Publication detail

G-quadruplexes in the Archaea Domain

BRÁZDA, V. LUO, Y. BARTAS, M. KAURA, P. PORUBIAKOVÁ, O. ŠŤASTNÝ, J. PEČINKA, P. VERGA, D. DA CUNHA, V. S. TAKAHASHI, T. FORTERRE, P. MYLLYKALLIO, H. FOJTA, M. MERGNY, J.

Original Title

G-quadruplexes in the Archaea Domain

Type

journal article in Web of Science

Language

English

Original Abstract

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. 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.

Keywords

G4-forming motif; genome analysis; Archaea; unusual nucleic acid structures; sequence prediction.

Authors

BRÁZDA, V.; LUO, Y.; BARTAS, M.; KAURA, P.; PORUBIAKOVÁ, O.; ŠŤASTNÝ, J.; PEČINKA, P.; VERGA, D.; DA CUNHA, V.; S. TAKAHASHI, T.; FORTERRE, P.; MYLLYKALLIO, H.; FOJTA, M.; MERGNY, J.

Released

21. 9. 2020

Publisher

MDPI

Location

Switzerland

ISBN

2218-273X

Periodical

Biomolecules

Year of study

10

Number

9

State

Swiss Confederation

Pages from

1

Pages to

23

Pages count

23

URL

https://www.mdpi.com/2218-273X/10/9/1349

Full text in the Digital Library

http://hdl.handle.net/11012/195682

BibTex

@article{BUT165313,
  author="Václav {Brázda} and Yu {Luo} and Martin {Bartas} and Patrik {Kaura} and Otília {Porubiaková} and Jiří {Šťastný} and Petr {Pečinka} and Daniela {Verga} and Violette {Da Cunha} and Tomio {S. Takahashi} and Patrick {Forterre} and Hannu {Myllykallio} and Miroslav {Fojta} and Jean-Louis {Mergny}",
  title="G-quadruplexes in the Archaea Domain",
  journal="Biomolecules",
  year="2020",
  volume="10",
  number="9",
  pages="1--23",
  doi="10.3390/biom10091349",
  issn="2218-273X",
  url="https://www.mdpi.com/2218-273X/10/9/1349"
}