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SARS-CoV-2 hot-spot mutations are significantly enriched within inverted repeats and CpG island loci
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SYSNO ASEP 0555382 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title SARS-CoV-2 hot-spot mutations are significantly enriched within inverted repeats and CpG island loci Author(s) Goswami, Pratik (BFU-R)
Bartas, M. (CZ)
Lexa, M. (CZ)
Bohalova, Natalia (BFU-R) ORCID
Volna, A. (CZ)
Cerven, J. (CZ)
Cervenova, V. (CZ)
Pečinka, P. (CZ)
Špunda, Vladimír (UEK-B) ORCID, SAI, RID
Fojta, Miroslav (BFU-R) RID, ORCID
Brázda, Václav (BFU-R) RID, ORCIDNumber of authors 11 Source Title Briefings in Bioinformatics. - : Oxford University Press - ISSN 1467-5463
Roč. 22, č. 2 (2021), s. 1338-1345Number of pages 8 s. Publication form Print - P Language eng - English Country GB - United Kingdom Keywords dna ; rna ; methylation ; genotype ; protein ; search Subject RIV CE - Biochemistry OECD category Biochemistry and molecular biology Subject RIV - cooperation Global Change Research Institute R&D Projects GA18-15548S GA ČR - Czech Science Foundation (CSF) EF15_003/0000477 GA MŠMT - Ministry of Education, Youth and Sports (MEYS) Method of publishing Open access Institutional support BFU-R - RVO:68081707 UT WOS 000642298000058 EID SCOPUS 85103474633 DOI 10.1093/bib/bbaa385 Annotation SARS-CoV-2 is an intensively investigated virus from the order Nidovirales (Coronaviridae family) that causes COVID-19 disease in humans. Through enormous scientific effort, thousands of viral strains have been sequenced to date, thereby creating a strong background for deep bioinformatics studies of the SARS-CoV-2 genome. In this study, we inspected high-frequency mutations of SARS-CoV-2 and carried out systematic analyses of their overlay with inverted repeat (IR) loci and CpG islands. The main conclusion of our study is that SARS-CoV-2 hot-spot mutations are significantly enriched within both IRs and CpG island loci. This points to their role in genomic instability and may predict further mutational drive of the SARS-CoV-2 genome. Moreover, CpG islands are strongly enriched upstream from viral ORFs and thus could play important roles in transcription and the viral life cycle. We hypothesize that hypermethylation of these loci will decrease the transcription of viral ORFs and could therefore limit the progression of the disease. Workplace Institute of Biophysics Contact Jana Poláková, polakova@ibp.cz, Tel.: 541 517 244 Year of Publishing 2022 Electronic address https://academic.oup.com/bib/article/22/2/1338/6042389
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