Identification of Circular RNAs in Kiwifruit and Their Species-Specific Response to Bacterial Canker Pathogen Invasion.
Identification of Circular RNAs in Kiwifruit and Their Species-Specific Response to Bacterial Canker Pathogen Invasion.
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DOI：
10.3389/fpls.2017.00413
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发表时间：
2017
影响因子：
5.6
通讯作者：
Huang H
中科院分区：
文献类型：
--
作者：
Wang Z;Liu Y;Li D;Li L;Zhang Q;Wang S;Huang H
最近的研究集中在环状RNA（circRNA）与其在动物中的调节功能。然而，植物，特别是非模式植物中的circRNA的系统鉴定是有限的。此外，关于预测circRNA在植物响应病原体入侵中的潜在作用的原始报告目前是可用的。利用缺失核糖体RNA（rRNA）的RNA-Seq数据对猕猴桃属3个种的4种材料在不同条件下的circRNA进行了系统鉴定。结果表明，猕猴桃属植物中存在3,582个circRNA，其中基因间circRNA占64.01%，外显子circRNA占21.44%，内含子circRNA占14.55%。在猕猴桃中观察到circRNA的组织特异性表达，并且当感染假单胞菌时检测到种特异性反应。猕猴桃细菌性溃疡病的病原菌是放线菌素A（Psa）。此外，我们发现外显子和内含子circRNA与亲本蛋白质编码基因均呈显著正相关，且内含子circRNA是一类相对于外显子circRNA而言对亲本蛋白质编码基因具有高度显著调节作用的基因。表达和加权基因共表达网络分析（WGCNA）确定了一组与植物防御反应密切相关的circRNA。本研究结果表明，circRNA具有组织特异性和物种特异性表达，并在植物免疫应答中发挥重要作用。
Research studies have recently focused on circle RNAs (circRNAs) in relation to their regulatory functions in animals. However, the systematic identification of circRNAs in plants, especially non-model plants, is limited. In addition, raw report on the prediction of the potential role of circRNAs in plant response to pathogen invasion is currently available. We conducted the systematic identification of circRNAs from four materials originating from three species belonging to genus Actinidia under different situations using ribosomal RNA (rRNA) depleted RNA-Seq data. A total of 3,582 circRNAs were identified in Actinidia, of which 64.01, 21.44, and 14.55% were intergenic circRNAs, exonic circRNAs, and intronic circRNAs, respectively. Tissue-specific expression of circRNAs was observed in kiwifruit, and a species-specific response was detected when infected with Pseudomonas syringae pv. actinidiae (Psa), which is the causative agent of kiwifruit bacterial canker disease. Furthermore, we found that both exonic and intronic circRNAs were significantly positively correlated to parent protein-coding genes, and intronic circRNAs are a class of highly remarkable regulators the parent genes comparing to that of exonic circRNAs. Expression and weighted gene co-expression network analysis (WGCNA) identified a set of circRNAs that were closely associated with plant defense response. The findings of the presents study suggest that circRNAs exhibit tissue- and species-specific expression, as well as play an important role in plant immune response.