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Comparative transcriptomic analysis reveals the molecular mechanism underlying seedling heterosis and its relationship with hybrid contemporary seeds DNA methylation in soybean

文献类型： 外文期刊

作者： Ren, Xiaobo 1 ; Chen, Liangyu 1 ; Deng, Lin 1 ; Zhao, Qiuzhu 1 ; Yao, Dan 3 ; Li, Xueying 1 ; Cong, Weixuan 1 ; Zang, Zhenyuan 1 ; Zhao, Dingyi 1 ; Zhang, Miao 1 ; Yang, Songnan 1 ; Zhang, Jun 1 ;

作者机构： 1.Jilin Agr Univ, Fac Agron, Changchun, Peoples R China

2.South Subtrop Crops Inst, Chinese Acad Trop Agr Sci, Zhanjiang City Key Lab Trop Crops Genet Improvemen, Zhanjiang, Peoples R China

3.Jilin Agr Univ, Coll Life Sci, Changchun, Peoples R China

4.Jilin Agr Univ, Natl Crop Variety Approval & Characterist Identifi, Changchun, Peoples R China

关键词： soybean; seedling heterosis; RNA-Seq; DNA methylation; contemporary hybrid seed

期刊名称：FRONTIERS IN PLANT SCIENCE （ 影响因子：5.6； 五年影响因子：6.8 ）

ISSN： 1664-462X

年卷期： 2024 年 15 卷

页码：

收录情况： SCI

摘要： Heterosis is widely used in crop production, but phenotypic dominance and its underlying causes in soybeans, a significant grain and oil crop, remain a crucial yet unexplored issue. Here, the phenotypes and transcriptome profiles of three inbred lines and their resulting F1 seedlings were analyzed. The results suggest that F1 seedlings with superior heterosis in leaf size and biomass exhibited a more extensive recompilation in their transcriptional network and activated a greater number of genes compared to the parental lines. Furthermore, the transcriptional reprogramming observed in the four hybrid combinations was primarily non-additive, with dominant effects being more prevalent. Enrichment analysis of sets of differentially expressed genes, coupled with a weighted gene co-expression network analysis, has shown that the emergence of heterosis in seedlings can be attributed to genes related to circadian rhythms, photosynthesis, and starch synthesis. In addition, we combined DNA methylation data from previous immature seeds and observed similar recompilation patterns between DNA methylation and gene expression. We also found significant correlations between methylation levels of gene region and gene expression levels, as well as the discovery of 12 hub genes that shared or conflicted with their remodeling patterns. This suggests that DNA methylation in contemporary hybrid seeds have an impact on both the F1 seedling phenotype and gene expression to some extent. In conclusion, our study provides valuable insights into the molecular mechanisms of heterosis in soybean seedlings and its practical implications for selecting superior soybean varieties.

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