scholarly journals Effects of 5-Hydroxymethylcytosine Epigenetic Modifications within the VEGF Promoter Region on G-Quadruplex and I-Motif DNA Structure and Stability

2017 ◽  
Vol 112 (3) ◽  
pp. 68a ◽  
Author(s):  
Michael M. Molnar ◽  
Rhianna K. Morgan ◽  
Tracy A. Brooks ◽  
Randy M. Wadkins
Keyword(s):  
Promoter Region ◽  
Dna Structure ◽  
Epigenetic Modifications ◽  
Structure And Stability ◽  
G Quadruplex

scholarly journals Control of bacterial nitrate assimilation by stabilization of G-quadruplex DNA

2016 ◽  
Vol 52 (92) ◽  
pp. 13511-13514 ◽  
Author(s):  
Zoë A. E. Waller ◽  
Benjamin J. Pinchbeck ◽  
Bhovina Seewoodharry Buguth ◽  
Timothy G. Meadows ◽  
David J. Richardson ◽  
...  
Keyword(s):  
Promoter Region ◽  
Paracoccus Denitrificans ◽  
Nitrate Assimilation ◽  
Quadruplex Dna ◽  
G Quadruplex ◽  
Specific Control

Ligand-specific control of nitrate assimilation inParacoccus denitrificansby stabilization of DNA G-quadruplex in the promoter region ofnas.

scholarly journals Subtle structural alterations in G-quadruplex DNA regulate site specificity of fluorescence light-up probes

2020 ◽  
Vol 48 (3) ◽  
pp. 1108-1119 ◽  
Author(s):  
Rajendra Kumar ◽  
Karam Chand ◽  
Sudipta Bhowmik ◽  
Rabindra Nath Das ◽  
Snehasish Bhattacharjee ◽  
...  
Keyword(s):  
Rational Design ◽  
Dna Structure ◽  
Biological Processes ◽  
Chemical Research ◽  
Quadruplex Dna ◽  
Dna Structures ◽  
Future Studies ◽  
G4 Dna ◽  
G Quadruplex ◽  
Fluorescence Light

Abstract G-quadruplex (G4) DNA structures are linked to key biological processes and human diseases. Small molecules that target specific G4 DNA structures and signal their presence would therefore be of great value as chemical research tools with potential to further advance towards diagnostic and therapeutic developments. However, the development of these types of specific compounds remain as a great challenge. In here, we have developed a compound with ability to specifically signal a certain c-MYC G4 DNA structure through a fluorescence light-up mechanism. Despite the compound's two binding sites on the G4 DNA structure, only one of them result in the fluorescence light-up effect. This G-tetrad selectivity proved to originate from a difference in flexibility that affected the binding affinity and tilt the compound out of the planar conformation required for the fluorescence light-up mechanism. The intertwined relation between the presented factors is likely the reason for the lack of examples using rational design to develop compounds with turn-on emission that specifically target certain G4 DNA structures. However, this study shows that it is indeed possible to develop such compounds and present insights into the molecular details of specific G4 DNA recognition and signaling to advance future studies of G4 biology.

Relative stability of G-quadruplex structures: Interactions between the human Bcl2 promoter region and derivatives of carbazole and diphenylamine

Biopolymers ◽  
2014 ◽  
Vol 101 (10) ◽  
pp. 1038-1050 ◽  
Author(s):  
Sheh-Yi Sheu ◽  
Chao-Hsien Huang ◽  
Jia-Kai Zhou ◽  
Dah-Yen Yang
Keyword(s):  
Relative Stability ◽  
Promoter Region ◽  
G Quadruplex ◽  
Derivatives Of

scholarly journals Structure and Stability of a Dimeric G-Quadruplex Formed by Cyclic Oligonucleotides

2010 ◽  
Vol 2010 ◽  
pp. 1-6 ◽  
Author(s):  
Joan Casals ◽  
Júlia Viladoms ◽  
Enrique Pedroso ◽  
Carlos González
Keyword(s):  
Telomeric Repeat ◽  
High Melting ◽  
Structure And Stability ◽  
Dimeric Structure ◽  
Nmr Data ◽  
High Melting Temperature ◽  
Sodium Nmr ◽  
G Quadruplex ◽  
Global Topology ◽  
Quadruplex Formation

We have studied the structure and stability of the cyclic dodecamer d<pGGGTTAGGGTTA>, containing two copies of the human telomeric repeat. In the presence of sodium, NMR data are consistent with a dimeric structure of the molecule in which two cycles self-associate forming a quadruplex with three guanine tetrads connected by edgewise loops. The two macrocycles are arranged in a parallel way, and the dimeric structure exhibits a high melting temperature. These results indicate that cyclization of the phosphodiester chain does not prevent quadruplex formation, although it affects the global topology of the quadruplex.

scholarly journals Contribution of Regulatory T Cell Methylation Modifications to the Pathogenesis of Allergic Airway Diseases

2021 ◽  
Vol 2021 ◽  
pp. 1-8
Author(s):  
Jiani Li ◽  
Jichao Sha ◽  
Liwei Sun ◽  
Dongdong Zhu ◽  
Cuida Meng
Keyword(s):  
Promoter Region ◽  
Cytosine Methylation ◽  
Allergic Diseases ◽  
Treg Cells ◽  
Epigenetic Modifications ◽  
Food Allergies ◽  
Forkhead Box P3 ◽  
Airway Diseases ◽  
Forkhead Box ◽  
Allergic Disorders

Regulatory T (Treg) cells are a subtype of CD4+ T cells that play a significant role in the protection from autoimmunity and the maintenance of immune tolerance via immune regulation. Epigenetic modifications of Treg cells (i.e., cytosine methylation at the promoter region of the transcription factor, Forkhead Box P3) have been found to be closely associated with allergic diseases, including allergic rhinitis, asthma, and food allergies. In this study, we highlighted the recent evidence on the contribution of epigenetic modifications in Treg cells to the pathogenesis of allergic diseases. Moreover, we also discussed directions for future clinical treatment approaches, with a particular emphasis on Treg cell-targeted therapies for allergic disorders.

scholarly journals Sequencing and G-Quadruplex Folding of the Canine Proto-Oncogene KIT Promoter Region: Might Dog Be Used as a Model for Human Disease?

PLoS ONE ◽  
2014 ◽  
Vol 9 (8) ◽  
pp. e103876 ◽  
Author(s):  
Silvia Da Ros ◽  
Eleonora Zorzan ◽  
Mery Giantin ◽  
Lara Zorro Shahidian ◽  
Manlio Palumbo ◽  
...  
Keyword(s):  
Human Disease ◽  
Promoter Region ◽  
G Quadruplex

scholarly journals The Effects of Molecular Crowding on the Structure and Stability of G-Quadruplexes with an Abasic Site

2011 ◽  
Vol 2011 ◽  
pp. 1-9 ◽  
Author(s):  
Takeshi Fujimoto ◽  
Shu-ichi Nakano ◽  
Daisuke Miyoshi ◽  
Naoki Sugimoto
Keyword(s):  
Site Effects ◽  
Enthalpy Change ◽  
Molecular Crowding ◽  
Abasic Site ◽  
Structure And Stability ◽  
Quadruplex Structure ◽  
Abasic Sites ◽  
Crowding Effects ◽  
G Quadruplex ◽  
Quadruplex Formation

Both cellular environmental factors and chemical modifications critically affect the properties of nucleic acids. However, the structure and stability of DNA containing abasic sites under cell-mimicking molecular crowding conditions remain unclear. Here, we investigated the molecular crowding effects on the structure and stability of the G-quadruplexes including a single abasic site. Structural analysis by circular dichroism showed that molecular crowding by PEG200 did not affect the topology of the G-quadruplex structure with or without an abasic site. Thermodynamic analysis further demonstrated that the degree of stabilization of the G-quadruplex by molecular crowding decreased with substitution of an abasic site for a single guanine. Notably, we found that the molecular crowding effects on the enthalpy change for G-quadruplex formation had a linear relationship with the abasic site effects depending on its position. These results are useful for predicting the structure and stability of G-quadruplexes with abasic sites in the cell-mimicking conditions.

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