Evolution of Lineage-Specific Gene Networks Underlying the Considerable Fruit Shape Diversity in Persimmon
Evolution of Lineage-Specific Gene Networks Underlying the Considerable Fruit Shape Diversity in Persimmon
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DOI：
10.1093/pcp/pcz139
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发表时间：
2019-11-01
影响因子：
4.9
通讯作者：
Tao, Ryutaro
中科院分区：
文献类型：
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作者：
Maeda, Haruka;Akagi, Takashi;Tao, Ryutaro
植物器官的形状反映了每个谱系的进化，并根据谱系对环境的适应而多样化。对器官形状的分子途径的研究传统上主要集中在叶或花上。因此，很少有人知道控制果实形状的途径，尽管它们在一些植物物种中的多样性。在这项研究中，我们分析了东方柿，这表现出相当大的差异，在果实形状的品种，阐明潜在的分子机制，使用转录组数据和定量评价。首先，为了筛选与柿子果实形状相关的候选基因，使用mRNA-Seq分析从100个个体（包括分离群体和各种品种）获得的全基因表达模式进行评估，以检测与椭圆傅立叶描述符表征的果实形状的主成分得分的相关性。利用加权基因共表达网络分析（WGCNA）软件包对基因共表达网络进行分析，结果表明：1类KNOX家族基因和SEEDSTICK基因作为整合子，沿着一些植物激素相关基因，调控果实形态多样性。另一方面，OVATE家族基因也对果实形状多样性有贡献，其途径可能与其他植物物种共享。进化方面表明，收购的高谱系特异性和可变表达的1类KNOX基因，结状同源框拟南芥1（KNAT 1），在幼果是重要的建立柿子特异性机制，决定水果形状的多样性。
The shapes of plant organs reflect the evolution of each lineage and have been diversified according to lineage-specific adaptations to environment. Research on the molecular pathways responsible for organ shapes has traditionally been focused mainly on leaves or flowers. Thus, little is known about the pathways controlling fruit shapes, despite their diversity in some plant species. In this study, we analyzed oriental persimmon (Diospyros kaki), which exhibits considerable diversity in fruit shapes among cultivars, to elucidate the underlying molecular mechanism using transcriptomic data and quantitative evaluation. First, to filter the candidate genes associated with persimmon fruit shapes, the whole gene expression patterns obtained using mRNA-Seq analysis from 100 individuals, including a segregated population and various cultivars, were assessed to detect correlations with principal component scores for fruit shapes characterized with elliptic Fourier descriptors. Next, a gene co-expression network analysis with weighted gene co-expression network analysis (WGCNA) package revealed that class 1 KNOX family genes and SEEDSTICK function as integrators along with some phytohormone-related genes, to regulate the fruit shape diversity. On the other hand, the OVATE family genes also contribute to fruit shape diversity, of which pathway would be potentially shared with other plant species. Evolutionary aspects suggest that acquisition of a high lineage-specific and variable expression of class 1 KNOX gene, knotted-like homeobox of Arabidopsis thaliana 1 (KNAT1), in young fruit is important for establishing the persimmon-specific mechanism that determines fruit shape diversity.