메뉴 건너뛰기




Volumn 8, Issue 1, 2012, Pages

A high density SNP array for the domestic horse and extant Perissodactyla: Utility for association mapping, genetic diversity, and phylogeny studies

(22)  McCue, Molly E a   Bannasch, Danika L b   Petersen, Jessica L a   Gurr, Jessica c   Bailey, Ernie d   Binns, Matthew M e   Distl, Ottmar f   Guérin, Gérard g   Hasegawa, Telhisa h   Hill, Emmeline W i   Leeb, Tosso j   Lindgren, Gabriella k   Penedo, M Cecilia T b   Røed, Knut H l   Ryder, Oliver A m   Swinburne, June E n   Tozaki, Teruaki o   Valberg, Stephanie J a   Vaudin, Mark n   Lindblad Toh, Kerstin p,q   more..


Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BREEDING LINE; CHESTNUT COAT COLOR GENE; CONTROLLED STUDY; DOMESTIC ANIMAL; EQUUS CABALLUS; EQUUS PRZEWALSKI; EXTANT SPECIES; GENE; GENE EXPRESSION REGULATION; GENE FREQUENCY; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENE MAPPING; GENETIC ASSOCIATION; GENETIC DISTANCE; GENETIC VARIABILITY; GENOME ANALYSIS; HAPLOTYPE MAP; HORSE; INBREEDING; MICROARRAY ANALYSIS; MOLECULAR PHYLOGENY; MONGOLIA; NONHUMAN; PARSIMONY ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; ANIMAL; BREEDING; CHROMOSOME MAP; EVOLUTION; GENETIC LINKAGE; GENETICS; GENOTYPING TECHNIQUE; HAPLOTYPE; PERISSODACTYLA; PHYLOGENY;

EID: 84857494144     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1002451     Document Type: Article
Times cited : (185)

References (43)
  • 1
    • 84887750834 scopus 로고    scopus 로고
    • Early Horse Domestication on the Eurasian Steppe
    • In: Zeder M, Bradley D, Emshwiller E, Smith B, editors, Berkley, University of Claifornia Press
    • Olsen SO, (2006) Early Horse Domestication on the Eurasian Steppe. In: Zeder M, Bradley D, Emshwiller E, Smith B, editors. Documenting Domestication: New Genetic and Archaeological Paradigms Berkley University of Claifornia Press pp. 245-269.
    • (2006) Documenting Domestication: New Genetic and Archaeological Paradigms , pp. 245-269
    • Olsen, S.O.1
  • 3
    • 70449379045 scopus 로고    scopus 로고
    • Genome sequence, comparative analysis, and population genetics of the domestic horse
    • Wade CM, Giulotto E, Sigurdsson S, Zoli M, Gnerre S, et al. (2009) Genome sequence, comparative analysis, and population genetics of the domestic horse. Science 326: 865-867.
    • (2009) Science , vol.326 , pp. 865-867
    • Wade, C.M.1    Giulotto, E.2    Sigurdsson, S.3    Zoli, M.4    Gnerre, S.5
  • 4
    • 84857481548 scopus 로고    scopus 로고
    • A comprehensive phylogeny of extant horses, rhinos and tapirs (Perissodactyla) through data combination
    • 10.1002/zoos.200900005
    • Price SA, Bininda-Emonds ORP, (2009) A comprehensive phylogeny of extant horses, rhinos and tapirs (Perissodactyla) through data combination. Zool Reihe 85: 277-292 10.1002/zoos.200900005.
    • (2009) Zool Reihe , vol.85 , pp. 277-292
    • Price, S.A.1    Bininda-Emonds, O.R.P.2
  • 5
    • 0030337794 scopus 로고    scopus 로고
    • A missense mutation in the gene for melanocyte-stimulating hormone receptor (MC1R) is associated with the chestnut coat color in horses
    • Marklund L, Moller MJ, Sandberg K, Andersson L, (1996) A missense mutation in the gene for melanocyte-stimulating hormone receptor (MC1R) is associated with the chestnut coat color in horses. Mamm Genome 7: 895-899.
    • (1996) Mamm Genome , vol.7 , pp. 895-899
    • Marklund, L.1    Moller, M.J.2    Sandberg, K.3    Andersson, L.4
  • 6
    • 0035008008 scopus 로고    scopus 로고
    • Mutations in the agouti (ASIP), the extension (MC1R), and the brown (TYRP1) loci and their association to coat color phenotypes in horses (Equus caballus)
    • Rieder S, Taourit S, Mariat D, Langlois B, Guerin G, (2001) Mutations in the agouti (ASIP), the extension (MC1R), and the brown (TYRP1) loci and their association to coat color phenotypes in horses (Equus caballus). Mamm Genome 12: 450-455.
    • (2001) Mamm Genome , vol.12 , pp. 450-455
    • Rieder, S.1    Taourit, S.2    Mariat, D.3    Langlois, B.4    Guerin, G.5
  • 7
    • 48349098128 scopus 로고    scopus 로고
    • A cis-acting regulatory mutation causes premature hair graying and susceptibility to melanoma in the horse
    • Rosengren PG, Golovko A, Sundstrom 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, P.G.1    Golovko, A.2    Sundstrom, E.3    Curik, I.4    Lennartsson, J.5
  • 8
    • 67651107321 scopus 로고    scopus 로고
    • Development and Characterization of a High Density SNP Genotyping Assay for Cattle
    • doi:10.1371/journal.pone.0005350
    • Matukumalli LK, Lawley CT, Schnabel RD, Taylor JF, Allan MF, et al. (2009) Development and Characterization of a High Density SNP Genotyping Assay for Cattle. PLoS ONE 4: e5350 doi:10.1371/journal.pone.0005350.
    • (2009) PLoS ONE , vol.4
    • Matukumalli, L.K.1    Lawley, C.T.2    Schnabel, R.D.3    Taylor, J.F.4    Allan, M.F.5
  • 9
    • 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
    • doi:10.1371/journal.pone.0006524
    • Ramos AM, Crooijmans RPMA, 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 doi:10.1371/journal.pone.0006524.
    • (2009) PLoS ONE , vol.4
    • Ramos, A.M.1    Crooijmans, R.P.M.A.2    Affara, N.A.3    Amaral, A.J.4    Archibald, A.L.5
  • 11
    • 0036275126 scopus 로고    scopus 로고
    • BeadArray technology: enabling an accurate, cost-effective approach to high-throughput genotyping
    • Oliphant A, Barker DL, Stuelpnagel JR, Chee MS, (2002) BeadArray technology: enabling an accurate, cost-effective approach to high-throughput genotyping. Biotechniques Suppl pp. 56-1.
    • (2002) Biotechniques Suppl , pp. 51-56
    • Oliphant, A.1    Barker, D.L.2    Stuelpnagel, J.R.3    Chee, M.S.4
  • 12
    • 28644447707 scopus 로고    scopus 로고
    • Genome sequence, comparative analysis and haplotype structure of the domestic dog
    • Lindblad-Toh K, Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, et al. (2005) Genome sequence, comparative analysis and haplotype structure of the domestic dog. Nature 438: 803-819.
    • (2005) Nature , vol.438 , pp. 803-819
    • Lindblad-Toh, K.1    Wade, C.M.2    Mikkelsen, T.S.3    Karlsson, E.K.4    Jaffe, D.B.5
  • 13
    • 65449132092 scopus 로고    scopus 로고
    • Genome-Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds
    • The Bovine HapMap Consortium
    • The Bovine HapMap Consortium (2009) Genome-Wide Survey of SNP Variation Uncovers the Genetic Structure of Cattle Breeds. Science 324: 528-532.
    • (2009) Science , vol.324 , pp. 528-532
  • 14
    • 0142063025 scopus 로고    scopus 로고
    • Microsatellite Variation in Japanese and Asian Horses and Their Phylogenetic Relationship Using a European Horse Outgroup
    • Tozaki T, Takezaki N, Hasegawa T, Ishida N, Kurosawa M, et al. (2003) Microsatellite Variation in Japanese and Asian Horses and Their Phylogenetic Relationship Using a European Horse Outgroup. J Hered 94: 374-380.
    • (2003) J Hered , vol.94 , pp. 374-380
    • Tozaki, T.1    Takezaki, N.2    Hasegawa, T.3    Ishida, N.4    Kurosawa, M.5
  • 15
    • 0034371737 scopus 로고    scopus 로고
    • Genetic structure of Norwegian horse breeds Die genetische Struktur von norwegischen Pferderassen
    • 10.1046/j.1439-0388.2000.00264.x
    • Bjornstad G, Gunby E, Roed KH, (2000) Genetic structure of Norwegian horse breeds Die genetische Struktur von norwegischen Pferderassen. Journal of Animal Breeding and Genetics 117: 307-317 10.1046/j.1439-0388.2000.00264.x.
    • (2000) Journal of Animal Breeding and Genetics , vol.117 , pp. 307-317
    • Bjornstad, G.1    Gunby, E.2    Roed, K.H.3
  • 17
    • 0034977045 scopus 로고    scopus 로고
    • Linkage disequilibrium in humans: models and data
    • Pritchard JK, Przeworski M, (2001) Linkage disequilibrium in humans: models and data. Am J Hum Genet 69: 1-14.
    • (2001) Am J Hum Genet , vol.69 , pp. 1-14
    • Pritchard, J.K.1    Przeworski, M.2
  • 18
    • 0035543326 scopus 로고    scopus 로고
    • Microsatellite diversity, pedigree relatedness and the contributions of founder lineages to thoroughbred horses
    • 10.1046/j.1365-2052.2001.00785.x
    • Cunningham EP, Dooley JJ, Splan RK, Bradley DG, (2001) Microsatellite diversity, pedigree relatedness and the contributions of founder lineages to thoroughbred horses. Animal Genetics 32: 360-364 10.1046/j.1365-2052.2001.00785.x.
    • (2001) Animal Genetics , vol.32 , pp. 360-364
    • Cunningham, E.P.1    Dooley, J.J.2    Splan, R.K.3    Bradley, D.G.4
  • 19
    • 61849152946 scopus 로고    scopus 로고
    • A Genome Wide Survey of SNP Variation Reveals the Genetic Structure of Sheep Breeds
    • doi:10.1371/journal.pone.0004668
    • Kijas JW, Townley D, Dalrymple BP, Heaton MP, Maddox JF, et al. (2009) A Genome Wide Survey of SNP Variation Reveals the Genetic Structure of Sheep Breeds. PLoS ONE 4: e4668 doi:10.1371/journal.pone.0004668.
    • (2009) PLoS ONE , vol.4
    • Kijas, J.W.1    Townley, D.2    Dalrymple, B.P.3    Heaton, M.P.4    Maddox, J.F.5
  • 20
    • 0037321573 scopus 로고    scopus 로고
    • Genetic relationship between Mongolian and Norwegian horses?
    • 10.1046/j.1365-2052.2003.00922.x
    • Bjornstad G, Nilsen N+, Roed KH, (2003) Genetic relationship between Mongolian and Norwegian horses? Animal Genetics 34: 55-58 10.1046/j.1365-2052.2003.00922.x.
    • (2003) Animal Genetics , vol.34 , pp. 55-58
    • Bjornstad, G.1    Nilsen, N.2    Roed, K.H.3
  • 21
    • 0032418869 scopus 로고    scopus 로고
    • Phylogenetic Relationships Within the Genus Equus and the Evolution of α and β Globin Genes
    • Oakenfull EA, Clegg JB, (1998) Phylogenetic Relationships Within the Genus Equus and the Evolution of α and β Globin Genes. Journal of Molecular Evolution 47: 772-783.
    • (1998) Journal of Molecular Evolution , vol.47 , pp. 772-783
    • Oakenfull, E.A.1    Clegg, J.B.2
  • 22
    • 0023005680 scopus 로고
    • Mitochondrial DNA evolution in the genus Equus
    • George M Jr, Ryder OA, (1986) Mitochondrial DNA evolution in the genus Equus. Mol Biol Evol 3: 535-546.
    • (1986) Mol Biol Evol , vol.3 , pp. 535-546
    • George Jr., M.1    Ryder, O.A.2
  • 23
    • 0033947520 scopus 로고    scopus 로고
    • Phylogenetics of Perissodactyla and tests of the molecular clock
    • Norman JE, Ashley MV, (2000) Phylogenetics of Perissodactyla and tests of the molecular clock. J Mol Evol 50: 11-21.
    • (2000) J Mol Evol , vol.50 , pp. 11-21
    • Norman, J.E.1    Ashley, M.V.2
  • 24
  • 25
    • 1442274721 scopus 로고    scopus 로고
    • Genetic variation in Przewalski's horses, with special focus on the last wild caught mare, 231 Orlitza III
    • Bowling AT, Zimmermann W, Ryder O, Penedo C, Peto S, et al. (2003) Genetic variation in Przewalski's horses, with special focus on the last wild caught mare, 231 Orlitza III. Cytogenetic and Genome Research 102: 226-234.
    • (2003) Cytogenetic and Genome Research , vol.102 , pp. 226-234
    • Bowling, A.T.1    Zimmermann, W.2    Ryder, O.3    Penedo, C.4    Peto, S.5
  • 26
    • 84995168225 scopus 로고
    • Gene survival in the Asian wild horse (Equus przewalskii): II. Gene survival in the whole population, in subgroups, and through history
    • 10.1002/zoo.1430080402
    • Geyer CJ, Thompson EA, Ryder OA, (1989) Gene survival in the Asian wild horse (Equus przewalskii): II. Gene survival in the whole population, in subgroups, and through history. Zoo Biol 8: 313-329 10.1002/zoo.1430080402.
    • (1989) Zoo Biol , vol.8 , pp. 313-329
    • Geyer, C.J.1    Thompson, E.A.2    Ryder, O.A.3
  • 27
    • 77952378278 scopus 로고    scopus 로고
    • Whole-Genome SNP Association in the Horse: Identification of a Deletion in Myosin Va Responsible for Lavender Foal Syndrome
    • doi:10.1371/journal.pgen.1000909
    • Brooks SA, Gabreski N, Miller D, Brisbin A, Brown HE, et al. (2010) Whole-Genome SNP Association in the Horse: Identification of a Deletion in Myosin Va Responsible for Lavender Foal Syndrome. PLoS Genet 6: e1000909 doi:10.1371/journal.pgen.1000909.
    • (2010) PLoS Genet , vol.6
    • Brooks, S.A.1    Gabreski, N.2    Miller, D.3    Brisbin, A.4    Brown, H.E.5
  • 28
    • 77957657161 scopus 로고    scopus 로고
    • A genome-wide SNP-association study confirms a sequence variant (g.66493737C>T) in the equine myostatin (MSTN) gene as the most powerful predictor of optimum racing distance for Thoroughbred racehorses
    • Hill EW, McGivney BA, Gu J, Whiston R, Machugh DE, (2010) A genome-wide SNP-association study confirms a sequence variant (g.66493737C>T) in the equine myostatin (MSTN) gene as the most powerful predictor of optimum racing distance for Thoroughbred racehorses. BMC Genomics 11: 552.
    • (2010) BMC Genomics , vol.11 , pp. 552
    • Hill, E.W.1    McGivney, B.A.2    Gu, J.3    Whiston, R.4    Machugh, D.E.5
  • 29
    • 78449300745 scopus 로고    scopus 로고
    • Genome-wide association analysis of osteochondrosis of the tibiotarsal joint in Norwegian Standardbred trotters
    • 10.1111/j.1365-2052.2010.02117.x
    • Lykkjen S, Dolvik NI, McCue ME, Rendahl AK, Mickelson JR, et al. (2010) Genome-wide association analysis of osteochondrosis of the tibiotarsal joint in Norwegian Standardbred trotters. Animal Genetics 41: 111-120 10.1111/j.1365-2052.2010.02117.x.
    • (2010) Animal Genetics , vol.41 , pp. 111-120
    • Lykkjen, S.1    Dolvik, N.I.2    McCue, M.E.3    Rendahl, A.K.4    Mickelson, J.R.5
  • 30
    • 78449267659 scopus 로고    scopus 로고
    • Identification of the myostatin locus (MSTN) as having a major effect on optimum racing distance in the Thoroughbred horse in the USA
    • 10.1111/j.1365-2052.2010.02126.x
    • Binns MM, Boehler DA, Lambert DH, (2010) Identification of the myostatin locus (MSTN) as having a major effect on optimum racing distance in the Thoroughbred horse in the USA. Animal Genetics 41: 154-158 10.1111/j.1365-2052.2010.02126.x.
    • (2010) Animal Genetics , vol.41 , pp. 154-158
    • Binns, M.M.1    Boehler, D.A.2    Lambert, D.H.3
  • 31
    • 78449286055 scopus 로고    scopus 로고
    • Genetics of swayback in American Saddlebred horses
    • 10.1111/j.1365-2052.2010.02108.x
    • Cook D, Gallagher PC, Bailey E, (2010) Genetics of swayback in American Saddlebred horses. Animal Genetics 41: 64-71 10.1111/j.1365-2052.2010.02108.x.
    • (2010) Animal Genetics , vol.41 , pp. 64-71
    • Cook, D.1    Gallagher, P.C.2    Bailey, E.3
  • 33
    • 34548292504 scopus 로고    scopus 로고
    • PLINK: a tool set for whole-genome association and population-based linkage analyses
    • Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MA, et al. (2007) PLINK: a tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 81: 559-575.
    • (2007) Am J Hum Genet , vol.81 , pp. 559-575
    • Purcell, S.1    Neale, B.2    Todd-Brown, K.3    Thomas, L.4    Ferreira, M.A.5
  • 34
    • 13444269543 scopus 로고    scopus 로고
    • Haploview: analysis and visualization of LD and haplotype maps
    • Barrett JC, Fry B, Maller J, Daly MJ, (2005) Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 21: 263-265.
    • (2005) Bioinformatics , vol.21 , pp. 263-265
    • Barrett, J.C.1    Fry, B.2    Maller, J.3    Daly, M.J.4
  • 35
    • 45749124657 scopus 로고    scopus 로고
    • TNT, a free program for phylogenetic analysis
    • 10.1111/j.1096-0031.2008.00217.x
    • Goloboff PA, Farris JS, Nixon KC, (2008) TNT, a free program for phylogenetic analysis. Cladistics 24: 774-786 10.1111/j.1096-0031.2008.00217.x.
    • (2008) Cladistics , vol.24 , pp. 774-786
    • Goloboff, P.A.1    Farris, J.S.2    Nixon, K.C.3
  • 36
    • 33750603074 scopus 로고    scopus 로고
    • A missense mutation in PMEL17 is associated with the Silver coat color in the horse
    • Brunberg E, Andersson L, Cothran G, Sandberg K, Mikko S, et al. (2006) A missense mutation in PMEL17 is associated with the Silver coat color in the horse. BMC Genet 7: 46.
    • (2006) BMC Genet , vol.7 , pp. 46
    • Brunberg, E.1    Andersson, L.2    Cothran, G.3    Sandberg, K.4    Mikko, S.5
  • 37
    • 0032053530 scopus 로고    scopus 로고
    • Endothelin receptor B polymorphism associated with lethal white foal syndrome in horses
    • Santschi EM, Purdy AK, Valberg SJ, Vrotsos PD, Kaese H, et al. (1998) Endothelin receptor B polymorphism associated with lethal white foal syndrome in horses. Mamm Genome 9: 306-309.
    • (1998) Mamm Genome , vol.9 , pp. 306-309
    • Santschi, E.M.1    Purdy, A.K.2    Valberg, S.J.3    Vrotsos, P.D.4    Kaese, H.5
  • 38
    • 0031828292 scopus 로고    scopus 로고
    • A missense mutation in the endothelin-B receptor gene is associated with Lethal White Foal Syndrome: an equine version of Hirschsprung Disease
    • Metallinos DL, Bowling AT, Rine J, (1998) A missense mutation in the endothelin-B receptor gene is associated with Lethal White Foal Syndrome: an equine version of Hirschsprung Disease. Mammalian Genome 9: 426-431.
    • (1998) Mammalian Genome , vol.9 , pp. 426-431
    • Metallinos, D.L.1    Bowling, A.T.2    Rine, J.3
  • 39
    • 0035988980 scopus 로고    scopus 로고
    • A PCR-RFLP for KIT associated with tobiano spotting pattern in horses
    • 10.1046/j.1365-2052.2002.00854.x
    • Brooks SA, Terry RB, Bailey E, (2002) A PCR-RFLP for KIT associated with tobiano spotting pattern in horses. Animal Genetics 33: 301-303 10.1046/j.1365-2052.2002.00854.x.
    • (2002) Animal Genetics , vol.33 , pp. 301-303
    • Brooks, S.A.1    Terry, R.B.2    Bailey, E.3
  • 40
    • 27744434902 scopus 로고    scopus 로고
    • Exon skipping in the KIT gene causes a Sabino spotting pattern in horses
    • Brooks S, Bailey E, (2005) Exon skipping in the KIT gene causes a Sabino spotting pattern in horses. Mammalian Genome 16: 893-902.
    • (2005) Mammalian Genome , vol.16 , pp. 893-902
    • Brooks, S.1    Bailey, E.2
  • 41
    • 52949086463 scopus 로고    scopus 로고
    • Missense Mutation in Exon 2 of SLC36A1 Responsible for Champagne Dilution in Horses
    • doi:10.1371/journal.pgen.1000195
    • Cook D, Brooks S, Bellone R, Bailey E, (2008) Missense Mutation in Exon 2 of SLC36A1 Responsible for Champagne Dilution in Horses. PLoS Genet 4: e1000195 doi:10.1371/journal.pgen.1000195.
    • (2008) PLoS Genet , vol.4
    • Cook, D.1    Brooks, S.2    Bellone, R.3    Bailey, E.4
  • 42
    • 0038713136 scopus 로고    scopus 로고
    • A mutation in the MATP gene causes the cream coat colour in the horse
    • 10.1051/gse:2002039
    • Denis M, Sead T, Goerard Gr, (2003) A mutation in the MATP gene causes the cream coat colour in the horse. Genet Sel Evol 35: 119-133 10.1051/gse:2002039.
    • (2003) Genet Sel Evol , vol.35 , pp. 119-133
    • Denis, M.1    Sead, T.2    Goerard, G.3
  • 43
    • 33644974019 scopus 로고    scopus 로고
    • A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase
    • Scheet P, Stephens M, (2006) A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase. Am J Hum Genet 78: 629-644.
    • (2006) Am J Hum Genet , vol.78 , pp. 629-644
    • Scheet, P.1    Stephens, M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.