Methods and applications of transcriptomics for viruses and viral diseases
10.3760/cma.j.cn112866-20220330-00074
- VernacularTitle:病毒和病毒病转录组学方法与应用
- Author:
Zhiyong WU
1
;
Meng XU
;
Lijia JIA
;
Ying CAO
;
Di LIU
;
Haizhou LIU
Author Information
1. 中国科学院武汉病毒研究所 微生物资源与生物信息研究中心，武汉 430071
- Keywords:
Viruses;
Meta-transcriptome;
Bulk RNA-seq;
ScRNA-seq;
SnRNA-seq;
ST
- From:
Chinese Journal of Experimental and Clinical Virology
2022;36(3):346-353
- CountryChina
- Language:Chinese
-
Abstract:
For the past few years, viral diseases such as Coronavirus Disease 2019, Influenza, and Ebola hemorrhagic fever have become more severe and more frequent. For people’s health and the stable operation of the national economy, it is of increasing importance to research the pathogenesis of virus and host immune regulation mechanism, analyze the regulation of gene expression between virus and host, and surveil pathogenic viruses and prevent virus diseases. Transcriptome sequencing is a kind of technology at the RNA level that focuses on the expression characteristics of genes in a specific space-time state, and it is an indispensable tool for analyzing differential gene expression and researching differential splicing of mRNA. With the progress of molecular biology experimental technology and the maturity of bioinformatics analysis platforms, transcriptomics is developing towards the low-cost and low technical threshold, which is gradually transitioning from the research field to the clinical laboratory and changing the traditional cognition of clinical staff in viruses and viral diseases. It has been increasingly used in the research of viral transcription mechanisms, immune interaction between virus and host, tracking disease progression, and antiviral drug development. In order to provide a methodological reference for the research of virus mechanism and prevention and control of virus disease, here, we mainly review meta-transcriptome from three aspects: technical process, common software and application scenarios of virus and virus diseases, and briefly mention the method and applications of other transcriptomes, including a population of cells RNA sequencing (Bulk RNA-seq), Single-cell RNA sequencing (ScRNA-seq), Single-nuclear RNA sequencing (SnRNA-seq), and Spatial Transcriptome (ST).
