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An ultradense genetic recombination map for Brassica napus, consisting of 13551 SRAP markers

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Abstract

Sequence related amplified polymorphism (SRAP) was used to construct an ultradense genetic recombination map for a doubled haploid (DH) population in B. napus. A total of 1,634 primer combinations including 12 fluorescently labeled primers and 442 unlabeled ones produced 13,551 mapped SRAP markers. All these SRAPs were assembled in 1,055 bins that were placed onto 19 linkage groups. Ten of the nineteen linkage groups were assigned to the A genome and the remaining nine to the C genome on the basis of the differential SRAP PCR amplification in two DH lines of B. rapa and B. oleracea. Furthermore, all 19 linkage groups were assigned to their corresponding N1–N19 groups of B. napus by comparison with 55 SSR markers used to construct previous maps in this species. In total, 1,663 crossovers were detected, resulting in a map length span of 1604.8 cM. The marker density is 8.45 SRAPs per cM, and there could be more than one marker in 100 kb physical distance. There are four linkage groups in the A genome with more than 800 SRAP markers each, and three linkage groups in the C genome with more 1,000 SRAP markers each. Our studies suggest that a single SRAP map might be applicable to the three Brassica species, B. napus, B. oleracea and B. rapa. The use of this ultra high-density genetic recombination map in marker development and map-based gene cloning is discussed.

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References

  • Bowers JE, Abbey C, Anderson S, Chang C, Draye X et al (2003) A high-density genetic recombination map of sequence-tagged sites for sorghum, as a framework for comparative structural and evolutionary genomics of tropical grains and grasses. Genetics 165:367–386

    PubMed  CAS  Google Scholar 

  • Budak H, Shearman RC, Parmaksiz I, Dweikat I (2004a) Comparative analysis of seeded and vegetative biotype buffalograsses based on phylogenetic relationship using ISSRs, SSRs, RAPDs, and SRAPs. Theor Appl Genet 109:280–288

    Article  CAS  Google Scholar 

  • Budak H, Shearman RC, Parmaksiz I, Gaussoin RE, Riordan TP, Dweikat I (2004b) Molecular characterization of Buffalograss germplasm using sequence-related amplified polymorphism markers. Theor Appl Genet 108:328–334

    Article  CAS  Google Scholar 

  • Feltus FA, Wan J, Schulze SR, Estil 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

    Article  PubMed  CAS  Google Scholar 

  • Ferriol M, Pico B, Nuez F (2003) Genetic diversity of a germplasm collection of Cucurbita pepo using SRAP and AFLP markers. Theor Appl Genet 107:271–282

    Article  PubMed  CAS  Google Scholar 

  • Gao M, Li G, Potter D, McCombie WR, Quiros CF (2006) Comparative analysis of methylthioalkylmalate synthase (MAM) gene family and flanking DNA sequences in Brassica oleracea and Arabidopsis thaliana. Plant Cell Rep 25:592–598

    Article  PubMed  CAS  Google Scholar 

  • Howell EC, Barker GC, Jones GH, Kearsey MJ, King GJ, Kop EP, Ryder CD, Teakle GR, Vicente JG, Armstrong SJ (2002) Integration of the cytogenetic and genetic linkage maps of Brassica oleracea. Genetics 161:1225–1234

    PubMed  CAS  Google Scholar 

  • Li G, Quiros CF (2001) Sequence-related amplified polymorphism (SRAP), a New marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theor Appl Genet 103:455–461

    Article  CAS  Google Scholar 

  • Li G, Quiros CF (2002) Genetic analysis, expression and molecular characterization of BoGSL-ELONG, a major gene involved in the aliphatic glucosinolate pathway of Brassica species. Genetics 162:1937–1943

    PubMed  CAS  Google Scholar 

  • Li G, Quiros CF (2003) In planta side-chain glucosinolate modification in Arabidopsis by introduction of dioxygenase Brassica homolog BoGSL-ALK. Theor Appl Genet 106:1116–1121

    PubMed  CAS  Google Scholar 

  • Li G, Gao M, Yang B, Quiros CF (2003) Gene for gene alignment between the Brassica and Arabidopsis genomes by direct transcriptome mapping. Theor Appl Genet 107:168–180

    Article  PubMed  CAS  Google Scholar 

  • Parkin IA, Gulden SM, Sharpe AG, Lukens L, Trick M et al (2005) Segmental structure of the Brassica napus genome based on comparative analysis with Arabidopsis thaliana. Genetics 171:765–781

    Article  PubMed  CAS  Google Scholar 

  • Peters JL, Cnudde F, Gerats T (2003) Forward genetics and map-based cloning approaches. (Review). Trends Plant Sci 8(10):484–491

    Article  PubMed  CAS  Google Scholar 

  • Piquemal J, Cinquin E, Couton F, Rondeau C, Seignoret E et al (2005) Construction of an oilseed rape (Brassica napus L.) genetic map with SSR markers. Theor Appl Genet 111:1514–1523

    Article  PubMed  CAS  Google Scholar 

  • Osborn TC, Butrulle DV, Sharpe AG, Pickering KJ, Parkin IA, Parker JS, Lydiate DJ (2003) Detection and effects of a homeologous reciprocal transposition in Brassica napus. Genetics 165:1569–1577

    PubMed  CAS  Google Scholar 

  • Rong J, Abbey C, Bowers JE, Brubaker CL, Chang C et al (2004) A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium). Genetics 166:389–417

    Article  PubMed  CAS  Google Scholar 

  • Shen YJ, Jiang H, Jin JP, Zhang ZB, Xi B et al (2004) Development of genome-wide DNA polymorphism database for map-based cloning of rice genes. Plant Physiol 135:1198–1205

    Article  PubMed  CAS  Google Scholar 

  • U N (1935) Genome analysis in Brassica with special reference to the experimental formation of B. napus and peculiar mode of fertilization. Jpn J Bot 7:389–452

    Google Scholar 

  • van Os HV, Andrzejewski S, Bakker E, Barrena I, Bryan G et al (2006) Construction of a 10,000 marker ultradense genetic recombination map of potato: providing a framework for accelerated gene isolation and a genome-wide physical map. Genetics 173:1075–1087

    Article  PubMed  Google Scholar 

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Acknowledgments

We thank Dr. C. F. Quiros for his critical reading of this manuscript and providing most primers used in this research. We are indebted to Zixia Niu and Mukhles Rahman for technical assistance. This work was supported by NSERC Industrial Research Chair grant to P. B. E. McVetty and G. Li.

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Author notes

  1. Jinxing Tu

    Present address: National Key Laboratory of Crop Genetic Improvement, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China

  2. Jiefu Zhang

    Present address: Jiangsu Academy of Agricultural Sciences, Nanjing, Jiangsu, China

  3. Fengqun Yu

    Present address: Saskatoon Research Center, Agriculture and Agri-Food Canada, 107 Science Place, S7N 0X2, Saskatoon, SK, Canada

Authors and Affiliations

  1. Department of Plant Science, University of Manitoba, R3T 2N2, Winnipeg, MB, Canada

    Zudong Sun, Zining Wang, Jinxing Tu, Jiefu Zhang, Fengqun Yu, Peter B. E. McVetty & Genyi Li

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  1. Zudong Sun
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Corresponding author

Correspondence to Genyi Li.

Additional information

Communicated by M. Xu.

Electronic supplementary material

Below is the link to the electronic supplementary material.

S1. List of uUnlabeled primers used for constructing the high density SRAP map and their sequence (DOC 307 kb)

122_2006_483_MOESM2a_ESM.doc

S2. List of mapped SRAP markers with their sizes, their map position and the primers for producing these SRAP markers (SRAP PCR products were separated with ABI 3100 genetic analyzer (DOC 6.68 mb)

S2-2. (S2 continued) (DOC 7.11 mb)

S2-3. (S2 continued) (DOC 7.10 mb)

122_2006_483_MOESM3_ESM.doc

S3. Distribution of inferred crossovers on linkage groups and 58 DH lines used for mapping inferred on the basis of 13551 SRAP markers in B. napus. (DOC 353 kb)

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Sun, Z., Wang, Z., Tu, J. et al. An ultradense genetic recombination map for Brassica napus, consisting of 13551 SRAP markers. Theor Appl Genet 114, 1305–1317 (2007). https://doi.org/10.1007/s00122-006-0483-z

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  • DOI: https://doi.org/10.1007/s00122-006-0483-z

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