Transcriptome-Wide Identification and Characterization of Potato Circular RNAs in Response to Pectobacterium carotovorum Subspecies brasiliense Infection.
Transcriptome-Wide Identification and Characterization of Potato Circular RNAs in Response to Pectobacterium carotovorum Subspecies brasiliense Infection.
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马铃薯环状 RNA 对巴西胡萝卜果杆菌亚种感染的全转录组鉴定和表征
DOI：
10.3390/ijms19010071
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发表时间：
2017-12-27
影响因子：
5.6
通讯作者：
Ma D
中科院分区：
文献类型：
--
作者：
Zhou R;Zhu Y;Zhao J;Fang Z;Wang S;Yin J;Chu Z;Ma D
关于环状 RNA (circRNA) 在马铃薯-胡萝卜果杆菌亚种中的作用的信息很少。 brasiliense (Pcb) 交互目前可用。在本研究中，我们对受 Pcb 感染的马铃薯品种 Valor（易感）和 BP1（耐病）的时间序列样本中的 circRNA 进行了系统鉴定。总共检测到 2098 个 circRNA，其中大约一半（931 个，44.38%）是基因间 circRNA。差异表达分析检测到429个显着调控的circRNA。 circRNA 通过调节亲本基因和海绵 miRNA 发挥作用。亲代基因和 miRNA 靶向 mRNA 的基因本体论 (GO) 富集表明，这些差异表达 (DE) circRNA 参与防御反应 (GO:0006952)、细胞壁 (GO:0005199)、ADP 结合 (GO:0043531)、磷酸化 (GO:0016310) 和激酶活性 (GO:0016301)，这表明circRNA 调节马铃薯免疫反应。此外，加权基因共表达网络分析（WGCNA）发现circRNA与编码基因和长基因间非编码RNA（lincRNA）密切相关。它们一起受到品种特异性调节，以增强马铃薯对多氯联苯感染的免疫反应，这意味着 circRNA 在重编程疾病反应性转录组中的作用。我们的结果将为马铃薯与多氯联苯相互作用提供新的见解，并可能在未来带来新的疾病控制策略。
Little information about the roles of circular RNAs (circRNAs) during potato-Pectobacterium carotovorum subsp. brasiliense (Pcb) interaction is currently available. In this study, we conducted the systematic identification of circRNAs from time series samples of potato cultivars Valor (susceptible) and BP1 (disease tolerant) infected by Pcb. A total of 2098 circRNAs were detected and about half (931, 44.38%) were intergenic circRNAs. And differential expression analysis detected 429 significantly regulated circRNAs. circRNAs play roles by regulating parental genes and sponging miRNAs. Gene Ontology (GO) enrichment of parental genes and miRNAs targeted mRNAs revealed that these differentially expressed (DE) circRNAs were involved in defense response (GO:0006952), cell wall (GO:0005199), ADP binding (GO:0043531), phosphorylation (GO:0016310), and kinase activity (GO:0016301), suggesting the roles of circRNAs in regulating potato immune response. Furthermore, weighted gene co-expression network analysis (WGCNA) found that circRNAs were closely related with coding-genes and long intergenic noncoding RNAs (lincRNAs). And together they were cultivar-specifically regulated to strengthen immune response of potato to Pcb infection, implying the roles of circRNAs in reprogramming disease responsive transcriptome. Our results will provide new insights into the potato-Pcb interaction and may lead to novel disease control strategy in the future.
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影响因子：
30.3
作者：
Li B;Meng X;Shan L;He P
通讯作者：
He P
影响因子：
14.9
作者：
Dai X;Zhao PX
通讯作者：
Zhao PX
WGCNA：用于加权相关网络分析的 R 包。
影响因子：
3
作者：
Langfelder P;Horvath S
通讯作者：
Horvath S
phytophthora capsici-tomato相互作用具有与半生物营养性生活方式相关的基因表达的急剧变化。
影响因子：
12.3
作者：
Jupe J;Stam R;Howden AJ;Morris JA;Zhang R;Hedley PE;Huitema E
通讯作者：
Huitema E
影响因子：
1.8
作者：
Din, Muhammad;Barozai, Muhammad Younas Khan;Baloch, Iftekhar Ahmed
通讯作者：
Baloch, Iftekhar Ahmed