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Identification and host response interaction study of SARS-CoV-2 encoded miRNA-like sequences: an in silico approach.
Roy, Sawrab; Sharma, Binayok; Mazid, Md Ishtiaque; Akhand, Rubaiat Nazneen; Das, Moumita; Marufatuzzahan, Marufatuzzahan; Chowdhury, Tanjia Afrin; Azim, Kazi Faizul; Hasan, Mahmudul.
  • Roy S; Department of Microbiology and Immunology, Sylhet Agricultural University, Sylhet, 3100, Bangladesh. Electronic address: sawrab.sau@gmail.com.
  • Sharma B; Department of Medicine, Sylhet Agricultural University, Sylhet, 3100, Bangladesh. Electronic address: binayoksharma@yahoo.com.
  • Mazid MI; Dhaka Medical College, Dhaka, Bangladesh. Electronic address: ishtiaque.mazid@gmail.com.
  • Akhand RN; Department of Biochemistry and Chemistry, Sylhet Agricultural University, Sylhet, 3100, Bangladesh. Electronic address: rubaiatmna.biochem@sau.ac.bd.
  • Das M; Department of Epidemiology and Public Health, Sylhet Agricultural University, Sylhet, 3100, Bangladesh. Electronic address: moumita.eph@sau.ac.bd.
  • Marufatuzzahan M; Department of Animal and Fish Biotechnology, Sylhet Agricultural University, Sylhet, 3100, Bangladesh. Electronic address: marufa.afb@sau.ac.bd.
  • Chowdhury TA; Department of Microbial Biotechnology, Sylhet Agricultural University, Sylhet, 3100, Bangladesh.
  • Azim KF; Department of Microbial Biotechnology, Sylhet Agricultural University, Sylhet, 3100, Bangladesh. Electronic address: faizulazim22@outlook.com.
  • Hasan M; Department of Pharmaceuticals and Industrial Biotechnology, Sylhet Agricultural University, Sylhet, 3100, Bangladesh. Electronic address: hasan_sust@yahoo.com.
Comput Biol Med ; 134: 104451, 2021 07.
Article in English | MEDLINE | ID: covidwho-1237662
ABSTRACT
COVID-19, a global pandemic caused by an RNA virus named SARS-CoV-2 has brought the world to a standstill in terms of infectivity, casualty, and commercial plummet. RNA viruses can encode microRNAs (miRNAs) capable of modulating host gene expression, and with that notion, we aimed to predict viral miRNA like sequences of MERS-CoV, SARS-CoV and SARS-CoV-2, analyze sequence reciprocity and investigate SARS-CoV-2 encoded potential miRNA-human genes interaction using bioinformatics tools. In this study, we retrieved 206 SARS-CoV-2 genomes, executed phylogenetic analysis, and the selected reference genome (MT434792.1) exhibited about 99% similarities among the retrieved genomes. We predicted 402, 137, and 85 putative miRNAs of MERS-CoV (NC_019843.3), SARS-CoV (NC_004718.3), and SARS-CoV-2 (MT434792.1) genome, respectively. Sequence similarity was analyzed among 624 miRNAs which revealed that the predicted miRNAs of SARS-CoV-2 share a cluster with the clad of miRNAs from MERS-CoV and SARS-CoV. Only SARS-CoV-2 derived 85 miRNAs were encountered for target prediction and 29 viral miRNAs seemed to target 119 human genes. Moreover, Kyoto Encyclopedia of Genes and Genomes (KEGG) and Gene Ontology (GO) analysis suggested the involvement of respective genes in various pathways and biological processes. Finally, we focused on eight putative miRNAs influencing 14 genes that are involved in the adaptive hypoxic response, neuroinvasion and hormonal regulation, and tumorigenic progression in patients with COVID-19. SARS-CoV-2 encoded miRNAs may cause misexpression of some critical regulators and facilitate viral neuroinvasion, altered hormonal axis, and tumorigenic events in the human host. However, these propositions need validation from future studies.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: MicroRNAs / COVID-19 Type of study: Prognostic study / Randomized controlled trials Limits: Humans Language: English Journal: Comput Biol Med Year: 2021 Document Type: Article

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Full text: Available Collection: International databases Database: MEDLINE Main subject: MicroRNAs / COVID-19 Type of study: Prognostic study / Randomized controlled trials Limits: Humans Language: English Journal: Comput Biol Med Year: 2021 Document Type: Article