High affinity of host human microRNAs to SARS-CoV-2 genome: An in silico analysis.
High affinity of host human microRNAs to SARS-CoV-2 genome: An in silico analysis.
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宿主人类microRNA对SARS-COV-2基因组的高亲和力：硅分析中的一种。
DOI：
10.1016/j.ncrna.2020.11.005
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发表时间：
2020-12
影响因子：
5
通讯作者：
Hadizadeh M
中科院分区：
文献类型：
--
作者：
Jafarinejad-Farsangi S;Jazi MM;Rostamzadeh F;Hadizadeh M
2019年冠状病毒病（COVID-19）由一种名为严重急性呼吸道综合征冠状病毒2（SARS-CoV-2）的新型β冠状病毒引起，在其出现后的几个月内引起了全球最大的健康问题。由于病毒的复制和繁殖高度依赖于宿主的小RNA（microRNA），因此本研究预测了靶向SARS-CoV-2基因组的主要miRNAs和靶向SARS-CoV-2感染者肺部差异表达基因（DEG）的主要miRNAs。所有人成熟miRNA序列均来自miRBase数据库。MiRanda工具用于预测SARS-CoV-2基因组上潜在的人类miRNA结合位点。EdgeR从GEO147507数据中识别了响应SARS-CoV-2感染的差异表达基因（DEG）。使用ToppGene和Metascape工具进行基因集富集分析（GSEA）和DEGs注释分析。在种子区域中鉴定出160个具有完美匹配的miRNAs。其中，有15个miRNAs具有超过3个结合位点，12个miRNAs的自由能结合为− 29 kCal/Mol。miR-29家族在SARS-CoV-2基因组上具有最多的结合位点（11个位点）。MiR-21占据了四个结合位点，是靶向上调DEG的顶级miRNA之一。除miR-21外，miR-16、let-7b、let-7e和miR-146a是靶向DEG的顶级miRNA。因此，需要更多的实验研究，特别是基于miRNA的研究来探索SARS-CoV-2感染的分子机制。此外，DEG包括STAT1，CCND1，CXCL-10和MAPKAPK2在SARS-CoV-2中的作用应进行研究，以确定SARS-CoV-2与其他呼吸道病毒之间的相似性和差异。miR-29家族在SARS-COV-2基因组上有11个结合位点。miR-29 a/B、21、761、3130、3167和miR-3175与刺突编码序列结合。miR-16、146 a、21、615和let-7b/e靶向SARS-CoV-2诱导的DEG。miR-146a、203a、24、615和miR-16靶向的DEG参与病毒过程
Coronavirus disease 2019 (COVID-19) caused by a novel betacoronavirus named severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has attracted top health concerns worldwide within a few months after its appearance. Since viruses are highly dependent on the host small RNAs (microRNAs) for their replication and propagation, in this study, top miRNAs targeting SARS-CoV-2 genome and top miRNAs targeting differentially expressed genes (DEGs) in lungs of patients infected with SARS-CoV-2, were predicted. All human mature miRNA sequences were acquired from miRBase database. MiRanda tool was used to predict the potential human miRNA binding sites on the SARS-CoV-2 genome. EdgeR identified differentially expressed genes (DEGs) in response to SARS-CoV-2 infection from GEO147507 data. Gene Set Enrichment Analysis (GSEA) and DEGs annotation analysis were performed using ToppGene and Metascape tools. 160 miRNAs with a perfect matching in the seed region were identified. Among them, there was 15 miRNAs with more than three binding sites and 12 miRNAs with a free energy binding of −29 kCal/Mol. MiR-29 family had the most binding sites (11 sites) on the SARS-CoV-2 genome. MiR-21 occupied four binding sites and was among the top miRNAs that targeted up-regulated DEGs. In addition to miR-21, miR-16, let-7b, let-7e, and miR-146a were the top miRNAs targeting DEGs. Collectively, more experimental studies especially miRNA-based studies are needed to explore detailed molecular mechanisms of SARS-CoV-2 infection. Moreover, the role of DEGs including STAT1, CCND1, CXCL-10, and MAPKAPK2 in SARS-CoV-2 should be investigated to identify the similarities and differences between SARS-CoV-2 and other respiratory viruses. miR-29 family had 11 binding site on the SARS-COV-2 genome. miR-29a/b, 21, 761, 3130, 3167 and miR-3175 bound to the spike coding sequence. miR-16, 146a, 21, 615 and let-7b/e targeted SARS-CoV-2 induced DEGs. miR-146a, 203a, 24, 615 and miR-16 targeted DEGs involved in viral prosesess
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DOI：
10.4049/jimmunol.0803560
发表时间：
2009-04-15
期刊：
Journal of immunology (Baltimore, Md. : 1950)
影响因子：
--
作者：
Lu TX;Munitz A;Rothenberg ME
通讯作者：
Rothenberg ME
DOI：
10.1099/vir.0.044255-0
发表时间：
2012-11
期刊：
The Journal of general virology
影响因子：
--
作者：
Bakre A;Mitchell P;Coleman JK;Jones LP;Saavedra G;Teng M;Tompkins SM;Tripp RA
通讯作者：
Tripp RA
影响因子：
56.9
作者：
Jopling, CL;Yi, MK;Sarnow, P
通讯作者：
Sarnow, P
影响因子：
8.8
作者：
Gagnon, John D.;Kageyama, Robin;Ansel, K. Mark
通讯作者：
Ansel, K. Mark
影响因子：
14.9
作者：
Chen J;Bardes EE;Aronow BJ;Jegga AG
通讯作者：
Jegga AG