Construction and analysis of a high-density genetic linkage map in cabbage (Brassica oleracea L. var. capitata)

BMC Genomics

Volumn 13, Issue 1, 2012, Pages

  Wang, Wanxing ^a   Huang, Shunmou ^b   Liu, Yumei ^a   Fang, Zhiyuan ^a   Yang, Limei ^a   Hua, Wei ^b   Yuan, Suxia ^a   Liu, Shengyi ^b   Sun, Jifeng ^a   Zhuang, Mu ^a   Zhang, Yangyong ^a   Zeng, Aisong ^a  

^a AGRO ENVIRONMENTAL PROTECTION INSTITUTE   (China)

^b INSTITUTE OF PLANT PROTECTION   (China)

Author keywords

Brassica; Cabbage; Genetic linkage map; Genome; SNP; SSR

Indexed keywords

ARTICLE; CABBAGE; CHROMOSOME NUMBER; CONTROLLED STUDY; DOUBLED HAPLOID LINE; GENE CONSTRUCT; GENE LOCUS; GENETIC LINKAGE; GENETIC MARKER; HIGH DENSITY GENETIC LINKAGE MAP; NONHUMAN; PLANT GENOME; SIMPLE SEQUENCE REPEAT; SINGLE NUCLEOTIDE POLYMORPHISM;

BRASSICA; CHROMOSOME MAPPING; GENETIC MARKERS; GENOME, PLANT; MICROSATELLITE REPEATS; POLYMORPHISM, SINGLE NUCLEOTIDE;

BRASSICA; BRASSICA OLERACEA; BRASSICA OLERACEA VAR. CAPITATA; CAPITATA;

EID: 84866851788     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-523     Document Type: Article

References (66)

1. Al-Shehbaz IA. The tribes of cruciferae (Brassicaceae) in the southeastern united states. Arnold Arboretum 1984, 65:343-373.
2. Fahey JW, Talalay P. The role of crucifers in cancer chemoprotection. Phytochemicals and Health 1995, 87-93. Rockville: American Society of Plant Physiologists, Gustin DL, Flores HE.
3. U N Genome-analysis in Brossica with special reference to the experimental formation of B. napus and its peculiar mode of fertilization. Japan J Bot 1935, 7:389-452. U N.
4. Johnston JS, Pepper AE, Hall AE, Chen ZJ, Hodnett G, Drabek J, Lopez R, Price HJ. Evolution of genome size in Brassicaceae. Ann Bot 2005, 95(1):229-235. 10.1093/aob/mci016, 1950721, 15596470.
5. Liu H. Studies on the breeding of yellow-seeded Brassica napus. Proceedings of the 6th International Rapeseed Congress Paris France 1983, 77:637-641.
6. Brassica information database http://www.brassica.info/resource/maps/published-data.php.
7. Bohuon E, Keith D, Parkin I, Sharpe A, Lydiate D. Alignment of the conserved C genomes of Brassica oleracea and Brassica napus. TAG Theor Appl Genet 1996, 93(5):833-839.
8. Camargo LEA, Williams PH, Osborn TC. Mapping of quantitative trait loci controlling resistance of Brassica oleracea to Xanthomonas campestris pv campestris in the field and glasshouse. Phytopathology 1995, 85:1296-1300.
9. Slocum M, Figdore S, Kennard W, Suzuki J, Osborn T. Linkage arrangement of restriction fragment length polymorphism loci in Brassica oleracea. TAG Theor Appl Genet 1990, 80(1):57-64.
10. Gupta P, Varshney R. The development and use of microsatellite markers for genetic analysis and plant breeding with emphasis on bread wheat. Euphytica 2000, 113(3):163-185.
11. Delourme R, Falentin C, Huteau V, Clouet V, Horvais R, Gandon B, Specel S, Hanneton L, Dheu J, Deschamps M. Genetic control of oil content in oilseed rape (Brassica napus L.). TAG Theor Appl Genet 2006, 113:1331-1345.
12. Padmaja KL, Arumugam N, Gupta V, Mukhopadhyay A, Sodhi Y, Pental D, Pradhan A. Mapping and tagging of seed coat colour and the identification of microsatellite markers for marker-assisted manipulation of the trait in Brassica juncea. TAG Theor Appl Genet 2005, 111:8-14.
13. Zhao J, Becker HC, Zhang D, Zhang Y, Ecke W. Conditional QTL mapping of oil content in rapesseed with respect to protein content and traits related to plant development and grain. TAG Theor Appl Genet 2006, 113:33-38.
14. Hyten DL, Cannon SB, Song Q, Weeks N, Fickus EW, Shoemaker RC, Specht JE, Farmer AD, May GD, Cregan PB. 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 2010, 11(1):38. 10.1186/1471-2164-11-38, 2817691, 20078886.
15. Rafalski A. Applications of single nucleotide polymorphisms in crop genetics. Curr Opin Plant Biol 2002, 5(2):94-100. 10.1016/S1369-5266(02)00240-6, 11856602.
16. Liehter R. Effcient yield of embryoids by culture of isolated microspores of different Brassicaceae species. Plant Breed 1989, 103:119-123.
17. Doyle J, Doyle J. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical bulletin 1987, 19(1):11-15.
18. BrassicaDB database http://brassica.bbsrc.ac.uk/cgi-bin/ace/searches/browser/BrassicaDB.
19. Lagercrantz U, Ellegren H, Andersson L. The abundance of various polymorphic microsatellite motifs differs between plants and vertebrates. Nucleic Acids Res 1993, 21(5):1111-1115. 10.1093/nar/21.5.1111, 309270, 8464696.
20. Lowe AJ, Jones AE, Raybould AF, Trick M, Moule CL, Edwards KJ. Transferability and genome specificity of a new set of microsatellite primers among brassica species of the U triangle. Molecular Ecology Notes 2002, 2:7-11.
21. Lowe AJ, Moule C, Trick M, Edwards K. Efficient large-scale development of microsatellites for marker and mapping applications in Brassica crop species. TAG Theor Appl Genet 2004, 108:1103-1112.
22. Iniguez-Luy FL, Voort AV, Osborn TC. Development of a set of public SSR markers derived from genomic sequence of a rapid cycling Brassica oleracea L. Genotype. TAG Theor Appl Genet 2008, 117(6):977-985.
23. Chen C, Mu Z, Kang-ning L, Yu-mei L, Li-mei Y, Yang-yong Z, Fei C, Pei-tian S, Zhi-yuan F. Development and utility of EST-SSR marker in cabbage. Acta Horticulturae Sinica 2010, 37(2):221-228.
24. Cheng X, Xu J, Xia S, Gu J, Yang Y, Fu J, Qian X, Zhang S, Wu J, Liu K. Development and genetic mapping of microsatellite markers from genome survey sequences in Brassica napus. TAG Theoretical and applied genetics 2009, 118(6):1121-1131.
25. MIcroSAtellite identification tool http://pgrc.ipk-gatersleben.de/misa.
26. Van Ooijen J, Voorrips R. JoinMap 3.0, Software for the calculation of genetic linkage maps 2001, Wageningen, The Netherlands, Plant research international.
27. NCBI electronic PCR http://www.ncbi.nlm.nih.gov/sutils/e-pcr.
28. Parallel biological systems http://pga.mgh.harvard.edu/cgi-bin/ snap3/websnaper3.cgi.
29. Drenkard E, Richter BG, Rozen S, Stutius LM, Angell NA, Mindrinos M, Cho RJ, Oefner PJ, Davis RW, Ausubel FM. A simple procedure for the analysis of single nucleotide polymorphisms facilitates map-based cloning in arabidopsis. Plant Physiol 2000, 124:1483-1492. 10.1104/pp.124.4.1483, 1539302, 11115864.
30. Sanguinetti C, Dias NE, Simpson A. Rapid silver staining and recovery of PCR products separated on polyacrylamide gels. Biotechniques 1994, 17(5):914-921.
31. Stam P. Construction of integrated genetic linkage maps by means of a new computer package: join Map. Plant J 1993, 3(5):739-744.
32. Parkin IA, Sharpe AG, Keith DJ, Lydiate DL. Identification of the A and C genomes of amphiploid Brassica napus (oilseed rape). Genome 1995, 38:1122-1133. 10.1139/g95-149, 18470236.
33. Kosambi D. The estimation of map distance from recombination values. Ann Hum Genet 1943, 12:172-175.
34. Ferreira M, Williams P, Osborn T. RFLP mapping of Brassica napus using doubled haploid lines. TAG Theor Appl Genet 1994, 89:615-621.
35. Takahata Y, Keller WA. High frequency embryogenesis and plant regeneration in isolated microspore culture of Brassica oleracea L. Plant Sci 1991, 74:235-242.
36. Uzunova M, Ecke W, Weissleder K, Uzunova M, Ecke W, Weissleder K, Röbbelen G. Mapping the genome of rapeseed (Brassica napus L.). I. Construction of an RFLP linkage map and localization of QTLs for seed glucosinolate content. TAG Theor Appl Genet 1995, 90:194-204.
37. Arumuganathan K, Earle E. Nuclear DNA content of some important plant species. Plant Mol Biol Rep 1991, 9(3):208-218.
38. Haanstra J, Wye C, Verbakel H, Meijer-Dekens F, Van den Berg P, Odinot P, Van Heusden A, Tanksley S, Lindhout P, Peleman J. An integrated high-density RFLP-AFLP map of tomato based on two Lycopersicon esculentum× L. pennellii F2 populations. TAG Theor Appl Genet 1999, 99:254-271.
39. Qi X, Stam P, Lindhout P. Use of locus-specific AFLP markers to construct a high-density molecular map in barley. TAG Theor Appl Genet 1998, 96(3):376-384.
40. Vuylsteke M, Mark R, Antonise R, Bastiaans E, Senior ML, Stuber CW, Melchinger AE, Lubberstedt T, Xia XC, Stam P, Zabeau M, Kuiper M. Two high-density AFLP® linkage maps of Zea mays L.: analysis of distribution of AFLP markers. TAG Theoretical and applied genetics 1999, 99(6):921-935.
41. Kianian S, Quiros C. Generation of a Brassica oleracea composite RFLP map: linkage arrangements among various populations and evolutionary implications. TAG Theor Appl Genet 1992, 84(5):544-554.
42. Iniguez-Luy FL, Lukens L, Farnham MW, Amasino RM, Osborn TC. Development of public immortal mapping populations, molecular markers and linkage maps for rapid cycling Brassica Rapa and B. Oleracea. TAG Theor Appl Genet 2009, 120(1):31-43.
43. Gao M, Li G, Yang B, Qiu D, Farnham M, Quiros C. High-density Brassica oleracea linkage map: identification of useful new linkages. TAG Theor Appl Genet 2007, 115(2):277-287.
44. Landry B. A genetic map for Brassica oleracea based on RFLP markers detected with expressed DNA sequences and mapping of resistance genes to race 2 of Plasmodiophora brassicae (Woronin). Genome 1992, 35:409-420.
45. Camargo LEA. Mapping RFLP and quantitative trait loci in Brassica oleracea. TAG Theor Appl Genet 1996, 88:973-980.
46. Ramsay LD, Jennings DE, Kearsey MJ, Marshall DF, Bohuon EJR, Arthur AE, Lydiate DJ. The construction of a substitution library of recombinant backcross lines in Brassica oleracea for the precision mapping of quantitative trait loci. Genome 1996, 39(3):558-567. 10.1139/g96-071, 18469917.
47. Camargo L, Savides L, Jung G, Nienhuis J, Osborn T. Location of the self-incompatibility locus in an RFLP and RAPD map of Brassica oleracea. J Hered 1997, 88(1):57. 10.1093/oxfordjournals.jhered.a023057, 9048444.
48. Voorrips R, Jongerius M, Kanne H. Mapping of two genes for resistance to clubroot (Plasmodiophora brassicae) in a population of doubled haploid lines of Brassica oleracea by means of RFLP and AFLP markers. TAG Theor Appl Genet 1997, 94(1):75-82.
49. Cheung W, Champagne G, Hubert N, Landry B. Comparison of the genetic maps of Brassica napus and Brassica oleracea. TAG Theor Appl Genet 1997, 94(5):569-582.
50. Hu J, Sadowski J, Osborn TC, Landry BS, Quiros CF. Linkage group alignment from four independent (Brassica oleracea) RFLP maps. Genome 1998, 41(2):226-235.
51. Moriguchi K, Kimizuka-Takagi C, Ishii K, Nomura K. A genetic map based on RAPD, RFLP, isozyme, morphological markers and QTL analysis for clubroot resistance in Brassica oleracea. Breed Sci 1999, 49(4):257-265.
52. Sebastian R, Howell E, King G, Marshall D, Kearsey M. An integrated AFLP and RFLP Brassica oleracea linkage map from two morphologically distinct doubled-haploid mapping populations. TAG Theor Appl Genet 2000, 100(1):75-81.
53. Chen S, Wang X. Construction a RAPDs linkage map between Chinese kale and cabbage. Acta Horticulturae Sinica 2002, 29(3):229-232.
54. Farinho M, Coelho P, Carlier J, Svetleva D, Monteiro A, Leitao J. Mapping of a locus for adult plant resistance to downy mildew in broccoli (Brassica oleracea var. Italica). TAG Theor Appl Genet 2004, 109(7):1392-1398.
55. Rocherieux J, Glory P, Giboulot A, Boury S, Barbeyron G, Thomas G, Manzanares-Dauleux M. Isolate-specific and broad-spectrum QTLs are involved in the control of clubroot in Brassica oleracea. TAG Theor Appl Genet 2004, 108(8):1555-1563.
56. Gu Y, Zhao QC, Sun DL, Song WQ. Construction of genetic linkage map and localization of NBS-LRR like resistance gene analogues in cauliflower (Brassica oleracea var. Botrytis). Yi Chuan 2007, 29(6):751-757. 10.1360/yc-007-0751, 17650494.
57. Lu H, Romero-Severson J, Bernardo R. Chromosomal regions associated with segregation distortion in maize. TAG Theor Appl Genet 2002, 105:622-628.
58. Senior M, Chin E, Lee M, Smith J, Stuber C. Simple sequence repeat markers developed from maize sequences found in the GENBANK database: Map construction. Crop Sci 1996, 36:1676-1683.
59. Bing Z, Qi-Ming D, Qi-Jun Z, Jie-Qin L, Shao-Ping Y, Yong-Shu L, Yong P, Ping L. Analysis of segregation distortion of molecular markers in F2 population of rice. Acta Genetica Sinica 2006, 33:449-457. 10.1016/S0379-4172(06)60072-3, 16722340.
60. Wang C, Zhu C, Zhai H, Wan J. Mapping segregation distortion loci and quantitative trait loci for spikelet sterility in rice (oryza sativa L.). Genet Res 2005, 86:97-106. 10.1017/S0016672305007779, 16356283.
61. Perfectti F, Pascual L. Segregation distortion of isozyme loci in cherimoya (annona cherimola mill). TAG Theor Appl Genet 1996, 93(3):440-446.
62. Lorieux M. Maximum-likelihood models for mapping genetic markers showing segregation distortion.2.F2 populations. TAG Theor Appl Genet 1995, 90:81-89.
63. Lyttle TW. Segregation distorters. Annu Rev Genet 1991, 25(1):511-581. 10.1146/annurev.ge.25.120191.002455, 1812815.
64. Faure S, Noyer J, Horry J, Bakry F, Lanaud C. A molecular marker-based linkage map of diploid bananas (Musa acuminata). TAG Theor Appl Genet 1993, 87(4):517-526.
65. Knox M, Ellis T. Excess heterozygosity contributes to genetic map expansion in pea recombinant inbred populations. Genetics 2002, 162(2):861. 1462271, 12399396.
66. Sibov ST, de Souza CL, Garcia AA, Silva AR, Mangolin CA, Benchimol LL, De Souza AP. Molecular mapping in tropical maize (Zea Mays L.) using microsatellite markers. 2. Quantitative trait loci (QTL) for grain yield, plant height, ear height and grain moisture. Hereditas 2003, 139(2):96-106.