RNA-Seq Analysis of Rice Roots Reveals the Involvement of Post-Transcriptional Regulation in Response to Cadmium Stress.
RNA-Seq Analysis of Rice Roots Reveals the Involvement of Post-Transcriptional Regulation in Response to Cadmium Stress.
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水稻根部的 RNA-Seq 分析揭示了转录后调控对镉胁迫的响应
DOI：
10.3389/fpls.2015.01136
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发表时间：
2015
影响因子：
5.6
通讯作者：
Zheng L
中科院分区：
文献类型：
--
作者：
He F;Liu Q;Zheng L;Cui Y;Shen Z;Zheng L
土壤中广泛存在的镉污染既威胁着作物生产，也威胁着人类健康。植物如何处理过量的镉在很大程度上是未知的。为了研究植物对Cd胁迫的分子机制，对水稻幼苗进行了两种浓度的Cd处理，并进行了深度RNA测序。对两种Cd处理梯度下水稻根系的RNA-Seq综合分析发现了1169个Cd毒性反应基因。这些基因参与活性氧清除系统、应激反应、细胞壁形成、离子转运和信号转导。93个预测的长链非编码rna （lncrna）中有9个被检测为Cd响应的lncrna，因为它们与Cd胁迫反应高度相关。此外，我们还分析了不同镉浓度下的选择性剪接（AS）事件。共鉴定出476个差异选择性剪接基因和542个异常剪接事件。氧化石墨烯分析表明，这些基因在氧化还原和细胞对化学刺激的反应中高度富集。实时qRT-PCR验证分析增强了我们RNA-Seq结果的可靠性。结果表明，AS转录后调控可能也参与了植物对高镉胁迫的响应。
Widely-spread cadmium (Cd) pollution in the soil threatens both crop production and human health. How plants deal with the excess Cd are largely unknown. To evaluate the molecular mechanism by which plants respond to Cd stress, rice seedlings were treated with two concentrations of Cd and subjected to deep RNA sequencing. Comprehensive RNA-Seq analysis of rice roots under two gradients of Cd treatment revealed 1169 Cd toxicity-responsive genes. These genes were involved in the reactive oxygen species scavenging system, stress response, cell wall formation, ion transport, and signal transduction. Nine out of 93 predicted long non-coding RNAs (lncRNAs) were detected as Cd-responsive lncRNAs due to their high correlation with the Cd stress response. In addition, we analyzed alternative splicing (AS) events under different Cd concentrations. Four hundred and seventy-six differential alternatively spliced genes with 542 aberrant splicing events were identified. GO analysis indicated that these genes were highly enriched in oxidation reduction and cellular response to chemical stimulus. Real-time qRT-PCR validation analysis strengthened the reliability of our RNA-Seq results. The results suggest that post-transcriptional AS regulation may also be involved in plant responses to high Cd stress.