SNP discovery and applications in Brassica napus

키워드

참고문헌 (100)

1. Appleby N, "New technologies for ultra-high throughput genotyping in plants, In Plant genomics, Methods in Molecular Biology", pp.19~40 (2009), Humana Press
2. Atwell S, "Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines", Nature, 465, pp.627~631 (2010)
3. Barker G, "Redundancy based detection of sequence polymorphisms in expressed sequence tag data using AutoSNP", Bioinformatics, 19, pp.421~422 (2003)
4. Batley J, "SNP applications in plants, In Association mapping in plants", pp.95~102 (2007), Springer
5. Batley J, "Genome sequence data: management, storage and visualization", Biotechniques, 46, pp.333~336 (2009)
6. Batley J, "Automated discovery of Single Nucleotide Polymorphism (SNP) and Simple Sequence Repeat (SSR) molecular genetic markers, In Plant bioinformatics, Methods in Molecular Biology", pp.473~494 (2007), Humana Press
7. Batley J, "Mining for Single Nucleotide Polymorphisms and insertions", deletions in maize Expressed Sequence Tag data, 2003, pp.132, 84~91
8. Batley J, "A high-throughput SNuPE assay for genotyping SNPs in the flanking regions of Zea mays sequence tagged simple sequence repeats", Mol Breeding, 11, pp.111~120 (2003)
9. Batley J, "Identification and characterisation of Simple Sequence Repeat (SSR) markers from Brassica napus expressed sequences", Mol Ecol Notes, 7, pp.886~889 (2007)
10. Berkman PJ, "Next generation sequencing applications for wheat crop improvement", Am J Bot, 99, pp.365~371 (2012)
11. Berkman PJ, "Sequencing wheat chromosome arm 7BS delimits the 7BS", 4AL translocation and reveals homoeologous gene conservation, 2012, pp.124, 423~432
12. Berkman PJ, "Sequencing and assembly of low copy and genic regions of isolated Triticum aestivum chromosome arm 7DS", Plant Biotech J, 9, pp.768~775 (2011)
13. Bhattramakki D, "Discovery and application of single nucleotide polymorphism markers in plants, In Plant genotyping: the DNA fingerprinting of plants", pp.179~193 (2001), CABI Publishing
14. Bhattramakki D, "Insertion-deletion polymorphisms in 3' regions of maize genes occur frequently and can be used as highly informative genetic markers", Plant Mol Biol, 48, pp.539~547 (2002)
15. Cardon LR, "Association study designs for complex diseases", Nat Rev Genet, 2, pp.91~99 (2001)
16. "Canola Council of Canada - Official definition of canola" (2010)[URL]
17. Chagné D, "Single Nucleotide Polymorphisms genotyping in plants, In Association mapping in plants", pp.77~94 (2007), Springer
18. Chen S, "Trigenomic bridges for Brassica improvement", Crit Rev Plant Sci, 30, pp.524~547 (2011)
19. Chèvre AM, "Selection of stable Brassica napus-B. juncea recombinant lines resistant to blackleg (Leptosphaeria maculans). 1. Identification of molecular markers, chromosomal and genomic origin of the introgression", Theor Appl Genet, 95, pp.1104~1111 (1997)
20. Ching A, "SNP frequency, haplotype structure and linkage disequilibrium in elite maize inbred lines", BMC Genet, 3, pp.19~ (2002)
21. 한태호, "The reference genetic linkage map for the multinational Brassica rapa genome sequencing project", THEORETICAL AND APPLIED GENETICS, 115(6), pp.777~792, SPRINGER
22. Cowling WA, "Genetic diversity in Australian canola and implications for crop breeding for changing future environments", Field Crops Res, 104, pp.103~111 (2007)
23. Cowling WA, "Prospects and challenges for genome-wide association and genomic selection in oilseed Brassica species", Genome, 53, pp.1024~1028 (2010)
24. "Geneious v5.5" (2011)[URL]
25. Duran C, "Genetic maps and the use of synteny, In Plant genomics, Methods in Molecular Biology", pp.41~56 (2009), Humana Press
26. Duran C, "Molecular marker discovery and genetic map visualisation, In Applied Bioinformatics", pp.165~189 (2009), Springer
27. Duran C, "Molecular genetic markers: discovery, applications, data storage and visualisation", Curr Bioinform, 4, pp.16~27 (2009)
28. Duran C, "Role of bioinformatics as a tool for vegetable Brassica species, In Vegetable Brassicas", pp.406~418 (2011), Science Publishers Inc.
29. Duran C, "CMap3D: A 3D visualisation tool for comparative genetic maps", Bioinformatics, 26, pp.273~274 (2010)
30. Duran C, "AutoSNPdb: an annotated Single Nucleotide Polymorphism database for crop plants", Nucleic Acids Res, 37, pp.951~953 (2009)
31. Duran C, "Future tools for association mapping in crop plants", Genome, 53, pp.1017~1023 (2010)
32. Durstewitz G, "SNP discovery by amplicon sequencing and multiplex SNP genotyping in the allopolyploid species Brassica napus", enome, 53, pp.948~956 (2010)
33. Edwards D, "Bioinformatics and plant genomics for staple crops improvement, In Breeding major food staples", pp.93~106 (2007), Blackwell
34. Edwards D, "Plant bioinformatics: from genome to phenome", Trends Biotechnol, 22, pp.232~237 (2004)
35. Edwards D, "Bioinformatics: fundamentals and applications in plant genetics, mapping and breeding, In Principles and practices of plant genomics", pp.269~302 (2008), Science Publishers Inc.
36. Edwards D, "Plant genome sequencing: applications for crop improvement", Plant Biotech, 8, pp.2~9 (2010)
37. Edwards D, "Genome sequencing initiatives, In Genetics, genomics and breeding of oilseed Brassicas", pp.152~157 (2012), Science Publishers Inc.
38. Edwards D, "DNA sequence databases, In Applied bioinformatics", pp.1~11 (2009), Springer
39. Edwards D, "Indian mustard, In Genome mapping and molecular breeding in plants", pp.179~210 (2007), Springer
40. Edwards D, "What are SNPs?, In Association mapping in plants", pp.41~52 (2007), Springer
41. Edwards D, "Single Nucleotide Polymorphism discovery, In Association mapping in plants", pp.53~76 (2007), Springer
42. Edwards D, "Single Nucleotide Polymorphism discovery, In Association mapping in plants" (2007), Springer
43. Erwin T, "BASC: an integrated bioinformatics system for Brassica research", Nucleic Acids Res, 35, pp.870~873 (2007)
44. Fan JB, "Highly parallel genomic assays", Nat Rev Genet, 7, pp.632~644 (2006)
45. Flint-Garcia SA, "Structure of linkage disequilibrium in plants", Ann Rev Plant Biol, 54, pp.357~374 (2003)
46. Fourmann M, "From Arabidopsis thaliana to Brassica napus: development of amplified consensus genetic markers (ACGM) for construction of a gene map", Theor Appl Genet, 105, pp.1196~1206 (2002)
47. Friedt W, "Oilseed rape, In Oil crops" (2009), Springer Science & Business Media
48. Hansen M, "Marker-assisted selection of restored male-fertile Brassica napus plants using a set of dominant RAPD markers", Mol Breeding, 3, pp.449~456 (1997)
49. Hayward A, "Genomic advances will herald new insights into theBrassica:Leptosphaeria maculans pathosystem", Plant Biol, 14, pp.1~10 (2012)
50. Hernandez P, "Next generation sequencing and syntenic integration of flow-sorted arms of wheat chromosome 4A exposes the chromosome structure and gene content", Plant J, 69, pp.377~386 (2012)
51. Chang Pyo Hong, "Genomic Distribution of Simple Sequence Repeats in Brassica rapa", Molecules and Cells, 23(3), pp.349~356 (2007), 한국분자세포생물학회
52. Yong Pyo Lim, "A Survey of the Brassica rapa Genome by BAC-End Sequence Analysis and Comparison with Arabidopsis thaliana", Molecules and Cells, 22(3), pp.300~307 (2006), 한국분자세포생물학회
53. Hopkins C, "An assessment of genetic diversity within and between Brassica napus and Brassica juncea lines from international germplasm collections", Acta Hortic, 706, pp.115~119 (2006)
54. Hopkins CJ, "Sixteen new simple sequence repeat markers from Brassica juncea expressed sequences and their cross-species amplification", Mol Ecol Notes, 7, pp.697~700 (2007)
55. Hou H, "MagicViewer: integrated solution for next-generationsequencing data visualization and genetic variation detectionand annotation", Nucleic Acids Res, 38, pp.732~736 (2010)
56. Howell PM, "Towards developing intervarietal substitution lines in Brassica napus using marker-assisted selection", Genome, 39, pp.348~358 (1996)
57. Imelfort M, "De novo sequencing of plant genomes using second-generation technologies", Brief Bioinform, 10, pp.609~618 (2009)
58. Imelfort M, "Discovering genetic polymorphisms in next-generation sequencing data", Plant Biotech J, 7, pp.312~317 (2009)
59. Imelfort M, "Genome sequencing approaches and successes, In Plant Genomics, Methods in Molecular Biology" (2009), Humana Press
60. Kaur S, "Genetic map construction and QTL mapping of resistance to blackleg (Leptosphaeria maculans) disease in Australian canola (Brassica napus L.) cultivars", Theor Appl Genet, 120, pp.71~83 (2009)
61. Lai K, "WheatGenome.info: An integrated database and portal for wheat genome information", Plant Cell Physiol (2012)
62. Lee H, "Bioinformatics tools and databases for analysis of next generation sequence data", Briefings in Functional Genomics, 11, pp.12~24 (2012)
63. Lim GAC, "A comparative map viewer integrating genetic maps for Brassica and Arabidopsis", BMC Plant Biol, 7, pp.40~ (2007)
64. Lorenc M, "Role of bioinformatics as a tool for oilseed Brassica species, In Genetics, genomics and breeding of oilseed Brassicas", pp.194~205 (2012), Science Publishers Inc.
65. Love C, "Analysis of the Brassica A and C genomes and comparison with the genome of Arabidopsis thaliana", Acta Hort, 706, pp.99~104 (2006)
66. Love C, "Brassica ASTRA: an integrated database for Brassica genomic research", Nucleic Acids Res, 33, pp.493~495 (2005)
67. Love C, "Integrating and interrogating diverse Brassica data within an EnsEMBL structured database", Acta Hort, 706, pp.77~82 (2006)
68. Love CG, "Accessing integrated Brassica genetic and genomic data using the BASC server, In Plant Bioinformatics, Methods in Molecular Biology", pp.229~244 (2007), Humana Press
69. Love CG, "New computational tools for Brassica genome research", Comp Funct Genom, 5, pp.276~280 (2004)
70. Lysak MA, "Phylogeny, genome, and karyotype evolution of crucifers (Brassicaceae), In Genetics and Genomics of the Brassicaceae, Plant Genetics and Genomics: Crops and Models 9" (2011), Springer Science + Business Media, LLC
71. Marshall DJ, "Targeted identification of genomic regions using TAGdb", Plant Methods, 6, pp.19~ (2010)
73. Milne I, "Tablet - next generation sequence assembly visualization", Bioinformatics, 26, pp.401~402 (2010)
74. Mogg R, "Characterisation of the flanking regions of Zea Mays microsatellites reveals a large number of useful sequence polymorphisms", Theor Appl Genet, 105, pp.532~543 (2002)
75. Mohan M, "Genome mapping, molecular markers and marker-assisted selection in crop plants", Mol Breeding, 3, pp.87~103 (1997)
76. Morinaga T, "Interspecific hybridisation in Brassica VI. The cytology of F1 hybrids of B. juncea and B. nigra", Cytologia, 6, pp.62~67 (1934)
77. Mun JH, "Sequence and structure of Brassica rapa chromosome A3", Genome Biology, 0(0), pp.94~94, BioMed Central
78. Neale DB, "Association genetics of complex traits in conifers", Trends Plant Sci, 9, pp.325~330 (2004)
79. Oraguzie NC, "An overview of association mapping, In Association mapping in plants" (2007), Springer Science + Business Media
80. Orsouw NJv, "Complexity reduction of polymorphic sequences (CRoPS™): A Novel Approach for Large-Scale Polymorphism Discovery in Complex Genomes", PLoS ONE, 2, pp.1172~ (2007)
81. Picoult-Newberg L, "Mining SNPs from EST databases", Genome Res, 9, pp.167~174 (1999)
82. Pilet ML, "Identification of loci contributing to quantitative field resistance to blackleg disease, causal agent Leptosphaeria maculans (Desm.) Ces. et de Not., in Winter rapeseed (Brassica napus L.)", Theor Appl Genet, 96, pp.23~30 (1998)
83. Qiu D, "A comparative linkage map of oilseed rape and its use for QTL analysis of seed oil and erucic acid content", Theor Appl Genet, 114, pp.67~80 (2006)
84. Rahman M, "High throughput genome-specific and gene-specific molecular markers for erucic acid genes in Brassica napus (L.) for marker-assisted selection in plant breeding", Theor Appl Genet, 117, pp.895~904 (2008)
85. Raymer PL, "Canola: an emerging oilseed crop, In Trends in new crops and new uses" (2002), ASHS Press
86. Schranz ME, "Comparative genomics in the Brassicaceae: a family-wide perspective", Curr Opin Plant Biol, 10, pp.168~175 (2007)
87. Smooker AM, "The identification and mapping of candidate genes and QTL involved in the fatty acid desaturation pathway in Brassica napus", Theor Appl Genet, 122, pp.1075~1090 (2011)
88. Snowdon RJ, "Molecular markers in Brassica oilseed breeding: current status and future possibilities", Plant Breeding, 123, pp.1~8 (2004)
89. Somers DJ, "Identification of a major gene and RAPD markers for yellow seed coat colour in Brassica napus", Genome, 44, pp.1077~1082 (2001)
90. Song K, "Polyphyletic origins of Brassica napus: new evidence based on organelle and nuclear RFLP analyses", Genome, 35, pp.992~1001 (1992)
91. Stokes D, "An association transcriptomics approach to the prediction of hybrid performance", Mol Breeding, 26, pp.91~106 (2010)
92. Syvänen A-C, "Accessing genetic variation: genotyping single nucleotide polymorphisms", Nat Rev Genet, 2, pp.930~942 (2001)
93. Taiyan Z, "Brassicaceae, In Flora of China" (2001), Science Press
94. Tanhuanpää PK, "Association of a RAPD marker with linolenic acid concentration in the seed oil of rapeseed (Brassica napus L.)", Genome, 38, pp.414~416 (1995)
95. 문정환, "The genome of the mesopolyploid crop species Brassica rapa", NATURE GENETICS, 43(10), pp.1035~157, NATURE PUBLISHING GROUP
96. Trick M, "Single nucleotide polymorphism (SNP) discovery in the polyploid Brassica napus using Solexa transcriptome sequencing", Plant Biotech J, 7, pp.334~346 (2009)
97. U N, "Genome-analysis in Brassica with special reference to the experimental formation of B. napus and peculiar mode of fertilization", Jap J Bot, 7, pp.389~452 (1935)
98. "Food and Agriculture Organization of the United Nations"[URL]
99. Westermeier P, "Development and evaluation of single-nucleotide polymorphism markers in allotetraploid rapeseed (Brassica napus L.)", Theor Appl Genet, 119, pp.1301~1311 (2009)
100. Zou J, "Broadening the avenue of intersubgenomic heterosis in oilseed Brassica", Theor Appl Genet, 120, pp.283~290 (2010)

관련 논문AI추천