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Article

In Silico Study of piRNA Interactions with the SARS-CoV-2 Genome

1
Higher School of Medicine, Faculty of Medicine and Healthcare, Al-Farabi Kazakh National University, Almaty 050040, Kazakhstan
2
Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty 050040, Kazakhstan
3
Center for Bioinformatics and Nanomedicine, Almaty 050060, Kazakhstan
4
Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland
5
Department of Population Health and Social Sciences, Kazakhstan’s Medical University “KSPH”, Almaty 050060, Kazakhstan
*
Author to whom correspondence should be addressed.
Academic Editor: Mikhail P. Ponomarenko
Int. J. Mol. Sci. 2022, 23(17), 9919; https://doi.org/10.3390/ijms23179919
Received: 4 August 2022 / Revised: 27 August 2022 / Accepted: 28 August 2022 / Published: 31 August 2022
(This article belongs to the Special Issue Developmental Biology: Computational and Experimental Approaches)
A prolonged pandemic with numerous human casualties requires a rapid search for means to control the various strains of SARS-CoV-2. Since only part of the human population is affected by coronaviruses, there are probably endogenous compounds preventing the spread of these viral pathogens. It has been shown that piRNA (PIWI-interacting RNAs) interact with the mRNA of human genes and can block protein synthesis at the stage of translation. Estimated the effects of piRNA on SARS-CoV-2 genomic RNA (gRNA) in silico. A cluster of 13 piRNA binding sites (BS) in the SARS-CoV-2 gRNA region encoding the oligopeptide was identified. The second cluster of BSs 39 piRNAs also encodes the oligopeptide. The third cluster of 24 piRNA BS encodes the oligopeptide. Twelve piRNAs were identified that strongly interact with the gRNA. Based on the identified functionally important endogenous piRNAs, synthetic piRNAs (spiRNAs) are proposed that will suppress the multiplication of the coronavirus even more strongly. These spiRNAs and selected endogenous piRNAs have little effect on human 17494 protein-coding genes, indicating a low probability of side effects. The piRNA and spiRNA selection methodology created for the control of SARS-CoV-2 (NC_045512.2) can be used to control all strains of SARS-CoV-2. View Full-Text
Keywords: SARS-CoV-2; COVID-19; coronavirus genome; piRNA; miRNA; drug target SARS-CoV-2; COVID-19; coronavirus genome; piRNA; miRNA; drug target
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MDPI and ACS Style

Akimniyazova, A.; Yurikova, O.; Pyrkova, A.; Rakhmetullina, A.; Niyazova, T.; Ryskulova, A.-G.; Ivashchenko, A. In Silico Study of piRNA Interactions with the SARS-CoV-2 Genome. Int. J. Mol. Sci. 2022, 23, 9919. https://doi.org/10.3390/ijms23179919

AMA Style

Akimniyazova A, Yurikova O, Pyrkova A, Rakhmetullina A, Niyazova T, Ryskulova A-G, Ivashchenko A. In Silico Study of piRNA Interactions with the SARS-CoV-2 Genome. International Journal of Molecular Sciences. 2022; 23(17):9919. https://doi.org/10.3390/ijms23179919

Chicago/Turabian Style

Akimniyazova, Aigul, Oxana Yurikova, Anna Pyrkova, Aizhan Rakhmetullina, Togzhan Niyazova, Alma-Gul Ryskulova, and Anatoliy Ivashchenko. 2022. "In Silico Study of piRNA Interactions with the SARS-CoV-2 Genome" International Journal of Molecular Sciences 23, no. 17: 9919. https://doi.org/10.3390/ijms23179919

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