Genome-wide identification and functional analysis of JmjC domain-containing genes in flower development of Rosa chinensis
Genome-wide identification and functional analysis of JmjC domain-containing genes in flower development of Rosa chinensis
复制标题
月季花发育中JmjC结构域基因的全基因组鉴定及功能分析
DOI：
10.1007/s11103-019-00955-2
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发表时间：
2020-01-02
影响因子：
5.1
通讯作者：
Wang, Changquan
中科院分区：
文献类型：
--
作者：
Dong, Yuwei;Lu, Jun;Wang, Changquan
我们在全基因组范围内鉴定了28个含有JmjC结构域的基因，进一步的时空表达谱分析和遗传分析确定它们是月季开花启动的表观遗传调控因子。含有JmjC结构域的组蛋白去甲基化酶在维持组蛋白甲基化的稳态中起着关键作用，因此对植物的生长发育至关重要。在几个物种中已经报道了全基因组鉴定含有JmjC结构域的基因，然而，还没有在玫瑰植物中进行系统的研究。本研究从中国月季基因组数据库中筛选出28个JmjC结构域基因。在R.将中国对虾分为7个类群，KDM 3是最大的类群，有13个成员，JmjC结构域A和KDM 5 B是最小的类群，都只有1个成员。虽然所有的JmjC结构域蛋白都具有一个保守的JmjC结构域，但基因和蛋白质结构在进化过程中经历了分化和特化，特别是在KDM 3进化枝中，发现一个基因（RcJMJ 40）缺失了对脱甲基酶活性至关重要的辅助因子Fe（II）和α-KG结合位点，三个基因（RcJMJ 40）缺失了对脱甲基酶活性至关重要的辅助因子Fe（II）和α-KG结合位点。（RcJMJ 41、RcJMJ 43和RcJMJ 44）不含内含子，其中2个含有串联的JmjC结构域。对这些基因在不同组织中的空间表达谱分析表明，它们大多数在花分生组织和闭合花等生殖组织中表达量高于营养组织，表明它们在玫瑰从营养生长向生殖生长的发育转换中具有重要作用。时间表达谱分析表明，大多数含有JmjC结构域的基因来自R。随着花芽分化和发育的沿着波动，进一步证明了它们在花器官发生中的重要作用。VIGS诱导RcJMJ 12基因沉默导致开花时间延迟，并降低了开花整合因子RcFT、RcSOC 1、RcFUL、RcLFY和RcAP 1的表达水平，从而为RcJMJ 12参与开花启动提供了遗传学证据。时空表达谱分析和遗传分析表明，JmjC结构域基因是杜鹃花发育中重要的表观遗传调控基因。chinensis。
We genome-wide identified 28 JmjC domain-containing genes, further spatio-temporal expression profiling and genetic analysis defined them as epigenetic regulators in flowering initiation of Rosa chinensis. The JmjC domain-containing histone demethylases play critical roles in maintaining homeostasis of histone methylations, thus are vital for plant growth and development. Genome-wide identification of the JmjC domain-containing genes have been reported in several species, however, no systematic study has been performed in rose plants. In this paper, we identified 28 JmjC domain-containing genes from the newly published genome database of Rosa chinensis. The JmjC domain-containing proteins in R. chinensis were divided into seven groups, KDM3 was the largest group with 13 members, and JmjC domain-only A and KDM5B were the smallest clades both with only one member. Although all the JmjC domain proteins having a conserved JmjC domain, the gene and protein structure experienced differentiation and specification during the evolution, especially in KDM3 clade, one gene (RcJMJ40) was found carrying site deletions for cofactors Fe (II) and α-KG binding which were crucial for demethylase activities, three genes (RcJMJ41, RcJMJ43 and RcJMJ44) had no intron while two of them had tandem JmjC domains. Spatial expression pattern analysis of these JmjC domain-containing genes in different tissues showed most of them were highly expressed in reproductive tissues such as floral meristem and closed flowers than vegetative tissues, demonstrating their important functions in developmental switch from vegetative to reproductive growth of roses. Temporal expression profiling indicated majority of JmjC domain-containing genes from R. chinensis fluctuated along with floral bud differentiation and development, further proving their essential roles in flower organogenesis. VIGS induced silencing of RcJMJ12 led to delayed flowering time, and decreased the expression levels of flowering integrator such as RcFT, RcSOC1, RcFUL, RcLFY and RcAP1, therefore providing the genetic evidence of RcJMJ12 in flowering initiation. Collectively, spatio-temporal expression profiling and genetic analysis defined the JmjC domain-containing genes as important epigenetic regulators in flower development of R. chinensis.