Scientia Agricultura Sinica ›› 2014, Vol. 47 ›› Issue (20): 3953-3961.doi: 10.3864/j.issn.0578-1752.2014.20.003

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES • Previous Articles     Next Articles

QTL Mapping of 1000-Seed Weight in Brassica napus by Using the High Density SNP Genetic Map

JIAN Hong-ju1, WEI Li-juan1, LI Chao2, TANG Zhang-lin1, LI Jia-na1, LIU Lie-zhao1   

  1. 1College of Agronomy and Biotechnology, Southwest University, Chongqing 400715
    2    Institute of Oil Crops of Guizhou Province, Guiyang 550006
  • Received:2014-03-31 Revised:2014-06-30 Online:2014-10-16 Published:2014-10-16

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Abstract: 【Objective】 Yield is the most complex trait in crops. It is directly determined by three yield-component traits (seed weight, pod number and seed number per pod). Increase of seed weight of rapeseed is the objective for breeding and genetic research. QTL mapping of seed weight in Brassica napus under five environments was conducted by using the high density SNP genetic map. which was constructed by the rape engineering technology research center of chongqing【Method】The reference SNP genetic map contains 2 795 SNP markers, covering 1 832.9 cM of B. napus genome, and an average distance of adjacent marker is 0.66 cM. QTL mapping of seed weight was conducted by composite interval mapping using software Windows QTL Cartographer. In order to find out the candidate genes with seed weight in B. napus, 49 genes associated with seed weight were collected in Arabidopsis thaliana and the homology region was searched using blastn in the QTL confidence interval with the E value<1E–21. 【Result】 Larger ranges in five environments were detected, and the seed weight in five environments presented gaussian distribution, conforming the requirements of the QTL mapping. Trait analysis indicated that the seed weight among five environments was positively correlated at different levels. The seed weight in the environment of 2013 in Beibei showed a positive correlation with the seed weight in 2012 in Beibei and in 2008 in Giessen, and the correlation coefficients were 0.248 and 0.249, respectively. The seed weight in the environment of 2012 in Beibei showed a significant positive correlation with the seed weight in 2010 in Beibei, 2011 in Beibei and 2008 in Giessen, and the correlation coefficients were 0.226, 0.397 and 0.19, respectively. Fourteen QTLs located on 9 chromosomes were detected in five environments. And the LOD value ranged from 2.56 to 6.05. The QTL accounted for the phenotype variation from 4.64% to 14.13%. The genetic map and physical map comparison discovered that sixteen seed weight genes located on eight QTL’s confidence interval. Seven seed weight genes were detected in QTL qTSWA07-2, and the TTG2 gene was found in both qTSWA03-1 and qTSWC02-12. Interestingly, AHK3 was detected in three QTLs, namely qTSWA07-2, qTSWA08-1 and qTSWC01-1.【Conclusion】The seed weight QTL under five environments were mapped with a new set of rapeseed 60K chip array, and the mapping results are helpful to the seed weight QTL comparison in different materials based on the same rapeseed 60K chip array and the candidate gene analysis.

Key words: Brasscia napus, SNP, genetic map, seed weight, QTL

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