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Communication

G-Quadruplex in Gene Encoding Large Subunit of Plant RNA Polymerase II: A Billion-Year-Old Story

1
Department of Physics, Faculty of Science, University of Ostrava, 710 00 Ostrava, Czech Republic
2
Department of Biology and Ecology, Institute of Environmental Technologies, Faculty of Science, University of Ostrava, 710 00 Ostrava, Czech Republic
3
Global Change Research Institute, Czech Academy of Sciences, Bělidla 4a, 603 00 Brno, Czech Republic
*
Authors to whom correspondence should be addressed.
Academic Editor: Laurence Lins
Int. J. Mol. Sci. 2021, 22(14), 7381; https://doi.org/10.3390/ijms22147381
Received: 28 May 2021 / Revised: 24 June 2021 / Accepted: 5 July 2021 / Published: 9 July 2021
(This article belongs to the Special Issue Impacts of Molecular Structure on Nucleic Acid–Protein Interactions)
G-quadruplexes have long been perceived as rare and physiologically unimportant nucleic acid structures. However, several studies have revealed their importance in molecular processes, suggesting their possible role in replication and gene expression regulation. Pathways involving G-quadruplexes are intensively studied, especially in the context of human diseases, while their involvement in gene expression regulation in plants remains largely unexplored. Here, we conducted a bioinformatic study and performed a complex circular dichroism measurement to identify a stable G-quadruplex in the gene RPB1, coding for the RNA polymerase II large subunit. We found that this G-quadruplex-forming locus is highly evolutionarily conserved amongst plants sensu lato (Archaeplastida) that share a common ancestor more than one billion years old. Finally, we discussed a new hypothesis regarding G-quadruplexes interacting with UV light in plants to potentially form an additional layer of the regulatory network.
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Keywords: evolution; plant science; nucleic acids; circular dichroism; UV light evolution; plant science; nucleic acids; circular dichroism; UV light
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  • Externally hosted supplementary file 1
    Doi: 10.5281/zenodo.4973514
    Link: https://zenodo.org/record/4973514#.YMtNZqj7RPY
    Description: Supplementary material S1: Analyzed RPB1 sequences in 40 plant species together with detailed characteristics and G4s prediction using four different computational approaches. Supplementary material S2: G4 locus is the most conserved within RPB1 gene Supplementary material S3: Multiple alignment of G4 locus in RPB1 paralogs (Arabidopsis thaliana) Supplementary material S4: Modelled 3D structure of G4 from Bathycoccus prasinos Supplementary material S5: Gel electrophoresis and ThT staining of the selected G4-forming se-quences Supplementary material S6: All analyzed RPB1 sequences in FASTA format Supplementary material S7: Aligned RPB1 sequences in FASTA format Supplementary material S8: RPB1 paralogs in Arabidopsis thaliana Supplementary material S9: Spectral composition of light used in the UV experiment. Analysis of emitted light was performed by Ocean Optics (HR4000CG-UV-NIR, USA) device. Supplementary material S10: Differential CD spectra - comparison without and with previous UV treatment
MDPI and ACS Style

Volná, A.; Bartas, M.; Karlický, V.; Nezval, J.; Kundrátová, K.; Pečinka, P.; Špunda, V.; Červeň, J. G-Quadruplex in Gene Encoding Large Subunit of Plant RNA Polymerase II: A Billion-Year-Old Story. Int. J. Mol. Sci. 2021, 22, 7381. https://doi.org/10.3390/ijms22147381

AMA Style

Volná A, Bartas M, Karlický V, Nezval J, Kundrátová K, Pečinka P, Špunda V, Červeň J. G-Quadruplex in Gene Encoding Large Subunit of Plant RNA Polymerase II: A Billion-Year-Old Story. International Journal of Molecular Sciences. 2021; 22(14):7381. https://doi.org/10.3390/ijms22147381

Chicago/Turabian Style

Volná, Adriana, Martin Bartas, Václav Karlický, Jakub Nezval, Kristýna Kundrátová, Petr Pečinka, Vladimír Špunda, and Jiří Červeň. 2021. "G-Quadruplex in Gene Encoding Large Subunit of Plant RNA Polymerase II: A Billion-Year-Old Story" International Journal of Molecular Sciences 22, no. 14: 7381. https://doi.org/10.3390/ijms22147381

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