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Genome-wide association studies reveal genetic basis of ionomic variation in cassava

文献类型： 外文期刊

作者： Yin, Hongyan 1 ; Yan, Yu 1 ; Hu, Wei 4 ; Liu, Guoyin 1 ; Zeng, Hongqiu 1 ; Wei, Yunxie 1 ; Shi, Haitao 1 ;

作者机构： 1.Hainan Univ, Coll Trop Crops,Key Lab Biotechnol Salt Tolerant, Collaborat Innovat Ctr Nanfan & High Efficiency T, Sanya Nanfan Res Inst,Hainan Key Lab Sustainable, Sanya, Hainan, Peoples R China

2.Hainan Univ, Coll Trop Crops,Key Lab Biotechnol Salt Tolerant, Collaborat Innovat Ctr Nanfan & High Efficiency T, Sanya Nanfan Res Inst,Hainan Key Lab Sustainable, Haikou, Hainan, Peoples R China

3.Hainan Yazhou Bay Seed Lab, Sanya, Hainan, Peoples R China

4.Chinese Acad Trop Agr Sci, Inst Trop Biosci & Biotechnol, Key Lab Biol & Genet Resources Trop Crops, Xueyuan Rd 4, Haikou 571101, Hainan, Peoples R China

关键词： Cassava (Manihot esculenta); ionomic variation; promoter; gene expression; N accumulation

期刊名称：PLANT JOURNAL （ 影响因子：7.091； 五年影响因子：8.028 ）

ISSN： 0960-7412

年卷期： 2022 年 112 卷 5 期

页码：

收录情况： SCI

摘要： As one of the most important food crops, cassava (Manihot esculenta) is the main dietary source of micronutrients for about 1 billion people. However, the ionomic variation in cassava and the underlying genetic mechanisms remain unclear so far. Herein, genome-wide association studies were performed to reveal the specific single nucleotide polymorphisms (SNPs) that affect the ionomic variation in cassava. We identified 164 SNPs with P-values lower than the threshold located in 88 loci associated with divergent ionomic variations. Among them, 13 SNPs are related to both calcium (Ca) and magnesium (Mg), and many loci for different ionomic traits seem to be clustered on specific chromosome regions. Moreover, we identified the peak SNPs in the promoter regions of Sc10g003170 (encoding methionyl-tRNA synthetase [MetRS]) and Sc18g015190 (encoding the transcriptional regulatory protein AlgP) for nitrogen (N) and phosphorus (P) accumulation, respectively. Notably, these two SNPs (chr10_32807962 and chr18_31343738) were directly correlated with the transcript levels of Sc10g003170 (MetRS) and Sc18g015190 (AlgP), which positively modulated N accumulation and P concentration in cassava, respectively. Taken together, this study provides important insight into the genetic basis of cassava natural ionomic variation, which will promote genetic breeding to improve nutrient use and accumulation of elements in cassava.

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