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Identification of genomic regions associated with multi-silique trait in Brassica napus

文献类型： 外文期刊

作者： Chai, Liang 1 ; Zhang, Jinfang 1 ; Lu, Kun 2 ; Li, Haojie 1 ; Wu, Lintao 4 ; Wan, Hongshen 1 ; Zheng, Benchuan 1 ; Cui, C 1 ;

作者机构： 1.Sichuan Acad Agr Sci, Crop Res Inst, Chengdu 610066, Sichuan, Peoples R China

2.Southwest Univ, Coll Agron & Biotechnol, Chongqing 400716, Beibei, Peoples R China

3.Yangtze Univ, Coll Life Sci, Jingzhou 434025, Hubei, Peoples R China

4.Guizhou Acad Agr Sci, Rape Res Inst, Guiyang 550008, Guizhou, Peoples R China

关键词： Association analysis; Brassica napus L; Multi-silique; Near-isogenic line; Transcriptome sequencing; Whole genome re-sequencing

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2019 年 20 卷

页码：

收录情况： SCI

摘要： BackgroundAlthough rapeseed (Brassica napus L.) mutant forming multiple siliques was morphologically described and considered to increase the silique number per plant, an important agronomic trait in this crop, the molecular mechanism underlying this beneficial trait remains unclear. Here, we combined bulked-segregant analysis (BSA) and whole genome re-sequencing (WGR) to map the genomic regions responsible for the multi-silique trait using two pools of DNA from the near-isogenic lines (NILs) zws-ms (multi-silique) and zws-217 (single-silique). We used the Euclidean Distance (ED) to identify genomic regions associated with this trait based on both SNPs and InDels. We also conducted transcriptome sequencing to identify differentially expressed genes (DEGs) between zws-ms and zws-217.ResultsGenetic analysis using the ED algorithm identified three SNP- and two InDel-associated regions for the multi-silique trait. Two highly overlapped parts of the SNP- and InDel-associated regions were identified as important intersecting regions, which are located on chromosomes A09 and C08, respectively, including 2044 genes in 10.20-MB length totally. Transcriptome sequencing revealed 129 DEGs between zws-ms and zws-217 in buds, including 39 DEGs located in the two abovementioned associated regions. We identified candidate genes involved in multi-silique formation in rapeseed based on the results of functional annotation.ConclusionsThis study identified the genomic regions and candidate genes related to the multi-silique trait in rapeseed.

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