Integrated omics analyses of retrograde signaling mutant delineate interrelated stress-response strata.
Integrated omics analyses of retrograde signaling mutant delineate interrelated stress-response strata.
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DOI：
10.1111/tpj.13547
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发表时间：
2017-07
期刊：
影响因子：
--
通讯作者：
Dehesh K
中科院分区：
文献类型：
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作者：
Bjornson M;Balcke GU;Xiao Y;de Souza A;Wang JZ;Zhabinskaya D;Tagkopoulos I;Tissier A;Dehesh K
为了在面对内在和外在的损伤时保持体内平衡，细胞已经进化出复杂的质量控制网络来解决多个水平的损伤。细胞器间的通信是这种维护的关键要求，然而这种通信的潜在机制仍然是一个谜。在这里，我们整合了转录组学，蛋白质组学和代谢组学分析的基因型，包括ceh 1，一个突变体与组成性水平升高的压力特异性质体逆行信号代谢产物甲基环二磷酸（MEcPP）和防御激素水杨酸（SA），以及高MEcPP，但SA缺乏基因型ceh 1/eds 16，沿着与相应的控制。多组学分析的整合使我们能够从SA中描绘MEcPP的功能，并揭示这种逆行信号代谢物在诱导适应性反应中不同但相互依赖的信号级联中的分隔作用。具体来说，在这里，我们确定层MECPP敏感的应激反应级联，其中我们专注于选定的途径，包括茉莉酸生物合成的细胞器特异性调节;同时诱导SA的合成和分解;和MECPP介导的细胞氧化还原状态的改变，特别是谷胱甘肽氧化还原平衡。总的来说，这些综合的多组学分析提供了一种工具，以获得深入的知识，基因组代谢的相互作用，并进一步探讨这些相互作用的程度，并描绘其功能的贡献。通过这种方法，我们能够精确定位应激介导的转录和代谢特征，并确定在适应性反应中由MEcPP和SA的独立或重叠功能调节的下游过程。
To maintain homeostasis in the face of intrinsic and extrinsic insults, cells have evolved elaborate quality control networks to resolve damage at multiple levels. Interorganellar communication is a key requirement for this maintenance, however the underlying mechanisms of this communication have remained an enigma. Here we integrate the outcome of transcriptomic, proteomic, and metabolomics analyses of genotypes including ceh1, a mutant with constitutively elevated levels of both the stress-specific plastidial retrograde signaling metabolite methylerythritol cyclodiphosphate (MEcPP) and the defense hormone salicylic acid (SA), as well as the high MEcPP but SA deficient genotype ceh1/eds16, along with corresponding controls. Integration of multi-omic analyses enabled us to delineate the function of MEcPP from SA, and expose the compartmentalized role of this retrograde signaling metabolite in induction of distinct but interdependent signaling cascades instrumental in adaptive responses. Specifically, here we identify strata of MEcPP-sensitive stress response cascades, among which we focus on selected pathways including organelle-specific regulation of jasmonate biosynthesis; simultaneous induction of synthesis and breakdown of SA; and MEcPP-mediated alteration of cellular redox status in particular glutathione redox balance. Collectively, these integrated multi-omic analyses provided a vehicle to gain an in-depth knowledge of genome-metabolism interactions, and to further probe the extent of these interactions and delineate their functional contributions. Through this approach we were able to pinpoint stress-mediated transcriptional and metabolic signatures and identify the downstream processes modulated by the independent or overlapping functions of MEcPP and SA in adaptive responses.