Literature DB >> 32313204

The regulation and functions of DNA and RNA G-quadruplexes.

Dhaval Varshney1, Jochen Spiegel1, Katherine Zyner1, David Tannahill1, Shankar Balasubramanian2,3,4.   

Abstract

DNA and RNA can adopt various secondary structures. Four-stranded G-quadruplex (G4) structures form through self-recognition of guanines into stacked tetrads, and considerable biophysical and structural evidence exists for G4 formation in vitro. Computational studies and sequencing methods have revealed the prevalence of G4 sequence motifs at gene regulatory regions in various genomes, including in humans. Experiments using chemical, molecular and cell biology methods have demonstrated that G4s exist in chromatin DNA and in RNA, and have linked G4 formation with key biological processes ranging from transcription and translation to genome instability and cancer. In this Review, we first discuss the identification of G4s and evidence for their formation in cells using chemical biology, imaging and genomic technologies. We then discuss possible functions of DNA G4s and their interacting proteins, particularly in transcription, telomere biology and genome instability. Roles of RNA G4s in RNA biology, especially in translation, are also discussed. Furthermore, we consider the emerging relationships of G4s with chromatin and with RNA modifications. Finally, we discuss the connection between G4 formation and synthetic lethality in cancer cells, and recent progress towards considering G4s as therapeutic targets in human diseases.

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Year:  2020        PMID: 32313204      PMCID: PMC7115845          DOI: 10.1038/s41580-020-0236-x

Source DB:  PubMed          Journal:  Nat Rev Mol Cell Biol        ISSN: 1471-0072            Impact factor:   94.444


  205 in total

1.  Helix formation by guanylic acid.

Authors:  M GELLERT; M N LIPSETT; D R DAVIES
Journal:  Proc Natl Acad Sci U S A       Date:  1962-12-15       Impact factor: 11.205

2.  Quadruplex Nucleic Acids as Novel Therapeutic Targets.

Authors:  Stephen Neidle
Journal:  J Med Chem       Date:  2016-02-16       Impact factor: 7.446

Review 3.  G4-associated human diseases.

Authors:  Nancy Maizels
Journal:  EMBO Rep       Date:  2015-07-06       Impact factor: 8.807

Review 4.  G-Quadruplexes: Prediction, Characterization, and Biological Application.

Authors:  Chun Kit Kwok; Catherine J Merrick
Journal:  Trends Biotechnol       Date:  2017-07-26       Impact factor: 19.536

Review 5.  Stability and kinetics of G-quadruplex structures.

Authors:  Andrew N Lane; J Brad Chaires; Robert D Gray; John O Trent
Journal:  Nucleic Acids Res       Date:  2008-08-21       Impact factor: 16.971

6.  Formation of parallel four-stranded complexes by guanine-rich motifs in DNA and its implications for meiosis.

Authors:  D Sen; W Gilbert
Journal:  Nature       Date:  1988-07-28       Impact factor: 49.962

7.  Highly prevalent putative quadruplex sequence motifs in human DNA.

Authors:  Alan K Todd; Matthew Johnston; Stephen Neidle
Journal:  Nucleic Acids Res       Date:  2005-05-24       Impact factor: 16.971

8.  Prevalence of quadruplexes in the human genome.

Authors:  Julian L Huppert; Shankar Balasubramanian
Journal:  Nucleic Acids Res       Date:  2005-05-24       Impact factor: 16.971

9.  G-quadruplexes in promoters throughout the human genome.

Authors:  Julian L Huppert; Shankar Balasubramanian
Journal:  Nucleic Acids Res       Date:  2006-12-14       Impact factor: 16.971

Review 10.  Quadruplex DNA: sequence, topology and structure.

Authors:  Sarah Burge; Gary N Parkinson; Pascale Hazel; Alan K Todd; Stephen Neidle
Journal:  Nucleic Acids Res       Date:  2006-09-29       Impact factor: 16.971

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  142 in total

Review 1.  The roles of histone variants in fine-tuning chromatin organization and function.

Authors:  Sara Martire; Laura A Banaszynski
Journal:  Nat Rev Mol Cell Biol       Date:  2020-07-14       Impact factor: 94.444

2.  Dysfunction of AMPA receptor GluA3 is associated with aggressive behavior in human.

Authors:  Shi-Xiao Peng; Jingwen Pei; Berardo Rinaldi; Jiang Chen; Yu-Han Ge; Min Jia; Jun Wang; Andrée Delahaye-Duriez; Jia-Hui Sun; Yan-Yu Zang; Yong-Yun Shi; Ning Zhang; Xiang Gao; Donatella Milani; Xijia Xu; Nengyin Sheng; Benedicte Gerard; Chen Zhang; Allan Bayat; Na Liu; Jian-Jun Yang; Yun Stone Shi
Journal:  Mol Psychiatry       Date:  2022-06-13       Impact factor: 15.992

Review 3.  Development of RNA G-quadruplex (rG4)-targeting L-RNA aptamers by rG4-SELEX.

Authors:  Mubarak I Umar; Chun-Yin Chan; Chun Kit Kwok
Journal:  Nat Protoc       Date:  2022-04-20       Impact factor: 13.491

Review 4.  Small molecule targeting of biologically relevant RNA tertiary and quaternary structures.

Authors:  Martina Zafferani; Amanda E Hargrove
Journal:  Cell Chem Biol       Date:  2021-04-05       Impact factor: 8.116

Review 5.  The DHX36-specific-motif (DSM) enhances specificity by accelerating recruitment of DNA G-quadruplex structures.

Authors:  Bruce Chang-Gu; Devin Bradburn; Philip M Yangyuoru; Rick Russell
Journal:  Biol Chem       Date:  2020-12-16       Impact factor: 3.915

6.  Rational design of guiding elements to control folding topology in i-motifs with multiple quadruplexes.

Authors:  Alexander S Minasyan; Srinivas Chakravarthy; Suchitra Vardelly; Mark Joseph; Evgueni E Nesterov; Irina V Nesterova
Journal:  Nanoscale       Date:  2021-05-20       Impact factor: 7.790

7.  Non-duplex G-Quadruplex DNA Structure: A Developing Story from Predicted Sequences to DNA Structure-Dependent Epigenetics and Beyond.

Authors:  Antara Sengupta; Shuvra Shekhar Roy; Shantanu Chowdhury
Journal:  Acc Chem Res       Date:  2020-12-21       Impact factor: 22.384

8.  Asymmetrically Substituted Quadruplex-Binding Naphthalene Diimide Showing Potent Activity in Pancreatic Cancer Models.

Authors:  Ahmed A Ahmed; Richard Angell; Sally Oxenford; Jenny Worthington; Nicole Williams; Naomi Barton; Thomas G Fowler; Daniel E O'Flynn; Mihiro Sunose; Matthew McConville; Tam Vo; W David Wilson; Saadia A Karim; Jennifer P Morton; Stephen Neidle
Journal:  ACS Med Chem Lett       Date:  2020-07-16       Impact factor: 4.345

9.  Towards Profiling of the G-Quadruplex Targeting Drugs in the Living Human Cells Using NMR Spectroscopy.

Authors:  Daniel Krafčík; Eva Ištvánková; Šimon Džatko; Pavlína Víšková; Silvie Foldynová-Trantírková; Lukáš Trantírek
Journal:  Int J Mol Sci       Date:  2021-06-03       Impact factor: 5.923

Review 10.  One ring to bring them all and in the darkness bind them: The trafficking of heme without deliverers.

Authors:  Ian G Chambers; Mathilda M Willoughby; Iqbal Hamza; Amit R Reddi
Journal:  Biochim Biophys Acta Mol Cell Res       Date:  2020-10-03       Impact factor: 4.739

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