Human Papillomavirus G-Quadruplexes

Tlučková, Katarína; Marušič, Maja; Tóthová, Petra; Bauer, Ľuboš; Šket, Primož; Plavec, Janez; Víglaský, Viktor

doi:10.1021/bi400897g

Cited by 97 publications

(96 citation statements)

References 37 publications

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“…[137,139,141]. G-quadruplex structures were recognized, for example, in the Epstein-Barr virus-encoded nuclear antigen 1 (EBNA1) mRNA [142], as well as in all the known human papillomaviruses [143]. Moreover, G-quadruplex was also reported recently in the U3 region of the HIV-1 virus [144].…”

Section: Role Of Quadruplexes In Aging and Diseasesmentioning

confidence: 99%

DNA and RNA Quadruplex-Binding Proteins

Brázda

Hároníková

Liao

et al. 2014

IJMS

225

195

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Four-stranded DNA structures were structurally characterized in vitro by NMR, X-ray and Circular Dichroism spectroscopy in detail. Among the different types of quadruplexes (i-Motifs, minor groove quadruplexes, G-quadruplexes, etc.), the best described are G-quadruplexes which are featured by Hoogsteen base-paring. Sequences with the potential to form quadruplexes are widely present in genome of all organisms. They are found often in repetitive sequences such as telomeric ones, and also in promoter regions and 5' non-coding sequences. Recently, many proteins with binding affinity to G-quadruplexes have been identified. One of the initially portrayed G-rich regions, the human telomeric sequence (TTAGGG)n, is recognized by many proteins which can modulate telomerase activity. Sequences with the potential to form G-quadruplexes are often located in promoter regions of various oncogenes. The NHE III1 region of the c-MYC promoter has been shown to interact with nucleolin protein as well as other G-quadruplex-binding proteins. A number of G-rich sequences are also present in promoter region of estrogen receptor alpha. In addition to DNA quadruplexes, RNA quadruplexes, which are critical in translational regulation, have also been predicted and observed. For example, the RNA quadruplex formation in telomere-repeat-containing RNA is involved in interaction with TRF2 (telomere repeat binding factor 2) and plays key role in telomere regulation. All these fundamental examples suggest the importance of quadruplex structures in cell processes and their understanding may provide better insight into aging and disease development.

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Section: Role Of Quadruplexes In Aging and Diseasesmentioning

confidence: 99%

DNA and RNA Quadruplex-Binding Proteins

Brázda

Hároníková

Liao

et al. 2014

IJMS

225

195

View full text Add to dashboard Cite

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“…[12] Since s27 contains five G-rich tracts and has as such high potential to form Gquadruplex structures,itwas cut into two shorter oligonucleotides named s23 and s22, which comprise the first to the fourth and the second to the fifth G-tract, respectively ( Figure 1A). Thes equence-reversed oligonucleotides r27, r23, and r22 were also prepared.…”

Section: G-quadruplexes Are Four-stranded Dnas Tructures Thatmentioning

confidence: 99%

The Effect of DNA Sequence Directionality on G‐Quadruplex Folding

Marušič

Plavec

2015

Angew Chem Int Ed

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Sequence inversion in G-rich DNA from 5'→3' to 3'→5' exerts a substantial effect on the number of structures formed, while the type of G-quadruplex fold is in fact determined by the presence of K(+) or Na(+) ions. The melting temperatures of G-quadruplexes adopted by oligonucleotides with sequences in the 5'→3' direction are higher than those of their 3'→5' counterparts with both KCl and NaCl. CD, UV, and NMR spectroscopy demonstrates the importance of primary sequence for the structural diversity of G-quadruplexes. The changes introduced by mere sequence reversal of the G-rich DNA segment have a substantial impact on the polymorphic nature of the resulting G-quadruplexes and their potential physiological roles. The insights resulting from this study should enable extension of the empirical rules for the prediction of G-quadruplex topology.

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“…Studies on G-quadruplexes in virus genomes are limited. A few studies show functional roles of selected RNA or DNA G-quadruplex motifs present in the virus genome in vitro [13–17] or describe the genomic location of G-quadruplexes in virus genomes [18]. …”

Section: Introductionmentioning

confidence: 99%

Genome-wide analysis of G-quadruplexes in herpesvirus genomes

et al. 2016

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Background: G-quadruplexes are increasingly recognized as regulatory elements in human, animal, bacterial and plant genomes. The presence and function of G-quadruplexes are not well studied among herpesviruses; in particular, there are no systematic genome-wide analysis of these important secondary structures in herpesvirus genomes.Results: We performed genome-wide analysis of putative quadruplex sequences (PQS) in human herpesviruses. We found unusually high PQS densities among human herpesviruses. PQS are enriched in the repeat regions and regulatory regions of human herpesviruses. Interestingly, PQS densities are higher in regulatory regions of immediate early genes compared to early and late genes in most herpesviruses. In addition, the majority of genes functionally conserved across human herpesviruses contain one or more PQS within the regulatory regions. We also describe the existence of unique intramolecular PQS repeats or repetitive G-quadruplex motifs in herpesviruses. Functional studies confirm a role for G-quadruplexes in regulating the gene expression of human herpesviruses. Conclusion: The pervasiveness of PQS, their enrichment and conservation at specific genomic locations suggest that these structural entities may represent a novel class of functional elements in herpesviruses. Our findings provide the necessary framework for studies on the biological role of G-quadruplexes in herpesviruses.

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Human Papillomavirus G-Quadruplexes

Cited by 97 publications

References 37 publications

DNA and RNA Quadruplex-Binding Proteins

DNA and RNA Quadruplex-Binding Proteins

The Effect of DNA Sequence Directionality on G‐Quadruplex Folding

Genome-wide analysis of G-quadruplexes in herpesvirus genomes

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