G-quadruplexes in the Archaea Domain

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dc.contributor.authorBrázda, Václavcs
dc.contributor.authorLuo, Yucs
dc.contributor.authorBartas, Martincs
dc.contributor.authorKaura, Patrikcs
dc.contributor.authorPorubiaková, Otíliacs
dc.contributor.authorŠťastný, Jiřícs
dc.contributor.authorPečinka, Petrcs
dc.contributor.authorVerga, Danielacs
dc.contributor.authorDa Cunha, Violettecs
dc.contributor.authorS. Takahashi, Tomiocs
dc.contributor.authorForterre, Patrickcs
dc.contributor.authorMyllykallio, Hannucs
dc.contributor.authorFojta, Miroslavcs
dc.contributor.authorMergny, Jean-Louiscs
dc.coverage.issue9cs
dc.coverage.volume10cs
dc.date.issued2020-09-21cs
dc.description.abstractThe importance of unusual DNA structures in the regulation of basic cellular processes is an emerging field of research. Amongst local non-B DNA structures, G-quadruplexes (G4s) have gained in popularity during the last decade, and their presence and functional relevance at the DNA and RNA level has been demonstrated in a number of viral, bacterial and eukaryotic genomes, including humans. Here, we performed the first systematic search of G4-forming sequences in all archaeal genomes available in the NCBI database. We investigated the presence and locations of G-quadruplex forming sequences using the G4Hunter algorithm. G-quadruplex prone sequences were identified in all archaeal species, with highly significant differences in frequency, from 0.037 to 15.31 potential quadruplex sequences per kb. While G4 forming sequences were extremely abundant in Hadesarchaea archeon (strikingly, more than 50% of the Hadesarchaea archaeon isolate WYZ-LMO6 genome is potential part of a G4-motif), they were very rare in the Parvarchaeota phylum. The presence of G-quadruplex forming sequences does not follow a random distribution with an over-representation in non-coding RNA, suggesting possible roles for ncRNA regulation. These data illustrate the unique and non-random localization of G-quadruplexes in Archaea.en
dc.formattextcs
dc.format.extent1-23cs
dc.format.mimetypeapplication/pdfcs
dc.identifier.citationBiomolecules. 2020, vol. 10, issue 9, p. 1-23.en
dc.identifier.doi10.3390/biom10091349cs
dc.identifier.issn2218-273Xcs
dc.identifier.orcid0000-0003-2837-4226cs
dc.identifier.orcid0000-0003-0608-1035cs
dc.identifier.orcid0000-0001-9940-0941cs
dc.identifier.orcid0000-0003-3724-6357cs
dc.identifier.other165313cs
dc.identifier.researcheridF-9582-2011cs
dc.identifier.researcheridCAG-1899-2022cs
dc.identifier.researcheridF-8025-2012cs
dc.identifier.scopus57208741574cs
dc.identifier.scopus57191582635cs
dc.identifier.urihttp://hdl.handle.net/11012/195682
dc.language.isoencs
dc.publisherMDPIcs
dc.relation.ispartofBiomoleculescs
dc.relation.urihttps://www.mdpi.com/2218-273X/10/9/1349cs
dc.rightsCreative Commons Attribution 4.0 Internationalcs
dc.rights.accessopenAccesscs
dc.rights.sherpahttp://www.sherpa.ac.uk/romeo/issn/2218-273X/cs
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/cs
dc.subjectG4-forming motifen
dc.subjectgenome analysisen
dc.subjectArchaeaen
dc.subjectunusual nucleic acid structuresen
dc.subjectsequence prediction.en
dc.titleG-quadruplexes in the Archaea Domainen
dc.type.driverarticleen
dc.type.statusPeer-revieweden
dc.type.versionpublishedVersionen
sync.item.dbidVAV-165313en
sync.item.dbtypeVAVen
sync.item.insts2025.02.03 15:38:36en
sync.item.modts2025.01.17 16:52:25en
thesis.grantorVysoké učení technické v Brně. Fakulta chemická. Ústav chemie potravin a biotechnologiícs
thesis.grantorVysoké učení technické v Brně. Fakulta strojního inženýrství. Ústav automatizace a informatikycs
thesis.grantorVysoké učení technické v Brně. . Akademie věd ČRcs
thesis.grantorVysoké učení technické v Brně. . Ostravská univerzita v Ostravěcs
thesis.grantorVysoké učení technické v Brně. . Mendelova univerzita v Brněcs
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