Literature DB >> 25013179

Dynamics and stability of polymorphic human telomeric G-quadruplex under tension.

Huijuan You1, Xiangjun Zeng2, Yue Xu1, Ci Ji Lim3, Artem K Efremov1, Anh Tuân Phan2, Jie Yan4.   

Abstract

As critical DNA structures capping the human chromosome ends, the stability and structural polymorphism of human telomeric G-quadruplex (G4) have drawn increasing attention in recent years. This work characterizes the equilibrium transitions of single-molecule telomeric G4 at physiological K(+) concentration. We report three folded states of telomeric G4 with markedly different lifetime and mechanical stability. Our results show that the kinetically favored folding pathway is through a short-lived intermediate state to a longer-lived state. By examining the force dependence of transition rates, the force-dependent transition free energy landscape for this pathway is determined. In addition, an ultra-long-lived form of telomeric G4 structure with a much stronger mechanical stability is identified.
© The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Year:  2014        PMID: 25013179      PMCID: PMC4117794          DOI: 10.1093/nar/gku581

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  43 in total

1.  Inhibition of telomerase by G-quartet DNA structures.

Authors:  A M Zahler; J R Williamson; T R Cech; D M Prescott
Journal:  Nature       Date:  1991-04-25       Impact factor: 49.962

Review 2.  Non-B DNA conformations, mutagenesis and disease.

Authors:  Robert D Wells
Journal:  Trends Biochem Sci       Date:  2007-05-09       Impact factor: 13.807

3.  Energetic basis of human telomeric DNA folding into G-quadruplex structures.

Authors:  Matjaž Bončina; Jurij Lah; Iztok Prislan; Gorazd Vesnaver
Journal:  J Am Chem Soc       Date:  2012-06-01       Impact factor: 15.419

4.  Differential mechanical stability of filamin A rod segments.

Authors:  Hu Chen; Xiaoying Zhu; Peiwen Cong; Michael P Sheetz; Fumihiko Nakamura; Jie Yan
Journal:  Biophys J       Date:  2011-09-07       Impact factor: 4.033

5.  Overstretching B-DNA: the elastic response of individual double-stranded and single-stranded DNA molecules.

Authors:  S B Smith; Y Cui; C Bustamante
Journal:  Science       Date:  1996-02-09       Impact factor: 47.728

6.  Long-loop G-quadruplexes are misfolded population minorities with fast transition kinetics in human telomeric sequences.

Authors:  Deepak Koirala; Chiran Ghimire; Christopher Bohrer; Yuta Sannohe; Hiroshi Sugiyama; Hanbin Mao
Journal:  J Am Chem Soc       Date:  2013-01-31       Impact factor: 15.419

7.  Direct measurement of sequential folding pathway and energy landscape of human telomeric G-quadruplex structures.

Authors:  Wei Li; Xi-Miao Hou; Peng-Ye Wang; Xu-Guang Xi; Ming Li
Journal:  J Am Chem Soc       Date:  2013-04-23       Impact factor: 15.419

Review 8.  DNA secondary structures: stability and function of G-quadruplex structures.

Authors:  Matthew L Bochman; Katrin Paeschke; Virginia A Zakian
Journal:  Nat Rev Genet       Date:  2012-10-03       Impact factor: 53.242

9.  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

10.  G-quadruplex structures are stable and detectable in human genomic DNA.

Authors:  Enid Yi Ni Lam; Dario Beraldi; David Tannahill; Shankar Balasubramanian
Journal:  Nat Commun       Date:  2013       Impact factor: 14.919

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  25 in total

1.  Folding Landscape of a Parallel G-Quadruplex.

Authors:  Robert D Gray; John O Trent; Sengodagounder Arumugam; Jonathan B Chaires
Journal:  J Phys Chem Lett       Date:  2019-02-27       Impact factor: 6.475

2.  Extreme mechanical diversity of human telomeric DNA revealed by fluorescence-force spectroscopy.

Authors:  Jaba Mitra; Monika A Makurath; Thuy T M Ngo; Alice Troitskaia; Yann R Chemla; Taekjip Ha
Journal:  Proc Natl Acad Sci U S A       Date:  2019-04-03       Impact factor: 11.205

3.  Probing Small Molecule Binding to Unfolded Polyprotein Based on its Elasticity and Refolding.

Authors:  Ricksen S Winardhi; Qingnan Tang; Jin Chen; Mingxi Yao; Jie Yan
Journal:  Biophys J       Date:  2016-12-06       Impact factor: 4.033

4.  RHAU helicase stabilizes G4 in its nucleotide-free state and destabilizes G4 upon ATP hydrolysis.

Authors:  Huijuan You; Simon Lattmann; Daniela Rhodes; Jie Yan
Journal:  Nucleic Acids Res       Date:  2016-10-05       Impact factor: 16.971

5.  The dynamics of forming a triplex in an artificial telomere inferred by DNA mechanics.

Authors:  Ning Li; Junli Wang; Kangkang Ma; Lin Liang; Lipei Mi; Wei Huang; Xiaofeng Ma; Zeyu Wang; Wei Zheng; Linyan Xu; Jun-Hu Chen; Zhongbo Yu
Journal:  Nucleic Acids Res       Date:  2019-09-05       Impact factor: 16.971

6.  Molecular dynamics simulations reveal the balance of forces governing the formation of a guanine tetrad-a common structural unit of G-quadruplex DNA.

Authors:  Mateusz Kogut; Cyprian Kleist; Jacek Czub
Journal:  Nucleic Acids Res       Date:  2016-03-14       Impact factor: 16.971

7.  Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers.

Authors:  Huijuan You; Shimin Le; Hu Chen; Linyan Qin; Jie Yan
Journal:  J Vis Exp       Date:  2017-09-19       Impact factor: 1.355

8.  A direct view of the complex multi-pathway folding of telomeric G-quadruplexes.

Authors:  Mikayel Aznauryan; Siri Søndergaard; Sofie L Noer; Birgit Schiøtt; Victoria Birkedal
Journal:  Nucleic Acids Res       Date:  2016-10-30       Impact factor: 16.971

Review 9.  Single-Molecule Studies of Telomeres and Telomerase.

Authors:  Joseph W Parks; Michael D Stone
Journal:  Annu Rev Biophys       Date:  2017-03-22       Impact factor: 12.981

10.  Folding/unfolding kinetics of G-quadruplexes upstream of the P1 promoter of the human BCL-2 oncogene.

Authors:  Yuanlei Cheng; Qingnan Tang; Yutong Li; Yashuo Zhang; Chuyuan Zhao; Jie Yan; Huijuan You
Journal:  J Biol Chem       Date:  2019-02-20       Impact factor: 5.157

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