메뉴 건너뛰기




Volumn 123, Issue 4, 2011, Pages 555-569

High-throughput SNP discovery and genotyping in durum wheat (Triticum durum Desf.)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEXITY REDUCTION; CONSENSUS SEQUENCE; DURUM WHEATS; GENETIC MAP; GENOMICS; GENOTYPING; GOLDEN GATE; HIGH-THROUGHPUT; ILLUMINA; INFORMATIVENESS; MAPPING POPULATIONS; REDUCED REPRESENTATION; TRITICUM; UNIFORM DISTRIBUTION;

EID: 79961173230     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-011-1607-7     Document Type: Article
Times cited : (116)

References (84)
  • 1
    • 14744277777 scopus 로고    scopus 로고
    • Polyploidy and genome evolution in plants
    • Adams KL, Wendel JF (2005) Polyploidy and genome evolution in plants. Curr Opin Plant Biol 8: 135-141.
    • (2005) Curr Opin Plant Biol , vol.8 , pp. 135-141
    • Adams, K.L.1    Wendel, J.F.2
  • 3
    • 67749088031 scopus 로고    scopus 로고
    • Single nucleotide polymorphism genotyping in polyploid wheat with the illumina Golden Gate assay
    • Akhunov ED, Nicolet C, Dvorak J (2009) Single nucleotide polymorphism genotyping in polyploid wheat with the illumina Golden Gate assay. Theor Appl Genet 119: 507-517.
    • (2009) Theor Appl Genet , vol.119 , pp. 507-517
    • Akhunov, E.D.1    Nicolet, C.2    Dvorak, J.3
  • 8
    • 64749112340 scopus 로고    scopus 로고
    • A genome-wide analysis of single nucleotide polymorphism diversity in the world's major cereal crops
    • Barker GLA, Edwards KJ (2009) A genome-wide analysis of single nucleotide polymorphism diversity in the world's major cereal crops. Plant Biotechnol J 7: 318-325.
    • (2009) Plant Biotechnol J , vol.7 , pp. 318-325
    • Barker, G.L.A.1    Edwards, K.J.2
  • 9
    • 21644437476 scopus 로고    scopus 로고
    • Mechanisms of recent genome size variation in flowering plants
    • Bennetzen JL, Ma J, Devos KM (2005) Mechanisms of recent genome size variation in flowering plants. Ann Bot 95: 127-132.
    • (2005) Ann Bot , vol.95 , pp. 127-132
    • Bennetzen, J.L.1    Ma, J.2    Devos, K.M.3
  • 10
    • 0032997217 scopus 로고    scopus 로고
    • The essence of SNPs
    • Brookes AJ (1999) The essence of SNPs. Gene 234: 177-186.
    • (1999) Gene , vol.234 , pp. 177-186
    • Brookes, A.J.1
  • 12
    • 0033058730 scopus 로고    scopus 로고
    • Fluorescence polarization in homogeneous nucleic acid analysis
    • Chen X, Levine L, Kwok PY (1999) Fluorescence polarization in homogeneous nucleic acid analysis. Genome Res 9: 492-498.
    • (1999) Genome Res , vol.9 , pp. 492-498
    • Chen, X.1    Levine, L.2    Kwok, P.Y.3
  • 15
    • 40949130394 scopus 로고    scopus 로고
    • Marker-assisted selection: an approach for precision plant breeding in the twenty-first century
    • Collard BCY, Mackill DJ (2008) Marker-assisted selection: an approach for precision plant breeding in the twenty-first century. Philos Trans R Soc B: J Biol Sci 363: 557-572.
    • (2008) Philos Trans R Soc B: J Biol Sci , vol.363 , pp. 557-572
    • Collard, B.C.Y.1    Mackill, D.J.2
  • 16
    • 17444404610 scopus 로고    scopus 로고
    • Carthagene: multipopulation integrated genetic and radiation hybrid mapping
    • de Givry S, Bouchez M, Chabrier P, Milan D, Schiex T (2005) Carthagene: multipopulation integrated genetic and radiation hybrid mapping. Bioinformatics 21: 1703-1704.
    • (2005) Bioinformatics , vol.21 , pp. 1703-1704
    • de Givry, S.1    Bouchez, M.2    Chabrier, P.3    Milan, D.4    Schiex, T.5
  • 17
    • 77952425335 scopus 로고    scopus 로고
    • Utilization of next-generation sequencing platforms in plant genomics and genetic variant discovery
    • Deschamps S, Campbell M (2010) Utilization of next-generation sequencing platforms in plant genomics and genetic variant discovery. Mol Breed 25: 553-570.
    • (2010) Mol Breed , vol.25 , pp. 553-570
    • Deschamps, S.1    Campbell, M.2
  • 18
    • 34347399464 scopus 로고    scopus 로고
    • Genome plasticity a key factor in the success of polyploid whet under domestication
    • Dubcovsky J, Dvorak J (2007) Genome plasticity a key factor in the success of polyploid whet under domestication. Science 316: 1862-1866.
    • (2007) Science , vol.316 , pp. 1862-1866
    • Dubcovsky, J.1    Dvorak, J.2
  • 19
    • 71949131301 scopus 로고    scopus 로고
    • Plant genome sequencing: applications for crop improvement
    • Edwards D, Batley J (2010) Plant genome sequencing: applications for crop improvement. Plant Biotechnol J 8: 2-9.
    • (2010) Plant Biotechnol J , vol.8 , pp. 2-9
    • Edwards, D.1    Batley, J.2
  • 22
    • 4644353880 scopus 로고    scopus 로고
    • An SNP resource for rice genetics and breeding based on subspecies indica and japonica genome alignments
    • Feltus FA, Wasn J, Schulze SR, Estill JC, Jiang N, Paterson AH (2004) An SNP resource for rice genetics and breeding based on subspecies indica and japonica genome alignments. Genome Res 14: 1812-1819.
    • (2004) Genome Res , vol.14 , pp. 1812-1819
    • Feltus, F.A.1    Wasn, J.2    Schulze, S.R.3    Estill, J.C.4    Jiang, N.5    Paterson, A.H.6
  • 23
    • 0017716749 scopus 로고
    • Repeated sequence DNA relationships in four cereal genomes
    • Flavell RB, Rimpau J, Smith DB (1977) Repeated sequence DNA relationships in four cereal genomes. Chromosoma 63: 205-222.
    • (1977) Chromosoma , vol.63 , pp. 205-222
    • Flavell, R.B.1    Rimpau, J.2    Smith, D.B.3
  • 24
  • 26
    • 70449101927 scopus 로고    scopus 로고
    • Whole-genome genotyping on bead arrays
    • Gunderson KL (2009) Whole-genome genotyping on bead arrays. Methods Mol Biol 529: 197-213.
    • (2009) Methods Mol Biol , vol.529 , pp. 197-213
    • Gunderson, K.L.1
  • 27
    • 0035010640 scopus 로고    scopus 로고
    • Automation in genotyping of single nucleotide polymorphisms
    • Gut IG (2001) Automation in genotyping of single nucleotide polymorphisms. Hum Mutat 17: 475-492.
    • (2001) Hum Mutat , vol.17 , pp. 475-492
    • Gut, I.G.1
  • 32
    • 76749130701 scopus 로고    scopus 로고
    • High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence
    • Hyten DL, Cannon SB, Song Q, Weeks N, Fickus EW, Shoemaker RC, Specht JE, Farmer AD, May GD, Cregan PB (2010) High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence. BMC Genomics 11: 38.
    • (2010) BMC Genomics , vol.11 , pp. 38
    • Hyten, D.L.1    Cannon, S.B.2    Song, Q.3    Weeks, N.4    Fickus, E.W.5    Shoemaker, R.C.6    Specht, J.E.7    Farmer, A.D.8    May, G.D.9    Cregan, P.B.10
  • 34
    • 77951987956 scopus 로고    scopus 로고
    • Genomic selection in plant breeding: from theory to practice
    • Jannink J, Lorenz AJ (2010) Genomic selection in plant breeding: from theory to practice. Brief Funct Genomics 9: 166-177.
    • (2010) Brief Funct Genomics , vol.9 , pp. 166-177
    • Jannink, J.1    Lorenz, A.J.2
  • 36
    • 0036420574 scopus 로고    scopus 로고
    • The impact of molecular markers on the wheat breeding paradigm
    • Koebner R, Summers R (2002) The impact of molecular markers on the wheat breeding paradigm. Cell Mol Biol Lett 7: 695-702.
    • (2002) Cell Mol Biol Lett , vol.7 , pp. 695-702
    • Koebner, R.1    Summers, R.2
  • 37
    • 0344417139 scopus 로고    scopus 로고
    • Integration of dinucleotide microsatellites from hexaploid bread wheat into a genetic linkage map of durum wheat
    • Korzun V, Röder M, Wendehake K, Pasqualone A, Lotti C, Ganal M, Blanco A (1999) Integration of dinucleotide microsatellites from hexaploid bread wheat into a genetic linkage map of durum wheat. Theor Appl Genet 98: 1202-1207.
    • (1999) Theor Appl Genet , vol.98 , pp. 1202-1207
    • Korzun, V.1    Röder, M.2    Wendehake, K.3    Pasqualone, A.4    Lotti, C.5    Ganal, M.6    Blanco, A.7
  • 39
    • 0028834086 scopus 로고
    • Oligonucleotide with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization
    • Livak KJ, Flood SJ, Marmaro J, Giusti W, Deetz K (1995) Oligonucleotide with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization. Genome Res 4: 357-362.
    • (1995) Genome Res , vol.4 , pp. 357-362
    • Livak, K.J.1    Flood, S.J.2    Marmaro, J.3    Giusti, W.4    Deetz, K.5
  • 40
    • 0033760241 scopus 로고    scopus 로고
    • Integration of AFLP markers into an RFLP-based map of durum wheat
    • Lotti C, Salvi S, Pasqualone A, Tuberosa R, Blanco A (2000) Integration of AFLP markers into an RFLP-based map of durum wheat. Plant Breed 119: 393-401.
    • (2000) Plant Breed , vol.119 , pp. 393-401
    • Lotti, C.1    Salvi, S.2    Pasqualone, A.3    Tuberosa, R.4    Blanco, A.5
  • 41
    • 23944519959 scopus 로고    scopus 로고
    • Population structure and long-range linkage disequilibrium in a durum wheat elite collection
    • Maccaferri M, Sanguineti MC, Noli E, Tuberosa R (2005) Population structure and long-range linkage disequilibrium in a durum wheat elite collection. Mol Breed 15: 271-290.
    • (2005) Mol Breed , vol.15 , pp. 271-290
    • Maccaferri, M.1    Sanguineti, M.C.2    Noli, E.3    Tuberosa, R.4
  • 43
    • 55149121198 scopus 로고    scopus 로고
    • A major QTL for durable leaf rust resistance widely exploited in durum wheat breeding programs maps on the distal region of chromosome arm 7BL
    • Maccaferri M, Mantovani P, Tuberosa R, Deambrogio E, Giuliani S, Demontis A, Massi A, Sanguineti MC (2008) A major QTL for durable leaf rust resistance widely exploited in durum wheat breeding programs maps on the distal region of chromosome arm 7BL. Theor Appl Genet 117: 1225-1240.
    • (2008) Theor Appl Genet , vol.117 , pp. 1225-1240
    • Maccaferri, M.1    Mantovani, P.2    Tuberosa, R.3    Deambrogio, E.4    Giuliani, S.5    Demontis, A.6    Massi, A.7    Sanguineti, M.C.8
  • 45
    • 33846933954 scopus 로고    scopus 로고
    • Methods for linkage disequilibrium mapping in crops
    • Mackay I, Powell W (2007) Methods for linkage disequilibrium mapping in crops. Trends Plant Sci 12: 57-63.
    • (2007) Trends Plant Sci , vol.12 , pp. 57-63
    • Mackay, I.1    Powell, W.2
  • 49
  • 51
    • 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 32: S56-S61.
    • (2002) Biotechniques , vol.32 , pp. 56-61
    • Oliphant, A.1    Barker, D.L.2    Stuelpnagel, J.R.3    Chee, M.S.4
  • 52
    • 17044373944 scopus 로고    scopus 로고
    • The Invader assay for SNP genotyping
    • Olivier M (2005) The Invader assay for SNP genotyping. Mutat Res 573: 103-110.
    • (2005) Mutat Res , vol.573 , pp. 103-110
    • Olivier, M.1
  • 55
    • 33750030513 scopus 로고    scopus 로고
    • Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B
    • Paux E, Roger D, Badaeva E, Gay G, Bernard M, Sourdille P, Feuillet C (2006) Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B. Plant J 48: 463-474.
    • (2006) Plant J , vol.48 , pp. 463-474
    • Paux, E.1    Roger, D.2    Badaeva, E.3    Gay, G.4    Bernard, M.5    Sourdille, P.6    Feuillet, C.7
  • 58
    • 0036186213 scopus 로고    scopus 로고
    • Novel genetic mapping tools in plant: SNPs and LD-based approaches
    • Rafalski A (2002) Novel genetic mapping tools in plant: SNPs and LD-based approaches. Plant Sci 162: 329-333.
    • (2002) Plant Sci , vol.162 , pp. 329-333
    • Rafalski, A.1
  • 61
    • 0035707380 scopus 로고    scopus 로고
    • Development of PCR-based assays for allelic discrimination in maize by using the 5′-nuclease procedure
    • Salvi S, Tuberosa R, Phillips RL (2001) Development of PCR-based assays for allelic discrimination in maize by using the 5′-nuclease procedure. Mol Breed 8: 169-176.
    • (2001) Mol Breed , vol.8 , pp. 169-176
    • Salvi, S.1    Tuberosa, R.2    Phillips, R.L.3
  • 64
    • 34547756887 scopus 로고    scopus 로고
    • Fine mapping and targeted SNP survey using rice-wheat gene colinearity in the region of the Bo1 boron toxicity tolerance locus of bread wheat
    • Schnurbusch T, Collins NC, Eastwood RF, Sutton T, Jefferies SP, Langridge P (2007) Fine mapping and targeted SNP survey using rice-wheat gene colinearity in the region of the Bo1 boron toxicity tolerance locus of bread wheat. Theor Appl Genet 115: 451-461.
    • (2007) Theor Appl Genet , vol.115 , pp. 451-461
    • Schnurbusch, T.1    Collins, N.C.2    Eastwood, R.F.3    Sutton, T.4    Jefferies, S.P.5    Langridge, P.6
  • 66
    • 53649106195 scopus 로고    scopus 로고
    • Next-generation DNA sequencing
    • Shendure J, Li H (2008) Next-generation DNA sequencing. Nat Biotechnol 26: 1135-1145.
    • (2008) Nat Biotechnol , vol.26 , pp. 1135-1145
    • Shendure, J.1    Li, H.2
  • 67
    • 0042201892 scopus 로고    scopus 로고
    • Mining single-nucleotide polymorphisms from hexaploid wheat ESTs
    • Somers DJ, Kirkpartick R, Moniwa M, Walsh A (2003) Mining single-nucleotide polymorphisms from hexaploid wheat ESTs. Genome 46: 431-437.
    • (2003) Genome , vol.46 , pp. 431-437
    • Somers, D.J.1    Kirkpartick, R.2    Moniwa, M.3    Walsh, A.4
  • 73
    • 68949186256 scopus 로고    scopus 로고
    • Next-generation sequencing technologies and their implications for crop genetics and breeding
    • Varshney RK, Spurthi N, Nayak S, May GD, Jackson SA (2009) Next-generation sequencing technologies and their implications for crop genetics and breeding. Trends Biotechnol 27: 522-530.
    • (2009) Trends Biotechnol , vol.27 , pp. 522-530
    • Varshney, R.K.1    Spurthi, N.2    Nayak, S.3    May, G.D.4    Jackson, S.A.5
  • 79
    • 53949117940 scopus 로고    scopus 로고
    • Multiplex MassARRAY spectrometry (iPLEX) produces a fast and economical test for 56 familial hypercholesterolaemia-causing mutations
    • Wright WT, Heggarty SV, Young IS, Nicholls DP, Whittall R, Humphries SE, Graham CA (2008) Multiplex MassARRAY spectrometry (iPLEX) produces a fast and economical test for 56 familial hypercholesterolaemia-causing mutations. Clin Genet 74: 463-468.
    • (2008) Clin Genet , vol.74 , pp. 463-468
    • Wright, W.T.1    Heggarty, S.V.2    Young, I.S.3    Nicholls, D.P.4    Whittall, R.5    Humphries, S.E.6    Graham, C.A.7
  • 80
    • 77951217695 scopus 로고    scopus 로고
    • Fine definition of the pedigree haplotypes of closely related rice cultivars by means of genome-wide discovery of single-nucleotide polymorphisms
    • Yamamoto T, Nagasaki H, Yonemaru J, Ebana K, Nakajima M, Shibaya T, Yano M (2010) Fine definition of the pedigree haplotypes of closely related rice cultivars by means of genome-wide discovery of single-nucleotide polymorphisms. BMC Genomics 11: 267.
    • (2010) BMC Genomics , vol.11 , pp. 267
    • Yamamoto, T.1    Nagasaki, H.2    Yonemaru, J.3    Ebana, K.4    Nakajima, M.5    Shibaya, T.6    Yano, M.7
  • 83
    • 70350142925 scopus 로고    scopus 로고
    • Global analysis of allele-specific expression in Arabidopsis thaliana
    • Zhang X, Borevitz JO (2009) Global analysis of allele-specific expression in Arabidopsis thaliana. Genetics 182: 943-954.
    • (2009) Genetics , vol.182 , pp. 943-954
    • Zhang, X.1    Borevitz, J.O.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.