Computational Analysis of Targeting SARS-CoV-2, Viral Entry Proteins ACE2 and TMPRSS2, and Interferon Genes by Host MicroRNAs

Genes
Jacob B PierceMark W Feinberg

Abstract

Rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the virus responsible for coronavirus disease 2019 (COVID-19), has led to a global pandemic, failures of local health care systems, and global economic recession. MicroRNAs (miRNAs) have recently emerged as important regulators of viral pathogenesis, particularly among RNA viruses, but the impact of host miRNAs on SARS-CoV-2 infectivity remains unknown. In this study, we utilize the combination of powerful bioinformatic prediction algorithms and miRNA profiling to predict endogenous host miRNAs that may play important roles in regulating SARS-CoV-2 infectivity. We provide a collection of high-probability miRNA binding sites within the SARS-CoV-2 genome as well as within mRNA transcripts of critical viral entry proteins ACE2 and TMPRSS2 and their upstream modulators, the interferons (IFN). By utilizing miRNA profiling datasets of SARS-CoV-2-resistant and -susceptible cell lines, we verify the biological plausibility of the predicted miRNA-target RNA interactions. Finally, we utilize miRNA profiling of SARS-CoV-2-infected cells to identify predicted miRNAs that are differentially regulated in infected cells. In particular, we identify predicted miRNA bi...Continue Reading

References

Oct 5, 1990·Journal of Molecular Biology·S F AltschulD J Lipman
Jan 1, 1997·Annual Review of Microbiology·E Domingo, J J Holland
Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
Sep 6, 2005·Science·Catherine L JoplingPeter Sarnow
Sep 17, 2005·Proceedings of the National Academy of Sciences of the United States of America·Amelia CimminoCarlo M Croce
Jun 1, 2006·Nature Genetics·Bryan R Cullen
Jun 15, 2006·Proceedings of the National Academy of Sciences of the United States of America·Thai-Yen LingJohn Yu
Jul 18, 2006·Nucleic Acids Research·Jan Krüger, Marc Rehmsmeier
Dec 17, 2008·Nature Structural & Molecular Biology·Seong-Yeon ParkV Narry Kim
Dec 31, 2009·Hepatology : Official Journal of the American Association for the Study of Liver Diseases·Yujuan XiongShi-Mei Zhuang
Aug 24, 2010·Antiviral Research·Guang-ling ZhangHua Tang
Oct 27, 2010·PLoS Pathogens·Lars DölkenSébastien Pfeffer
Jan 12, 2013·PLoS Pathogens·Rodney P Kincaid, Christopher S Sullivan
Mar 29, 2013·The New England Journal of Medicine·Harry L A JanssenMichael R Hodges
Dec 20, 2013·Nature·Derek W TrobaughWilliam B Klimstra
Jun 28, 2014·Cell Death and Differentiation·Y Pekarsky, C M Croce
Jul 10, 2014·Experimental Hematology & Oncology·Ling XuYangqiu Li
Dec 17, 2014·The Journal of Infection·Weitao WenMengfeng Li
Dec 18, 2014·Genome Biology·Michael I LoveSimon Anders
Mar 5, 2015·Virus Research·Dong Yang, Julian L Leibowitz
Mar 15, 2015·Cell·Joseph M LunaRobert B Darnell
Aug 19, 2015·International Journal of Medical Sciences·Shaobo ZhangWeidong Xie
Feb 28, 2016·Nucleic Acids Research·Nicole LudwigAndreas Keller
Apr 22, 2016·Scientific Reports·Janice DuyTimothy D Minogue
Dec 3, 2016·Nucleic Acids Research·Eneida L HatcherJ Rodney Brister
Dec 19, 2016·Trends in Molecular Medicine·Derek W Trobaugh, William B Klimstra
Feb 22, 2017·Cell Host & Microbe·Lucía MoralesIsabel Sola

❮ Previous
Next ❯

Citations

Jan 31, 2021·Human Genomics·Sally Badawi, Bassam R Ali
Jun 11, 2021·Frontiers in Research Metrics and Analytics·Mengjia WuJie Lu
Jul 28, 2021·Physical Activity and Nutrition·Bok Sil Hong, Myoung-Ryu Kim
Aug 28, 2021·International Journal of Molecular Sciences·Maria Narożna, Błażej Rubiś
Jun 29, 2021·Cell Biology International·Hao YingMaryam Farzaneh

❮ Previous
Next ❯

Datasets Mentioned

BETA
MN908947.3

Methods Mentioned

BETA
RNAseq
RNA-seq
antisense oligonucleotide

Software Mentioned

BLAST
STATA
R
miRMap
MicroT4
DESeq2
miRDB
miRWalk
RNAhybrid
MUltiple Sequence Comparison by Log - Expectation ( MUSCLE )

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.