Transcriptional changes of rice in response to rice black-streaked dwarf virus
Transcriptional changes of rice in response to rice black-streaked dwarf virus
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水稻响应水稻黑条矮缩病毒的转录变化
DOI：
10.1016/j.gene.2017.07.015
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发表时间：
2017-09-10
期刊：
影响因子：
3.5
通讯作者：
Yu, Hengxiu
中科院分区：
文献类型：
--
作者：
Ahmed, Mohamed M. S.;Ji, Wen;Yu, Hengxiu
水稻黑条矮缩病毒（Rice black-streaked dwarf virus，RBSDV）是呼肠孤病毒科（Reoviridae）斐济病毒属（Fijivirus）的一种，在我国和亚洲许多国家的水稻生产中造成严重的经济损失。虽然已经做了大量的努力，以阐明病毒，昆虫载体，宿主和环境条件之间的相互作用，很少RBSDV蛋白参与发病机制已被确定，在水稻疾病发展的生物学基础仍然在很大程度上未知。水稻病害发生过程中的转录组学信息将有助于阐明病害发生的生物学机制。为了确定水稻转录组如何响应RBSDV感染而变化，我们进行了RNA-Seq以进行易感水稻品种KTWYJ 3的全基因组基因表达分析。在两个时间点（时间点由组I和II表示）将RBSDV感染的样品的转录组与无RBSDV（健康）的那些进行比较。结果表明，在感染RBSDV的文库中，有102个基因表达上调，179个基因表达下调。在第二组的2592个DEG中，1588个DEG上调，1004个DEG下调。两组中共有66例DEG。在这66个DEG中，36个DEG的表达模式在两组中相似。我们的分析表明，一些与抗病和抗逆相关的基因表达上调，而与叶绿体相关的基因表达下调。此外，还发现了一些与株高相关的基因的差异表达。这一结果表明，这些基因可能参与了RBSDV引起的侏儒症状。综上所述，我们的研究结果提供了一个全基因组的转录组分析水稻植物响应RBSDV感染，这可能有助于了解水稻-RBSDV相互作用的调控机制和水稻黑条矮缩病的生物学基础。
Rice black-streaked dwarf virus (RBSDV), a member of the genus Fijivirus in the family Reoviridae, causes significant economic losses in rice production in China and many other Asian countries. Although a great deal of effort has been made to elucidate the interactions among the virus, insect vectors, host and environmental conditions, few RBSDV proteins involved in pathogenesis have been identified, and the biological basis of disease development in rice remains largely unknown. Transcriptomic information associated with the disease development in rice would be helpful to unravel the biological mechanism. To determine how the rice transcriptome changes in response to RBSDV infection, we carried out RNA-Seq to perform a genome-wide gene expression analysis of a susceptible rice cultivar KTWYJ3. The transcriptomes of RBSDV-infected samples were compared to those of RBSDV-free (healthy) at two time points (time points are represented by group I and II). The results derived from the differential expression analysis in RBSDV-infected libraries vs. healthy ones in group I revealed that 102 out of a total of 281 significant differentially expressed genes (DEGs) were up-regulated and 179 DEGs were down-regulated. Of the 2592 identified DEGs in group II, 1588 DEGs were up-regulated and 1004 DEGs were down-regulated. A total of 66 DEGs were commonly identified in both groups. Of these 66 DEGs, expression patterns for 36 DEGs were similar in both groups. Our analysis demonstrated that some genes related to disease defense and stress resistance were up-regulated while genes associated with chloroplast were down-regulated in response to RBSDV infection. In addition, some genes associated with plant-height were differentially expressed. This result indicates those genes might be involved in dwarf symptoms caused by RBSDV. Taken together, our results provide a genome-wide transcriptome analysis for rice plants in response to RBSDV infection which may contribute to the understanding of the regulatory mechanisms involved in rice-RBSDV interaction and the biological basis of rice black-streaked dwarf disease development in rice.