메뉴 건너뛰기




Volumn 20, Issue 4, 2010, Pages 496-502

Pronounced inter- and intrachromosomal variation in linkage disequilibrium across the zebra finch genome

Author keywords

[No Author keywords available]

Indexed keywords

ALLELE; ANIMAL EXPERIMENT; ARTICLE; BIRD; CENTROMERE; CONTROLLED STUDY; GENE LINKAGE DISEQUILIBRIUM; GENE LOCUS; GENE MAPPING; GENETIC ASSOCIATION; GENETIC RECOMBINATION; GENETIC VARIABILITY; GENOME; GENOME ANALYSIS; MICROCHROMOSOME; NONHUMAN; POEPHILA CASTANOTIS; PRIORITY JOURNAL;

EID: 77950645759     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.102095.109     Document Type: Article
Times cited : (30)

References (58)
  • 1
    • 67650666437 scopus 로고    scopus 로고
    • Extent and consistency of linkage disequilibrium and identification of DNA markers for production and egg quality traits in commercial layer chicken populations
    • doi: 10.1186/1471-2164-10-S2-S2
    • Abasht B, Sandford E, Arango J, Settar P, Fulton J, O'Sullivan N, Hassen A, Habier D, Fernando R, Dekkers J, et al. 2009. Extent and consistency of linkage disequilibrium and identification of DNA markers for production and egg quality traits in commercial layer chicken populations. BMC Genomics 10: S2. doi: 10.1186/1471-2164-10-S2-S2.
    • (2009) BMC Genomics , vol.10
    • Abasht, B.1    Sandford, E.2    Arango, J.3    Settar, P.4    Fulton, J.5    O'Sullivan, N.6    Hassen, A.7    Habier, D.8    Fernando, R.9    Dekkers, J.10
  • 2
    • 0034017850 scopus 로고    scopus 로고
    • GOLD - Graphical overview of linkage disequilibrium
    • Abecasis GR, Cookson WO. 2000. GOLD - graphical overview of linkage disequilibrium. Bioinformatics 16: 182-183.
    • (2000) Bioinformatics , vol.16 , pp. 182-183
    • Abecasis, G.R.1    Cookson, W.O.2
  • 5
    • 0036208832 scopus 로고    scopus 로고
    • Patterns of linkage disequilibrium in the human genome
    • Ardlie KG, Kruglyak L, Seielstad M. 2002. Patterns of linkage disequilibrium in the human genome. Nat Rev Genet 3: 299-309.
    • (2002) Nat Rev Genet , vol.3 , pp. 299-309
    • Ardlie, K.G.1    Kruglyak, L.2    Seielstad, M.3
  • 8
    • 62449120610 scopus 로고    scopus 로고
    • Nucleotide variation, linkage disequilibrium and founder-facilitated speciation in wild populations of the Zebra Finch (Taeniopygia guttata)
    • Balakrishnan CN, Edwards SV. 2008. Nucleotide variation, linkage disequilibrium and founder-facilitated speciation in wild populations of the Zebra Finch (Taeniopygia guttata). Genetics 181: 645-660.
    • (2008) Genetics , vol.181 , pp. 645-660
    • Balakrishnan, C.N.1    Edwards, S.V.2
  • 9
    • 0026529344 scopus 로고
    • Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster
    • Begun DJ, Aquadro CF. 1992. Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster. Nature 356: 519-520.
    • (1992) Nature , vol.356 , pp. 519-520
    • Begun, D.J.1    Aquadro, C.F.2
  • 10
    • 0348226177 scopus 로고    scopus 로고
    • The Haplotyping problem: An overview of computational models and solutions
    • Bonizzoni P, Della Vedova G, Dondi R, Li J. 2003. The Haplotyping problem: An overview of computational models and solutions. J.Comput. Sci. Technol. 18: 675-688.
    • (2003) J.Comput. Sci. Technol. , vol.18 , pp. 675-688
    • Bonizzoni, P.1    Della Vedova, G.2    Dondi, R.3    Li, J.4
  • 11
    • 33748663762 scopus 로고    scopus 로고
    • MLH1-focus mapping in birds shows equal recombination between sexes and diversity of crossover patterns
    • Calderón P, Pigozzi M. 2006. MLH1-focus mapping in birds shows equal recombination between sexes and diversity of crossover patterns. Chrom. Res. 14: 605-612.
    • (2006) Chrom. Res. , vol.14 , pp. 605-612
    • Calderón, P.1    Pigozzi, M.2
  • 12
    • 10844228016 scopus 로고    scopus 로고
    • Mapping genes for common diseases: The case for genetic (LD) maps
    • Collins A, Lau W, De La Vega F. 2004. Mapping genes for common diseases: The case for genetic (LD) maps. Hum Hered 58: 2-9.
    • (2004) Hum Hered , vol.58 , pp. 2-9
    • Collins, A.1    Lau, W.2    De La Vega, F.3
  • 13
    • 39449116116 scopus 로고    scopus 로고
    • High-resolution mapping of crossovers reveals extensive variation in fine-scale recombination patterns among humans
    • Coop G, Wen XQ, Ober C, Pritchard JK, Przeworski M. 2008. High-resolution mapping of crossovers reveals extensive variation in fine-scale recombination patterns among humans. Science 319: 1395-1398.
    • (2008) Science , vol.319 , pp. 1395-1398
    • Coop, G.1    Wen, X.Q.2    Ober, C.3    Pritchard, J.K.4    Przeworski, M.5
  • 15
    • 17144371712 scopus 로고    scopus 로고
    • The linkage disequilibrium maps of three human chromosomes across four populations reflect their demographic history and a common underlying recombination pattern
    • De La Vega FM, Isaac H, Collins A, Scafe CR, Halldórsson BV, Su X, Lippert RA, Wang Y, Laig-Webster M, Koehler RT, et al. 2005. The linkage disequilibrium maps of three human chromosomes across four populations reflect their demographic history and a common underlying recombination pattern. Genome Res 15: 454-462.
    • (2005) Genome Res , vol.15 , pp. 454-462
    • De La Vega, F.M.1    Isaac, H.2    Collins, A.3    Scafe, C.R.4    Halldórsson, B.V.5    Su, X.6    Lippert, R.A.7    Wang, Y.8    Laig-Webster, M.9    Koehler, R.T.10
  • 16
    • 0042830294 scopus 로고    scopus 로고
    • Distribution of meiotic recombination sites
    • de Massy B. 2003. Distribution of meiotic recombination sites. Trends Genet 19: 514-522.
    • (2003) Trends Genet , vol.19 , pp. 514-522
    • De Massy, B.1
  • 21
    • 84966177118 scopus 로고
    • Inference of recombinational hotspots using gametic disequilibrium values
    • Hedrick PW. 1988. Inference of recombinational hotspots using gametic disequilibrium values. Heredity 60: 435-438.
    • (1988) Heredity , vol.60 , pp. 435-438
    • Hedrick, P.W.1
  • 22
    • 26444519053 scopus 로고    scopus 로고
    • Extent and consistency across generations of linkage disequilibrium in commercial layer chicken breeding populations
    • Heifetz EM, Fulton JE, O'Sullivan N, Zhao H, Dekkers JCM, Soller M. 2005. Extent and consistency across generations of linkage disequilibrium in commercial layer chicken breeding populations. Genetics 171: 1173-1181.
    • (2005) Genetics , vol.171 , pp. 1173-1181
    • Heifetz, E.M.1    Fulton, J.E.2    O'Sullivan, N.3    Zhao, H.4    Dekkers, J.C.M.5    Soller, M.6
  • 23
    • 0019771734 scopus 로고
    • Estimation of effective population-size from data on linkage disequilibrium
    • Hill WG. 1981. Estimation of effective population-size from data on linkage disequilibrium. Genet Res 38: 209-216.
    • (1981) Genet Res , vol.38 , pp. 209-216
    • Hill, W.G.1
  • 24
    • 10644283823 scopus 로고    scopus 로고
    • Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
    • International Chicken Genome Sequencing Consortium
    • International Chicken Genome Sequencing Consortium. 2004. Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature 432: 695-716.
    • (2004) Nature , vol.432 , pp. 695-716
  • 25
    • 65349104542 scopus 로고    scopus 로고
    • A first-generation microsatellite-based genetic linkage map of the Siberian jay (Perisoreus infaustus): Insights into avian genome evolution
    • doi: 10.1186/1471-2164-10-1
    • Jaari S, Li M-H, Merila J. 2009. A first-generation microsatellite-based genetic linkage map of the Siberian jay (Perisoreus infaustus): Insights into avian genome evolution. BMC Genomics 10: 1. doi: 10.1186/1471-2164-10-1.
    • (2009) BMC Genomics , vol.10 , pp. 1
    • Jaari, S.1    Li, M.-H.2    Merila, J.3
  • 26
    • 0034795550 scopus 로고    scopus 로고
    • Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex
    • Jeffreys AJ, Kauppi L, Neumann R. 2001. Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex. Nat Genet 29: 217-222.
    • (2001) Nat Genet , vol.29 , pp. 217-222
    • Jeffreys, A.J.1    Kauppi, L.2    Neumann, R.3
  • 28
    • 43849094455 scopus 로고    scopus 로고
    • Extent of genome-wide linkage disequilibrium in Australian Holstein-Friesian cattle based on a high-density SNP panel
    • doi: 10.1186/1471-2164-9-187
    • Khatkar M, Nicholas F, Collins A, Zenger K, Cavanagh J, Barris W, Schnabel R, Taylor J, Raadsma H. 2008. Extent of genome-wide linkage disequilibrium in Australian Holstein-Friesian cattle based on a high-density SNP panel. BMC Genomics 9: 187. doi: 10.1186/1471-2164-9-187.
    • (2008) BMC Genomics , vol.9 , pp. 187
    • Khatkar, M.1    Nicholas, F.2    Collins, A.3    Zenger, K.4    Cavanagh, J.5    Barris, W.6    Schnabel, R.7    Taylor, J.8    Raadsma, H.9
  • 30
    • 0033039497 scopus 로고    scopus 로고
    • Prospects for whole-genome linkage disequilibrium mapping of common disease genes
    • Kruglyak L. 1999. Prospects for whole-genome linkage disequilibrium mapping of common disease genes. Nat Genet 22: 139-144.
    • (1999) Nat Genet , vol.22 , pp. 139-144
    • Kruglyak, L.1
  • 31
    • 23844477504 scopus 로고    scopus 로고
    • Computing the minimum recombinant haplotype configuration from incomplete genotype data on a pedigree by integer linear programming
    • Li J, Jiang T. 2005. Computing the minimum recombinant haplotype configuration from incomplete genotype data on a pedigree by integer linear programming. J Comput Biol 12: 719-739.
    • (2005) J Comput Biol , vol.12 , pp. 719-739
    • Li, J.1    Jiang, T.2
  • 32
    • 77952668706 scopus 로고    scopus 로고
    • Extensive linkage disequilibrium in a wild bird population
    • doi: 10.1038/hdy.2009.150
    • Li MH, Merilä J. 2009. Extensive linkage disequilibrium in a wild bird population. Heredity doi: 10.1038/hdy.2009.150.
    • (2009) Heredity
    • Li, M.H.1    Merilä, J.2
  • 35
    • 0016220238 scopus 로고
    • The hitch-hiking effect of a favourable gene
    • Maynard Smith J, Haigh J. 1974. The hitch-hiking effect of a favourable gene. Genet Res 23: 23-35.
    • (1974) Genet Res , vol.23 , pp. 23-35
    • Maynard Smith, J.1    Haigh, J.2
  • 36
    • 2442651458 scopus 로고    scopus 로고
    • Recombination drives the evolution of GC-content in the human genome
    • Meunier J, Duret L. 2004. Recombination drives the evolution of GC-content in the human genome. Mol Biol Evol 21: 984-990.
    • (2004) Mol Biol Evol , vol.21 , pp. 984-990
    • Meunier, J.1    Duret, L.2
  • 37
    • 0023732921 scopus 로고
    • Molecular and phenotypic variation of the white locus region in Drosophila melanogaster
    • Miyashita N, Langley CH. 1988. Molecular and phenotypic variation of the white locus region in Drosophila melanogaster. Genetics 120: 199-212.
    • (1988) Genetics , vol.120 , pp. 199-212
    • Miyashita, N.1    Langley, C.H.2
  • 39
    • 26844482093 scopus 로고    scopus 로고
    • A fine-scale map of recombination rates and hotspots across the human genome
    • Myers S, Bottolo L, Freeman C, McVean G, Donnelly P. 2005. A fine-scale map of recombination rates and hotspots across the human genome. Science 310: 321-324.
    • (2005) Science , vol.310 , pp. 321-324
    • Myers, S.1    Bottolo, L.2    Freeman, C.3    McVean, G.4    Donnelly, P.5
  • 40
    • 0035451450 scopus 로고    scopus 로고
    • Single nucleotide polymorphisms and recombination rate in humans
    • Nachman MW. 2001. Single nucleotide polymorphisms and recombination rate in humans. Trends Genet 17: 481-485.
    • (2001) Trends Genet , vol.17 , pp. 481-485
    • Nachman, M.1
  • 41
    • 0033383266 scopus 로고    scopus 로고
    • A note on the correlation between heterozygosity and recombination rate
    • Ohta T. 1999. A note on the correlation between heterozygosity and recombination rate. Genes Genet Syst 74: 209-210.
    • (1999) Genes Genet Syst , vol.74 , pp. 209-210
    • Ohta, T.1
  • 42
    • 27944510261 scopus 로고    scopus 로고
    • The germ-line-restricted chromosome in the zebra finch: Recombination in females and elimination in males
    • Pigozzi M, Solari A. 2005. The germ-line-restricted chromosome in the zebra finch: Recombination in females and elimination in males. Chromosoma 114: 403-409.
    • (2005) Chromosoma , vol.114 , pp. 403-409
    • Pigozzi, M.1    Solari, A.2
  • 43
    • 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
  • 44
    • 33748324384 scopus 로고    scopus 로고
    • R Development Core Team. R Foundation for Statistical Computing, Vienna, Austria
    • R Development Core Team. 2006. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria.
    • (2006) R: A Language and Environment for Statistical Computing
  • 46
    • 0029087301 scopus 로고
    • Two-Dimensional spreads of synaptonemal complexes from solanaceous plants. VI. High-resolution recombination nodule map for tomato (Lycopersicon esculentum)
    • Sherman JD, Stack SM. 1995. Two-Dimensional spreads of synaptonemal complexes from solanaceous plants. VI. High-resolution recombination nodule map for tomato (Lycopersicon esculentum). Genetics 141: 683-708.
    • (1995) Genetics , vol.141 , pp. 683-708
    • Sherman, J.D.1    Stack, S.M.2
  • 47
    • 0141889553 scopus 로고    scopus 로고
    • A note on the optimal measure of allelic association
    • Shete S. 2003. A note on the optimal measure of allelic association. Ann Hum Genet 67: 189-191.
    • (2003) Ann Hum Genet , vol.67 , pp. 189-191
    • Shete, S.1
  • 48
    • 33845500349 scopus 로고    scopus 로고
    • A high-resolution single nucleotide polymorphism genetic map of the mouse genome
    • doi: 10.1371/journal.pbio.0040395
    • Shifman S, Bell JT, Copley RR, Taylor MS,Williams RW, Mott R, Flint J. 2006. A high-resolution single nucleotide polymorphism genetic map of the mouse genome. PLoS Biol 4: e395. doi: 10.1371/journal.pbio.0040395.
    • (2006) PLoS Biol , vol.4
    • Shifman, S.1    Bell, J.T.2    Copley, R.R.3    Taylor, M.S.4    Williams, R.W.5    Mott, R.6    Flint, J.7
  • 49
    • 43749105558 scopus 로고    scopus 로고
    • Linkage disequilibrium understanding the evolutionary past and mapping the medical future
    • Slatkin M. 2008. Linkage disequilibrium understanding the evolutionary past and mapping the medical future. Nat Rev Genet 9: 477-485.
    • (2008) Nat Rev Genet , vol.9 , pp. 477-485
    • Slatkin, M.1
  • 50
    • 0029945706 scopus 로고    scopus 로고
    • Descent graphs in pedigree analysis: Applications to haplotyping, location scores, and marker-sharing statistics
    • Sobel E, Lange K. 1996. Descent graphs in pedigree analysis: Applications to haplotyping, location scores, and marker-sharing statistics. Am J Hum Genet 58: 1323-1337.
    • (1996) Am J Hum Genet , vol.58 , pp. 1323-1337
    • Sobel, E.1    Lange, K.2
  • 51
    • 51849143838 scopus 로고    scopus 로고
    • A linkage map of the Zebra Finch Taeniopygia guttata provides new insights into avian genome evolution
    • Stapley J, Birkhead TR, Burke T, Slate J. 2008. A linkage map of the Zebra Finch Taeniopygia guttata provides new insights into avian genome evolution. Genetics 179: 651-667.
    • (2008) Genetics , vol.179 , pp. 651-667
    • Stapley, J.1    Birkhead, T.R.2    Burke, T.3    Slate, J.4
  • 52
    • 0035071957 scopus 로고    scopus 로고
    • A new statistical method for haplotype reconstruction from population data
    • Stephens M, Smith NJ, Donnelly P. 2001. A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68: 978-989.
    • (2001) Am J Hum Genet , vol.68 , pp. 978-989
    • Stephens, M.1    Smith, N.J.2    Donnelly, P.3
  • 53
    • 0015070635 scopus 로고
    • Linkage disequilibrium and homozygosity of chromosome segments in finite populations
    • Sved JA. 1971. Linkage disequilibrium and homozygosity of chromosome segments in finite populations. Theor Popul Biol 2: 125-141.
    • (1971) Theor Popul Biol , vol.2 , pp. 125-141
    • Sved, J.A.1
  • 56
    • 0018332021 scopus 로고
    • Inferences about linkage disequilibrium
    • Weir BS. 1979. Inferences about linkage disequilibrium. Biometrics 35: 235-254.
    • (1979) Biometrics , vol.35 , pp. 235-254
    • Weir, B.S.1
  • 57
    • 0036137130 scopus 로고    scopus 로고
    • Linkage disequilibrium and the mapping of complex human traits
    • Weiss KM, Clark AG. 2002. Linkage disequilibrium and the mapping of complex human traits. Trends Genet 18: 19-24.
    • (2002) Trends Genet , vol.18 , pp. 19-24
    • Weiss, K.M.1    Clark, A.G.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.