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Molecular mapping of Arabidopsis thaliana lipid-related orthologous genes in Brassica napus

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Abstract

Quantitative Trait Loci (QTL) for oil content has been previously analyzed in a SG-DH population from a cross between a Chinese cultivar and a European cultivar of Brassica napus. Eight QTL with additive and epistatic effects, and with environmental interactions were evaluated. Here we present an integrated linkage map of this population predominantly based on informative markers derived from Brassica sequences, including 249 orthologous A. thaliana genes, where nearly half (112) are acyl lipid metabolism related genes. Comparative genomic analysis between B. napus and A. thaliana revealed 33 colinearity regions. Each of the conserved A. thaliana segments is present two to six times in the B. napus genome. Approximately half of the mapped lipid-related orthologous gene loci (76/137) were assigned in these conserved colinearity regions. QTL analysis for seed oil content was performed using the new map and phenotypic data from 11 different field trials. Nine significant QTL were identified on linkage groups A1, A5, A7, A9, C2, C3, C6 and C8, together explaining 57.79% of the total phenotypic variation. A total of 14 lipid related candidate gene loci were located in the confidence intervals of six of these QTL, of which ten were assigned in the conserved colinearity regions and felled in the most frequently overlapped QTL intervals. The information obtained from this study demonstrates the potential role of the suggested candidate genes in rapeseed kernel oil accumulation.

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Acknowledgments

The authors are grateful to Dr. Christian Moellers and Prof. Heiko Becker (University of Gottingen), and Dr Zhonghua Chen (University of Western Sydney) for their critical reading of the manuscript and to Dr. Wolfgang Ecke (University of Gottingen) for his providing the original SSR marker names from AAFC consortium. Thanks also to Drs. Liu Jing, Wang Lei and Shengyi Liu (CAAS) for offering marker primers, siRNAs precursor and BAC sequences. Prof. Weijun Zhou (Zhejiang University) for kindly providing the rapeseed line “Gaoyou”. This research was financially supported by National Basic Research Programs (2006CB101601), National High-tech R&D Program (2011AA10A104), National Natural Science Foundations of China (No. 30871543, 31171180) and Zhejiang Provincial Natural Science Foundation of China (Z3100592).

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Authors and Affiliations

  1. Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou, China

    Jianyi Zhao, Jixiang Huang, Fei Chen & Xiyuan Ni

  2. College of Agricultural and Biotechnology, Zhejiang University, Hangzhou, China

    Fei Xu & Haiming Xu

  3. College of Bioscience and Biotechnology, Yangzhou University, Yangzhou, China

    Yilong Wang

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

    Chonchon Jiang & Jinling Meng

  5. Hybrid Rapeseed Research Center of Shaanxi, Dali, China

    Hao Wang & Dianrong Li

  6. College of Agronomy, Northwest Agricultural and forestry University, Yanglin, China

    Aixia Xu

  7. Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou, China

    Ruizhi Huang

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  1. Jianyi Zhao
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Correspondence to Jianyi Zhao.

Additional information

Communicated by C. Quiros.

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Supplementary material 1 (XLS 27 kb)

122_2011_1716_MOESM2_ESM.xls

Summary table of mapped markers (Table S2a, S2b, S2c and S2d) Table S2a. Summary table of all the reference SSR information, including marker prefixes, source of primers and the No. of markers from different resources. Table S2b. Summary table of all the mapped markers including names, types and primer sequences on 19 linkage groups in SG-DH population. Table S2c.Detailed information of the mapped functional gene markers in the updated SG map Table S2d. The list of reference SSR markers mapped in updated SG map (XLS 340 kb)

122_2011_1716_MOESM3_ESM.xls

Summary of the over genes annotations (Table S3a, S3b) Table S3a. Functional classification of mapped lipid-related candidate genes in the SG-population Table S3b. Functional classification of other mapped genes in the SG-population (XLS 120 kb)

Table S4. (XLS) Phenotypic variation of seed oil content in the SG-DH population over 11 experiments (XLS 28 kb)

Table S5. (XLS) Full QTL information for seed oil content over 11 experiments (XLS 32 kb)

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Zhao, J., Huang, J., Chen, F. et al. Molecular mapping of Arabidopsis thaliana lipid-related orthologous genes in Brassica napus . Theor Appl Genet 124, 407–421 (2012). https://doi.org/10.1007/s00122-011-1716-3

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