Genome-wide analysis of tomato long non-coding RNAs and identification as endogenous target mimic for microRNA in response to TYLCV infection.
Genome-wide analysis of tomato long non-coding RNAs and identification as endogenous target mimic for microRNA in response to TYLCV infection.
复制标题
番茄长非编码 RNA 的全基因组分析以及作为响应 TYLCV 感染的 microRNA 内源靶模拟物的鉴定
DOI：
10.1038/srep16946
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发表时间：
2015-12-18
影响因子：
4.6
通讯作者：
Zhang B
中科院分区：
文献类型：
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作者：
Wang J;Yu W;Yang Y;Li X;Chen T;Liu T;Ma N;Yang X;Liu R;Zhang B
近年来，大量的长非编码RNA(LncRNAs)已成为动植物许多生物过程的重要调节因子。然而，lncRNAs在植物DNA病毒侵染过程中如何发挥作用在很大程度上还不清楚。我们对感染番茄黄化曲叶病毒(TYLCV)的番茄样品进行了3个生物重复的链特异性双端RNA测序。总体而言，我们预测了1565个lncRNAs，包括长基因间ncRNAs(LincRNAs)和自然反义转录本(LncNAs)，并明确识别了通过病毒诱导的基因沉默(VIGS)参与TYLCV感染的lnRNAs。我们还验证了一组在接种后0天和7天(Dpi)差异表达的lncRNA的功能。更重要的是，我们发现一些LncRNAs与番茄TYLCV侵染相关的microRNAs竞争内源靶标(ETM)。这些结果为了解参与TYLCV感染反应的lncRNAs提供了新的见解，而TYLCV是番茄TYLCV网络的重要组成部分。
Recently, a large number of long noncoding RNAs (lncRNAs) have emerged as important regulators of many biological processes in animals and plants. However, how lncRNAs function during plant DNA virus infection is largely unknown. We performed strand-specific paired-end RNA sequencing of tomato samples infected with Tomato yellow leaf curl virus (TYLCV) with three biological replicates. Overall, we predicted 1565 lncRNAs including long intergenic ncRNAs (lincRNAs) and natural antisense transcripts (lncNATs) and definitively identified lnRNAs that are involved in TYLCV infection by virus-induced gene silencing (VIGS). We also verified the functions of a set of lncRNAs that were differentially expressed between 0 and 7 days post inoculation (dpi). More importantly, we found that several lncRNAs acted as competing endogenous target mimics (eTMs) for tomato microRNAs involved in the TYLCV infection. These results provide new insight into lncRNAs involved in the response to TYLCV infection that are important components of the TYLCV network in tomatoes.