number variation in intron 1 of SOX5 causes the Pea-comb phenotype in chickens. PLoS Genet 5: e1000512.
    • (2009) PLoS Genet , vol.5
    • Wright, D.1    Boije, H.2    Meadows, J.R.S.3    Bed'Hom, B.4    Gourichon, D.5
  • 13
    • 48349098128 scopus 로고    scopus 로고
    • A cis-acting regulatory mutation causes premature hair graying and susceptibility to melanoma in the horse
    • Rosengren Pielberg G, Golovko A, Sundström E, Curik I, Lennartsson J, et al. (2008) A cis-acting regulatory mutation causes premature hair graying and susceptibility to melanoma in the horse. Nat Genet 40: 1004-1009.
    • (2008) Nat Genet , vol.40 , pp. 1004-1009
    • Rosengren Pielberg, G.1    Golovko, A.2    Sundström, E.3    Curik, I.4    Lennartsson, J.5
  • 14
    • 78649351737 scopus 로고    scopus 로고
    • Analysis of copy loss and gain variations in Holstein cattle autosomes using BeadChip SNPs
    • Seroussi E, Glick G, Shirak A, Yakobson E, Weller JI, et al. (2010) Analysis of copy loss and gain variations in Holstein cattle autosomes using BeadChip SNPs. BMC Genomics 11: 673.
    • (2010) BMC Genomics , vol.11 , pp. 673
    • Seroussi, E.1    Glick, G.2    Shirak, A.3    Yakobson, E.4    Weller, J.I.5
  • 15
    • 79952112002 scopus 로고    scopus 로고
    • Copy number variation in the porcine genome inferred from a 60 k SNP BeadChip
    • Ramayo-Caldas Y, Castelló A, Pena RN, Alves E, Mercadé A, et al. (2010) Copy number variation in the porcine genome inferred from a 60 k SNP BeadChip. BMC Genomics 11: 593.
    • (2010) BMC Genomics , vol.11 , pp. 593
    • Ramayo-Caldas, Y.1    Castelló, A.2    Pena, R.N.3    Alves, E.4    Mercadé, A.5
  • 16
    • 84862529082 scopus 로고    scopus 로고
    • A genome-wide detection of copy number variations using SNP genotyping arrays in swine
    • Wang J, Jiang J, Fu W, Jiang L, Ding X, et al. (2012) A genome-wide detection of copy number variations using SNP genotyping arrays in swine. BMC Genomics 13: 273.
    • (2012) BMC Genomics , vol.13 , pp. 273
    • Wang, J.1    Jiang, J.2    Fu, W.3    Jiang, L.4    Ding, X.5
  • 17
    • 84880730380 scopus 로고    scopus 로고
    • Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping Aarrays
    • Wang J, Wang H, Jiang J, Kang H, Feng X, et al. (2013) Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping Aarrays. PLoS One 8: e68683.
    • (2013) PLoS One , vol.8
    • Wang, J.1    Wang, H.2    Jiang, J.3    Kang, H.4    Feng, X.5
  • 18
    • 84871581216 scopus 로고    scopus 로고
    • A comprehensive survey of copy number variation in 18 diverse pig populations and identification of candidate copy number variable genes associated with complex traits
    • Chen C, Qiao R, Wei R, Guo Y, Ai H, et al. (2012) A comprehensive survey of copy number variation in 18 diverse pig populations and identification of candidate copy number variable genes associated with complex traits. BMC Genomics 13: 733.
    • (2012) BMC Genomics , vol.13 , pp. 733
    • Chen, C.1    Qiao, R.2    Wei, R.3    Guo, Y.4    Ai, H.5
  • 20
    • 84871400427 scopus 로고    scopus 로고
    • Identification of genome-wide copy number variations among diverse pig breeds by array CGH
    • Li Y, Mei S, Zhang X, Peng X, Liu G, et al. (2012) Identification of genome-wide copy number variations among diverse pig breeds by array CGH. BMC Genomics 13: 725.
    • (2012) BMC Genomics , vol.13 , pp. 725
    • Li, Y.1    Mei, S.2    Zhang, X.3    Peng, X.4    Liu, G.5
  • 22
    • 84879835308 scopus 로고    scopus 로고
    • Evolutionary dynamics of copy number variation in pig genomes in the context of adaptation and domestication
    • Paudel Y, Madsen O, Megens HJ, Frantz LA, Bosse M, et al. (2013) Evolutionary dynamics of copy number variation in pig genomes in the context of adaptation and domestication. BMC Genomics 14: 449.
    • (2013) BMC Genomics , vol.14 , pp. 449
    • Paudel, Y.1    Madsen, O.2    Megens, H.J.3    Frantz, L.A.4    Bosse, M.5
  • 23
    • 77951798133 scopus 로고    scopus 로고
    • Analysis of copy number variations among diverse cattle breeds
    • Liu GE, Hou Y, Zhu B, Cardone MF, Jiang L, et al. (2010) Analysis of copy number variations among diverse cattle breeds. Genome Res 20: 693-703.
    • (2010) Genome Res , vol.20 , pp. 693-703
    • Liu, G.E.1    Hou, Y.2    Zhu, B.3    Cardone, M.F.4    Jiang, L.5
  • 24
    • 79955596565 scopus 로고    scopus 로고
    • Genomic Diversity in Pig (Sus scrofa) and its Comparison with Human and other Livestock
    • Zhang C, Plastow G (2011) Genomic Diversity in Pig (Sus scrofa) and its Comparison with Human and other Livestock. Curr Genomics 12: 138-146.
    • (2011) Curr Genomics , vol.12 , pp. 138-146
    • Zhang, C.1    Plastow, G.2
  • 25
    • 0003874383 scopus 로고
    • Shanghai: Shanghai Scientific and Technical Publisher
    • Zhang ZG, Li B, Chen X (1986) Pig breeds in China. Shanghai: Shanghai Scientific and Technical Publisher. 17-24.
    • (1986) Pig Breeds in China , pp. 17-24
    • Zhang, Z.G.1    Li, B.2    Chen, X.3
  • 28
    • 6344289257 scopus 로고    scopus 로고
    • Real-time quantitative PCR-based system for determining transgene copy number in transgenic animals
    • Ballester M, Castelló A, Ibáñez E, Sánchez A, Folch JM (2004) Real-time quantitative PCR-based system for determining transgene copy number in transgenic animals. Biotechniques 37: 610-613. (Pubitemid 39391178)
    • (2004) BioTechniques , vol.37 , Issue.4 , pp. 610-613
    • Ballester, M.1    Castello, A.2    Ibanez, E.3    Sanchez, A.4    Folch, J.M.5
  • 29
    • 0035710746 scopus 로고    scopus 로고
    • -DeltaDeltaCT method
    • DOI 10.1006/meth.2001.1262
    • Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2-[Delta][Delta] CT method. Methods 25: 402-408. (Pubitemid 34164012)
    • (2001) Methods , vol.25 , Issue.4 , pp. 402-408
    • Livak, K.J.1    Schmittgen, T.D.2
  • 30
    • 77958130354 scopus 로고    scopus 로고
    • Gene copy-number polymorphism in nature
    • Schrider DR, Hahn MW (2010) Gene copy-number polymorphism in nature. Proc Biol Sci 277: 3213-3221.
    • (2010) Proc Biol Sci , vol.277 , pp. 3213-3221
    • Schrider, D.R.1    Hahn, M.W.2
  • 31
    • 46249105777 scopus 로고    scopus 로고
    • Natural selection shapes genome-wide patterns of copy-number polymorphism in Drosophila melanogaster
    • DOI 10.1126/science.1158078
    • Emerson JJ, Cardoso-Moreira M, Borevitz JO, Long M (2008) Natural selection shapes genome-wide patterns of copy-number polymorphism in Drosophila melanogaster. Science 320: 1629-1631. (Pubitemid 351931251)
    • (2008) Science , vol.320 , Issue.5883 , pp. 1629-1631
    • Emerson, J.J.1    Cardoso-Moreira, M.2    Borevitz, J.O.3    Long, M.4
  • 32
    • 76349105934 scopus 로고    scopus 로고
    • High resolution discovery and confirmation of copy number variants in 90 Yoruba Nigerians
    • Matsuzaki H, Wang PH, Hu J, Rava R, Fu GK (2009) High resolution discovery and confirmation of copy number variants in 90 Yoruba Nigerians. Genome Biol 10: R125.
    • (2009) Genome Biol , vol.10
    • Matsuzaki, H.1    Wang, P.H.2    Hu, J.3    Rava, R.4    Fu, G.K.5
  • 33
    • 84874233545 scopus 로고    scopus 로고
    • Genome-wide detection of copy number variations using high-density SNP genotyping platforms in Holsteins
    • Jiang L, Jiang J, Yang J, Liu X, Wang J, et al. (2013) Genome-wide detection of copy number variations using high-density SNP genotyping platforms in Holsteins. BMC Genomics 14: 131.
    • (2013) BMC Genomics , vol.14 , pp. 131
    • Jiang, L.1    Jiang, J.2    Yang, J.3    Liu, X.4    Wang, J.5
  • 34
    • 68349137618 scopus 로고    scopus 로고
    • Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology
    • Ramos AM, Crooijmans R, Affara NA, Amaral AJ, Archibald AL, et al. (2009) Design of a high density SNP genotyping assay in the pig using SNPs identified and characterized by next generation sequencing technology. PLoS One 4: e6524.
    • (2009) PLoS One , vol.4
    • Ramos, A.M.1    Crooijmans, R.2    Affara, N.A.3    Amaral, A.J.4    Archibald, A.L.5
  • 36
    • 61849144443 scopus 로고    scopus 로고
    • The genomic architecture of segmental duplications and associated copy number variants in dogs
    • Nicholas TJ, Cheng Z, Ventura M, Mealey K, Eichler EE, et al. (2009) The genomic architecture of segmental duplications and associated copy number variants in dogs. Genome Res 19: 491-499.
    • (2009) Genome Res , vol.19 , pp. 491-499
    • Nicholas, T.J.1    Cheng, Z.2    Ventura, M.3    Mealey, K.4    Eichler, E.E.5
  • 37
    • 62549166268 scopus 로고    scopus 로고
    • Human genes involved in copy number variation: Mechanisms of origin, functional effects and implications for disease
    • De Smith A, Walters R, Froguel P, Blakemore A (2008) Human genes involved in copy number variation: mechanisms of origin, functional effects and implications for disease. Cytogenet Genome Res 123: 17-26.
    • (2008) Cytogenet Genome Res , vol.123 , pp. 17-26
    • De Smith, A.1    Walters, R.2    Froguel, P.3    Blakemore, A.4
  • 38
    • 84865865592 scopus 로고    scopus 로고
    • Copy number variation in the genomes of domestic animals
    • Clop A, Vidal O, Amills M (2012) Copy number variation in the genomes of domestic animals. Anim Genet 43: 503-517.
    • (2012) Anim Genet , vol.43 , pp. 503-517
    • Clop, A.1    Vidal, O.2    Amills, M.3
  • 39
    • 36448946831 scopus 로고    scopus 로고
    • Flavour differences of cooked longissimus muscle from Chinese indigenous pig breeds and hybrid pig breed (Duroc Landrace Large White)
    • DOI 10.1016/j.foodchem.2007.10.010, PII S0308814607010163
    • Lu P, Li D, Yin J, Zhang L, Wang Z (2008) Flavour differences of cooked longissimus muscle from Chinese indigenous pig breeds and hybrid pig breed (Duroc Landrace Large White). Food Chem 107: 1529-1537. (Pubitemid 350166774)
    • (2008) Food Chemistry , vol.107 , Issue.4 , pp. 1529-1537
    • Lu, P.1    Li, D.2    Yin, J.3    Zhang, L.4    Wang, Z.5
  • 40
    • 84885611088 scopus 로고    scopus 로고
    • Carcass and meat quality traits of four commercial pig crossbreeds in China
    • Jiang YZ, Zhu L, Tang GQ, Li MZ, Jiang AA, et al. (2012) Carcass and meat quality traits of four commercial pig crossbreeds in China. Genet Mol Res 11: 4447-4455.
    • (2012) Genet Mol Res , vol.11 , pp. 4447-4455
    • Jiang, Y.Z.1    Zhu, L.2    Tang, G.Q.3    Li, M.Z.4    Jiang, A.A.5
  • 42
    • 34347353237 scopus 로고    scopus 로고
    • Copy-number variation and association studies of human disease
    • DOI 10.1038/ng2080, PII NG2080
    • McCarroll SA, Altshuler DM (2007) Copy-number variation and association studies of human disease. Nat Genet 39(7 Suppl): S37-42. (Pubitemid 47014474)
    • (2007) Nature Genetics , vol.39 , Issue.SUPPL. 1
    • McCarroll, S.A.1    Altshuler, D.M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.