Using Small RNA Deep Sequencing Data to Detect Human Viruses.
Using Small RNA Deep Sequencing Data to Detect Human Viruses.
复制标题
DOI：
10.1155/2016/2596782
复制
发表时间：
2016
影响因子：
--
通讯作者：
Gao S
中科院分区：
文献类型：
--
作者：
Wang F;Sun Y;Ruan J;Chen R;Chen X;Chen C;Kreuze JF;Fei Z;Zhu X;Gao S
小 RNA 测序 (sRNA-seq) 可用于检测受感染宿主中的病毒，无需任何先验知识或专门的样品制备。 sRNA-seq方法最初用于植物中的病毒检测和鉴定，然后用于无脊椎动物和真菌。然而，使用sRNA-seq检测哺乳动物或人类病毒仍然存在争议。在这项研究中，我们使用 NCBI SRA 数据库中的 931 次 sRNA-seq 数据运行来检测和识别人类细胞或组织中的病毒，特别是来自一些临床样本的病毒。从 36 轮数据中检测到 HPV-18、HBV、HCV、HIV-1、SMRV 和 EBV 等 6 种病毒。四种病毒与之前研究的注释一致。在没有HIV阳性报告的临床样本中发现了HIV-1，并且首次在弥漫性大B细胞淋巴瘤细胞中发现了SMRV。总之，这些结果表明 sRNA-seq 可用于检测哺乳动物和人类的病毒。
Small RNA sequencing (sRNA-seq) can be used to detect viruses in infected hosts without the necessity to have any prior knowledge or specialized sample preparation. The sRNA-seq method was initially used for viral detection and identification in plants and then in invertebrates and fungi. However, it is still controversial to use sRNA-seq in the detection of mammalian or human viruses. In this study, we used 931 sRNA-seq runs of data from the NCBI SRA database to detect and identify viruses in human cells or tissues, particularly from some clinical samples. Six viruses including HPV-18, HBV, HCV, HIV-1, SMRV, and EBV were detected from 36 runs of data. Four viruses were consistent with the annotations from the previous studies. HIV-1 was found in clinical samples without the HIV-positive reports, and SMRV was found in Diffuse Large B-Cell Lymphoma cells for the first time. In conclusion, these results suggest the sRNA-seq can be used to detect viruses in mammals and humans.