Transcriptome altered by latent human cytomegalovirus infection on THP-1 cells using RNA-seq.
Transcriptome altered by latent human cytomegalovirus infection on THP-1 cells using RNA-seq.
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DOI：
10.1016/j.gene.2016.09.014
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发表时间：
2016-12-05
期刊：
影响因子：
3.5
通讯作者：
Zheng XQ
中科院分区：
文献类型：
--
作者：
Zhang Q;Lai MM;Lou YY;Guo BH;Wang HY;Zheng XQ
人类巨细胞病毒(HCMV)已被认为是先天性感染的新生儿以及免疫功能低下的人患上严重的、有时危及生命的疾病的原因之一。然而，宿主与病毒相互作用的分子机制仍然知之甚少。在这里，我们利用新出现的RNA-SEQ分析了THP-1细胞中mRNAs和长非编码RNAs(LncRNAs)的表达，以研究HCMV潜伏感染过程中的转录变化。在HCMV感染后4天，共获得169,008,624个序列读数和180,616个转录本。在这些转录本中，在Refseq数据库中发现了1,354个非编码基因和12,952个蛋白质编码基因。基因差异表达分析鉴定了2,153个HCMV感染和模拟感染THP-1细胞的差异表达基因，其中1,098个上调基因和1,055个下调基因。这些调控基因参与了细胞凋亡、炎症反应和细胞周期进程，所有这些都可能与病毒的发病机制有关。此外，在感染的THP-1细胞中，646个lncRNAs(208个已知的lncRNAs和438个新的lncRNAs)表达上调，424个(140个已知的和284个新的)表达下调。这些发现提供了病毒-宿主界面上DE候选基因和lncRNAs的动态情景，显然值得进一步进行与HCMV感染相关的实验研究。差异基因表达分析鉴定了2,153个HCMV感染细胞和模拟感染THP-1细胞之间的差异表达基因。这些调控基因参与了细胞凋亡、炎症反应和细胞周期进程，所有这些都可能与病毒的发病机制有关。LncRNAs可能参与了对HCMV潜伏感染的调控。
Human cytomegalovirus (HCMV) has been recognized as a cause of severe, sometimes life-threatening disease in congenitally infected newborns as well as in immunocompromised individuals. However, the molecular mechanisms of the host-virus interaction remain poorly understood. Here, we profiled the expression of mRNAs and long noncoding RNAs (lncRNAs) in THP-1 cells using the emerging RNA-seq to investigate the transcriptional changes during HCMV latent infection. At 4 days post HCMV infection, a total of 169,008,624 sequence reads and 180,616 transcripts were obtained, respectively. Of these transcripts, 1,354 noncoding genes and 12,952 protein-coding genes were observed in Refseq database. Differential gene expression analysis identified 2,153 differentially expressed genes (DEGs) between HCMV-infected and mock-infected THP-1 cells, including 1,098 up-regulated genes and 1,055 down-regulated genes. These regulated genes were involved in pathways of apoptosis, inflammatory response and cell cycle progression, all of which may be implicated in viral pathogenesis. In addition, 646 lncRNAs (208 known lncRNAs and 438 novel lncRNAs) were upregulated and 424 (140 known and 284 novel) were downregulated in infected THP-1 cells. These findings have provided a dynamic scenario of DE candidate genes and lncRNAs at the virus-host interface and clearly warrant further experimental investigation associated with HCMV infection. Differential gene expression analysis identified 2,153 differentially expressed genes between HCMV-infected cells and mock-infected THP-1 cells. These regulated genes were involved in pathways of apoptosis, inflammatory response and cell cycle progression, all of which may be implicated in viral pathogenesis. lncRNAs may involved in regulation of HCMV latent infection.
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