G-Quadruplexes in the Archaea Domain

Biomolecules

Jiří Šťastný¹  Patrik Kaura¹  Martin Bartas²  Petr Pečinka²  Violette Da Cunha³  TomioS. Takahashi³  Patrick Forterre³  Otilia Porubiaková⁴  Miroslav Fojta⁴  Václav Brázda⁴  Jean-Louis Mergny⁴  Hannu Myllykallio⁵  Daniela Verga⁶  Yu Luo⁶ 

[1] Brno University of Technology, Faculty of Mechanical Engineering, Technicka 2896/2, 616 69 Brno, Czech Republic;Department of Biology and Ecology/Institute of Environmental Technologies, Faculty of Science, University of Ostrava,710 00 Ostrava, Czech Republic;Institut de Biologie Intégrative de la Cellule (I2BC), CNRS, Université Paris-Saclay, 91198 Gif-sur-Yvette Cedex, France;Institute of Biophysics of the Czech Academy of Sciences, Královopolská 135, 612 65 Brno, Czech Republic;Laboratoire d’Optique et Biosciences, Ecole Polytechnique, CNRS, INSERM, Institut Polytechnique de Paris, 91128 Palaiseau, France;Universite Paris Saclay, CNRS UMR9187, INSERM U1196, Institut Curie, 91400 Orsay, France;

关键词: G4-forming motif;    genome analysis;    Archaea;    unusual nucleic acid structures;    sequence prediction;   

DOI  :  10.3390/biom10091349

来源: DOAJ

【 摘 要 】

The 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. In this article, we investigate 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 a 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.

【 授权许可】

Unknown