Literature DB >> 30527765

Non-duplex G-Quadruplex Structures Emerge as Mediators of Epigenetic Modifications.

Ananda Kishore Mukherjee1, Shalu Sharma1, Shantanu Chowdhury2.   

Abstract

The role of non-duplex DNA, the guanine-quadruplex structure in particular, is becoming widely appreciated. Increasing evidence in the last decade implicates quadruplexes in important processes such as transcription and replication. Interestingly, more recent work suggests roles for quadruplexes, in association with quadruplex-interacting proteins, in epigenetics through both DNA and histone modifications. Here, we review the effect of the quadruplex structure on post-replication epigenetic memory and quadruplex-induced promoter DNA/histone modifications. Furthermore, we highlight the epigenetic state of the telomerase promoter where quadruplexes could play a key regulatory role. Finally, we discuss the possibility that DNA structures such as quadruplexes, within a largely duplex DNA background, could act as molecular anchors for locally induced epigenetic modifications.
Copyright © 2018 The Authors. Published by Elsevier Ltd.. All rights reserved.

Entities:  

Keywords:  epigenetic modifications; guanine-quadruplex structure; non-duplex DNA

Mesh:

Substances:

Year:  2018        PMID: 30527765      PMCID: PMC6387618          DOI: 10.1016/j.tig.2018.11.001

Source DB:  PubMed          Journal:  Trends Genet        ISSN: 0168-9525            Impact factor:   11.639


  137 in total

1.  An intramolecular G-quadruplex structure with mixed parallel/antiparallel G-strands formed in the human BCL-2 promoter region in solution.

Authors:  Jixun Dai; Thomas S Dexheimer; Ding Chen; Megan Carver; Attila Ambrus; Roger A Jones; Danzhou Yang
Journal:  J Am Chem Soc       Date:  2006-02-01       Impact factor: 15.419

2.  Stabilization of G-quadruplex DNA by C-5-methyl-cytosine in bcl-2 promoter: implications for epigenetic regulation.

Authors:  Jing Lin; Jin-qiang Hou; Han-dan Xiang; Yi-yong Yan; Yu-chao Gu; Jia-heng Tan; Ding Li; Lian-quan Gu; Tian-miao Ou; Zhi-shu Huang
Journal:  Biochem Biophys Res Commun       Date:  2012-12-19       Impact factor: 3.575

3.  Permanganate/S1 Nuclease Footprinting Reveals Non-B DNA Structures with Regulatory Potential across a Mammalian Genome.

Authors:  Fedor Kouzine; Damian Wojtowicz; Laura Baranello; Arito Yamane; Steevenson Nelson; Wolfgang Resch; Kyong-Rim Kieffer-Kwon; Craig J Benham; Rafael Casellas; Teresa M Przytycka; David Levens
Journal:  Cell Syst       Date:  2017-02-22       Impact factor: 10.304

4.  Highly recurrent TERT promoter mutations in human melanoma.

Authors:  Franklin W Huang; Eran Hodis; Mary Jue Xu; Gregory V Kryukov; Lynda Chin; Levi A Garraway
Journal:  Science       Date:  2013-01-24       Impact factor: 47.728

5.  A hexanucleotide repeat expansion in C9ORF72 is the cause of chromosome 9p21-linked ALS-FTD.

Authors:  Alan E Renton; Elisa Majounie; Adrian Waite; Javier Simón-Sánchez; Sara Rollinson; J Raphael Gibbs; Jennifer C Schymick; Hannu Laaksovirta; John C van Swieten; Liisa Myllykangas; Hannu Kalimo; Anders Paetau; Yevgeniya Abramzon; Anne M Remes; Alice Kaganovich; Sonja W Scholz; Jamie Duckworth; Jinhui Ding; Daniel W Harmer; Dena G Hernandez; Janel O Johnson; Kin Mok; Mina Ryten; Danyah Trabzuni; Rita J Guerreiro; Richard W Orrell; James Neal; Alex Murray; Justin Pearson; Iris E Jansen; David Sondervan; Harro Seelaar; Derek Blake; Kate Young; Nicola Halliwell; Janis Bennion Callister; Greg Toulson; Anna Richardson; Alex Gerhard; Julie Snowden; David Mann; David Neary; Michael A Nalls; Terhi Peuralinna; Lilja Jansson; Veli-Matti Isoviita; Anna-Lotta Kaivorinne; Maarit Hölttä-Vuori; Elina Ikonen; Raimo Sulkava; Michael Benatar; Joanne Wuu; Adriano Chiò; Gabriella Restagno; Giuseppe Borghero; Mario Sabatelli; David Heckerman; Ekaterina Rogaeva; Lorne Zinman; Jeffrey D Rothstein; Michael Sendtner; Carsten Drepper; Evan E Eichler; Can Alkan; Ziedulla Abdullaev; Svetlana D Pack; Amalia Dutra; Evgenia Pak; John Hardy; Andrew Singleton; Nigel M Williams; Peter Heutink; Stuart Pickering-Brown; Huw R Morris; Pentti J Tienari; Bryan J Traynor
Journal:  Neuron       Date:  2011-09-21       Impact factor: 17.173

6.  A non-canonical DNA structure is a binding motif for the transcription factor SP1 in vitro.

Authors:  Eun-Ang Raiber; Ramon Kranaster; Enid Lam; Mehran Nikan; Shankar Balasubramanian
Journal:  Nucleic Acids Res       Date:  2011-10-22       Impact factor: 16.971

7.  Telomere length-dependent transcription and epigenetic modifications in promoters remote from telomere ends.

Authors:  Ananda Kishore Mukherjee; Shalu Sharma; Suman Sengupta; Dhurjhoti Saha; Pankaj Kumar; Tabish Hussain; Vivek Srivastava; Sumitabho Deb Roy; Jerry W Shay; Shantanu Chowdhury
Journal:  PLoS Genet       Date:  2018-11-15       Impact factor: 5.917

8.  Metastases suppressor NM23-H2 interaction with G-quadruplex DNA within c-MYC promoter nuclease hypersensitive element induces c-MYC expression.

Authors:  Ram Krishna Thakur; Praveen Kumar; Kangkan Halder; Anjali Verma; Anirban Kar; Jean-Luc Parent; Richa Basundra; Akinchan Kumar; Shantanu Chowdhury
Journal:  Nucleic Acids Res       Date:  2008-11-25       Impact factor: 16.971

9.  Re-evaluation of G-quadruplex propensity with G4Hunter.

Authors:  Amina Bedrat; Laurent Lacroix; Jean-Louis Mergny
Journal:  Nucleic Acids Res       Date:  2016-01-20       Impact factor: 16.971

10.  Xanthine and 8-oxoguanine in G-quadruplexes: formation of a G·G·X·O tetrad.

Authors:  Vee Vee Cheong; Brahim Heddi; Christopher Jacques Lech; Anh Tuân Phan
Journal:  Nucleic Acids Res       Date:  2015-09-22       Impact factor: 16.971

View more
  17 in total

Review 1.  Extra-telomeric impact of telomeres: Emerging molecular connections in pluripotency or stemness.

Authors:  Soujanya Vinayagamurthy; Akansha Ganguly; Shantanu Chowdhury
Journal:  J Biol Chem       Date:  2020-05-22       Impact factor: 5.157

2.  Harnessing intrinsic fluorescence for typing of secondary structures of DNA.

Authors:  Michela Zuffo; Aurélie Gandolfini; Brahim Heddi; Anton Granzhan
Journal:  Nucleic Acids Res       Date:  2020-06-19       Impact factor: 16.971

Review 3.  Action and function of helicases on RNA G-quadruplexes.

Authors:  Marco Caterino; Katrin Paeschke
Journal:  Methods       Date:  2021-09-10       Impact factor: 4.647

4.  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

Review 5.  Deciphering the genetic code of DNA methylation.

Authors:  Mengchi Wang; Vu Ngo; Wei Wang
Journal:  Brief Bioinform       Date:  2021-09-02       Impact factor: 11.622

Review 6.  Promise of G-Quadruplex Structure Binding Ligands as Epigenetic Modifiers with Anti-Cancer Effects.

Authors:  Antara Sengupta; Akansha Ganguly; Shantanu Chowdhury
Journal:  Molecules       Date:  2019-02-06       Impact factor: 4.411

Review 7.  Sequence determinants, function, and evolution of CpG islands.

Authors:  Allegra Angeloni; Ozren Bogdanovic
Journal:  Biochem Soc Trans       Date:  2021-06-30       Impact factor: 5.407

8.  In silico structural analysis of sequences containing 5-hydroxymethylcytosine reveals its potential as binding regulator for development, ageing and cancer-related transcription factors.

Authors:  Andigoni Malousi; Alexandra-Zoi Andreou; Sofia Kouidou
Journal:  Epigenetics       Date:  2020-09-02       Impact factor: 4.528

9.  DDX17 is involved in DNA damage repair and modifies FUS toxicity in an RGG-domain dependent manner.

Authors:  Tyler R Fortuna; Sukhleen Kour; Eric N Anderson; Caroline Ward; Dhivyaa Rajasundaram; Christopher J Donnelly; Andreas Hermann; Hala Wyne; Frank Shewmaker; Udai Bhan Pandey
Journal:  Acta Neuropathol       Date:  2021-06-01       Impact factor: 17.088

Review 10.  Naphthalene Diimides as Multimodal G-Quadruplex-Selective Ligands.

Authors:  Valentina Pirota; Matteo Nadai; Filippo Doria; Sara N Richter
Journal:  Molecules       Date:  2019-01-24       Impact factor: 4.411

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.