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Structural and functional comparative mapping between the Brassica A genomes in allotetraploid Brassica napus and diploid Brassica rapa

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Abstract

Brassica napus (AACC genome) is an important oilseed crop that was formed by the fusion of the diploids B. rapa (AA) and B. oleracea (CC). The complete genomic sequence of the Brassica A genome will be available soon from the B. rapa genome sequencing project, but it is not clear how informative the A genome sequence in B. rapa (Ar) will be for predicting the structure and function of the A subgenome in the allotetraploid Brassica species B. napus (An). In this paper, we report the results of structural and functional comparative mapping between the A subgenomes of B. napus and B. rapa based on genetic maps that were anchored with bacterial artificial chromosomes (BACs)-sequence of B. rapa. We identified segmental conservation that represented by syntenic blocks in over one third of the A genome; meanwhile, comparative mapping of quantitative trait loci for seed quality traits identified a dozen homologous regions with conserved function in the A genome of the two species. However, several genomic rearrangement events, such as inversions, intra- and inter-chromosomal translocations, were also observed, covering totally at least 5% of the A genome, between allotetraploid B. napus and diploid B. rapa. Based on these results, the A genomes of B. rapa and B. napus are mostly functionally conserved, but caution will be necessary in applying the full sequence data from B. rapa to the B. napus as a result of genomic rearrangements in the A genome between the two species.

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Acknowledgments

This work was supported by the National Basic Research and Development Program (2006CB101600), People’s Republic of China; the Technology Development Program for Agricultural and Forestry, Ministry for Food, Agriculture, Forestry, and Fisheries (607003-05-2-SB110), and the Rural Development Administration (BioGreen 21 Program 04-1-12-2 and PJ0066912010), Republic of Korea.

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Authors and Affiliations

  1. National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China

    Congcong Jiang, Yongbiao Ma, Ji Feng, Ruiyuan Li, Yan Long, Chunyu Zhang & Jinling Meng

  2. Molecular Genetics and Genomics Lab, Department of Horticulture, Chungnam National University, Daejeon, 305-764, Republic of Korea

    Nirala Ramchiary, Su Ryun Choi & Yong Pyo Lim

  3. Genomics Division, National Academy of Agricultural Science, Rural Development Administration, Suwon, 441-707, Republic of Korea

    Mina Jin & Beom Seok Park

  4. Hybrid Rapeseed Research Center of Shaanxi, Dali, 715105, China

    Hao Wang

  5. The UWA Institute of Agriculture, c/o School of Plant Biology M084, The University of Western Australia, Crawley, WA, 6009, Australia

    Wallace A. Cowling

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  1. Congcong Jiang
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  2. Nirala Ramchiary
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  3. Yongbiao Ma
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  4. Mina Jin
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  5. Ji Feng
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  11. Wallace A. Cowling
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  13. Yong Pyo Lim
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  14. Jinling Meng
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Corresponding authors

Correspondence to Yong Pyo Lim or Jinling Meng.

Additional information

Communicated by H. Becker.

C. Jiang and N. Ramchiary contributed equally to this work.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Online Resource 1 ESM_1 The B. rapa and B. napus genetic maps used in this study. (PDF 264 kb)

122_2011_1637_MOESM2_ESM.pdf

Online Resource 2 ESM_2 Secondary common markers inferred from the conserved Brassicaceae building blocks between homologous linkage groups of B. napus TN and B. rapa CK genetic map. (PDF 20 kb)

Online Resource 3 ESM_3 The QTL related to seed quality traits in B. rapa and B. napus. (PDF 44 kb)

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Jiang, C., Ramchiary, N., Ma, Y. et al. Structural and functional comparative mapping between the Brassica A genomes in allotetraploid Brassica napus and diploid Brassica rapa . Theor Appl Genet 123, 927–941 (2011). https://doi.org/10.1007/s00122-011-1637-1

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