J Integr Plant Biol. ›› 2019, Vol. 61 ›› Issue (1): 75-88.DOI: 10.1111/jipb.12754

• Research Articles • Previous Articles    

Syntenic quantitative trait loci and genomic divergence for Sclerotinia resistance and flowering time in Brassica napus

Fengqi Zhang1,2†, Junyan Huang1,3†, Minqiang Tang1†, Xiaohui Cheng1, Yueying Liu1, Chaobo Tong1,3, Jingyin Yu1, Tehrim Sadia1, Caihua Dong1,3, Lingyan Liu1, Baojun Tang2, Jianguo Chen3* and Shengyi Liu1,3*   

  1. 1Key Laboratory of Biology and Genetic Improvement of Oil Crops, the Ministry of Agriculture, Oil Crops Research Institute of CAAS, Wuhan 430062, China
    2Cereal Crops Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China
    3Hubei Collaborative Innovation Center for Green Transformation of Bio-Resources, Faculty of Life Science, Hubei University, Wuhan 430062, China

    These authors contributed equally to this work
    Email: Shengyi Liu (liusy@oilcrops.cn, Dr. Liu is fully responsible for the distribution of all materials associated with this article); Jianguo Chen (chenjg23@hotmail.com)
  • Received:2018-08-18 Accepted:2018-11-26 Online:2018-12-01 Published:2019-01-01

Abstract: Oilseed rape (Brassica napus) is an allotetraploid with two subgenomes descended from a common ancestor. Accordingly, its genome contains syntenic regions with many duplicate genes, some of which may have retained their original functions, whereas others may have diverged. Here, we mapped quantitative trait loci (QTL) for stem rot resistance (SRR), a disease caused by the fungus Sclerotinia sclerotiorum, and flowering time (FT) in a recombinant inbred line population. The population was genotyped using B. napus 60K single nucleotide polymorphism arrays and phenotyped in six (FT) and nine (SSR) experimental conditions or environments. In total, we detected 30 SRR QTL and 22 FT QTL and show that some of the major QTL associated with these two traits were co-localized, suggesting a genetic linkage between them. Two SRR QTL on chromosome A2 and two on chromosome C2 were shown to be syntenic, suggesting the functional conservation of these regions. We used the syntenic properties of the genomic regions to exclude genes for selection candidates responsible for QTL-associated traits. For example, 152 of the 185 genes could be excluded from a syntenic A2-C2 region. These findings will help to elucidate polyploid genomics in future studies, in addition to providing useful information for B. napus breeding programs.

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