A multi-functional guanine derivative for studying the DNA G-quadruplex structure

The Analyst ◽  
2017 ◽  
Vol 142 (21) ◽  
pp. 4083-4088 ◽  
Author(s):  
Takumi Ishizuka ◽  
Pei-Yan Zhao ◽  
Hong-Liang Bao ◽  
Yan Xu
Keyword(s):  
Fluorescent Probe ◽  
Living Cells ◽  
Quadruplex Structure ◽  
G Quadruplex ◽  
Quadruplex Formation

A multi-functional guanine derivative, 8FG, as a G-quadruplex stabilizer, a fluorescent probe for the detection of G-quadruplex formation, and a 19F sensor for the observation of the G-quadruplex in vitro and in living cells.

scholarly journals A novel G-quadruplex motif in the Human MET promoter region

2017 ◽  
Vol 37 (6) ◽  
Author(s):  
Jing Yan ◽  
Deming Zhao ◽  
Liping Dong ◽  
Shuang Pan ◽  
Fengjin Hao ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Regulation ◽  
Luciferase Assay ◽  
Klenow Fragment ◽  
Regulate Gene Expression ◽  
Physiological Conditions ◽  
Quadruplex Structure ◽  
G Quadruplex ◽  
Quadruplex Formation

It is known that the guanine-rich strands in proto-oncogene promoters can fold into G-quadruplex structures to regulate gene expression. An intramolecular parallel G-quadruplex has been identified in MET promoter. It acts as a repressor in regulating MET expression. However, the full guanine-rich region in MET promoter forms a hybrid parallel/antiparallel G-quadruplex structure under physiological conditions, which means there are some antiparallel and hybrid parallel/antiparallel G-quadruplex structures in this region. In the present study, our data indicate that g3-5 truncation adopts an intramolecular hybrid parallel/antiparallel G-quadruplex under physiological conditions in vitro. The g3-5 G-quadruplex structure significantly stops polymerization by Klenow fragment in K+ buffer. Furthermore, the results of circular dichroism (CD) spectra and polymerase stop assay directly demonstrate that the G-quadruplex structure in g3-5 fragment can be stabilized by the G-quadruplex ligand TMPyP4 (5,10,15,20-tetra-(N-methyl-4-pyridyl) porphine). But the dual luciferase assay indicates TMPyP4 has no effect on the formation of g3-5 G-quadruplex in HepG2 cells. The findings in the present study will enrich our understanding of the G-quadruplex formation in proto-oncogene promoters and the mechanisms of gene expression regulation.

I2 catalyzed access of spiro[indoline-3,4′-pyridine] appended amine dyad: new ON–OFF chemosensors for Cu2+ and imaging in living cells

2018 ◽  
Vol 16 (2) ◽  
pp. 302-315 ◽  
Author(s):  
Animesh Mondal ◽  
Barnali Naskar ◽  
Sanchita Goswami ◽  
Chandraday Prodhan ◽  
Keya Chaudhuri ◽  
...  
Keyword(s):  
Fluorescent Probe ◽  
Hepg2 Cells ◽  
Cell Imaging ◽  
Colorimetric Detection ◽  
Living Cells ◽  
Fluorescent Cell

An efficient, easily tuneable route to construct a structurally diverse organic fluorescent probe and its applications towards the colorimetric detection of Cu2+ ions and in vitro fluorescent cell imaging of Cu2+ in HepG2 cells.

The development of a hemicyanine-based ratiometric CO fluorescent probe with a long emission wavelength and its applications for imaging CO in vitro and in vivo

2020 ◽  
Vol 44 (28) ◽  
pp. 12107-12112 ◽  
Author(s):  
Yunyan Zhang ◽  
Xiuqi Kong ◽  
Yonghe Tang ◽  
Min Li ◽  
Yaguang Yin ◽  
...  
Keyword(s):  
Fluorescent Probe ◽  
Living Cells ◽  
Emission Wavelength ◽  
Long Wavelength ◽  
Wavelength Emission ◽  
Ratiometric Fluorescent Probe

A novel ratiometric fluorescent probe, Hcy-CO, with long-wavelength emission was developed for visualizing CO in living cells and zebrafish.

Imaging nucleus viscosity and G-quadruplex DNA in living cells using a nucleus-targeting two-photon fluorescent probe

The Analyst ◽  
2018 ◽  
Vol 143 (23) ◽  
pp. 5799-5804 ◽  
Author(s):  
Wan Sun ◽  
Jing-Xue Cui ◽  
Le-Le Ma ◽  
Zhong-Lin Lu ◽  
Bing Gong ◽  
...  
Keyword(s):  
Fluorescent Probe ◽  
Dna Detection ◽  
Living Cells ◽  
Cell Nuclei ◽  
Quadruplex Dna ◽  
Two Photon ◽  
Turn On ◽  
G Quadruplex

TP-2Bz, as a nucleus targeting “D–π–A” molecule, was developed as a two-photon turn-on fluorescent probe for the viscosity and GQ DNA detection in cell nuclei.

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.

Intra-molecular G-quadruplex structure generated by DNA-templated click chemistry: “Turn-on” fluorescent probe for copper ions

2014 ◽  
Vol 55 ◽  
pp. 187-194 ◽  
Author(s):  
Qinpeng Shen ◽  
Lifen Zhou ◽  
Yijia Yuan ◽  
Yan Huang ◽  
Binbin Xiang ◽  
...  
Keyword(s):  
Click Chemistry ◽  
Fluorescent Probe ◽  
Copper Ions ◽  
Turn On ◽  
Quadruplex Structure ◽  
G Quadruplex

A novel near-infrared xanthene-based fluorescent probe for detection of thiophenol in vitro and in vivo

2020 ◽  
Vol 44 (40) ◽  
pp. 17360-17367
Author(s):  
Yongquan Wu ◽  
Aiping Shi ◽  
Huiying Liu ◽  
Yuanyan Li ◽  
Weican Lun ◽  
...  
Keyword(s):  
Fluorescent Probe ◽  
Near Infrared ◽  
Living Cells

A novel near-infrared xanthene-based fluorescent probe for detection of thiophenol in living cells and mice.

scholarly journals Characterization of human telomere RNA G-quadruplex structures in vitro and in living cells using 19F NMR spectroscopy

2017 ◽  
Vol 45 (9) ◽  
pp. 5501-5511 ◽  
Author(s):  
Hong-Liang Bao ◽  
Takumi Ishizuka ◽  
Takashi Sakamoto ◽  
Kenzo Fujimoto ◽  
Tamayo Uechi ◽  
...  
Keyword(s):  
Nmr Spectroscopy ◽  
Living Cells ◽  
19F Nmr ◽  
19F Nmr Spectroscopy ◽  
G Quadruplex ◽  
Human Telomere

A resorufin-based fluorescent probe for imaging polysulfides in living cells

The Analyst ◽  
2019 ◽  
Vol 144 (10) ◽  
pp. 3221-3225 ◽  
Author(s):  
Jingwei Liu ◽  
Zheng Yin
Keyword(s):  
Fluorescent Probe ◽  
Biomedical Research ◽  
Living Cells ◽  
Turn On

Nowadays H2Sn have attracted ever-increasing attention in the field of biomedical research. Herein, we report a resorufin-based “turn-on” probe for H2Sn sensing in vitro and in living cells.

scholarly journals G-quadruplexes in H1N1 influenza genomes

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Václav Brázda ◽  
Otília Porubiaková ◽  
Alessio Cantara ◽  
Natália Bohálová ◽  
Jan Coufal ◽  
...  
Keyword(s):  
H1n1 Virus ◽  
Antiviral Treatment ◽  
H1n1 Influenza ◽  
Influenza Viruses ◽  
Close Relative ◽  
Spectroscopic Methods ◽  
Genotype 4 ◽  
G Quadruplex ◽  
Quadruplex Formation

Abstract Background Influenza viruses are dangerous pathogens. Seventy-Seven genomes of recently emerged genotype 4 reassortant Eurasian avian-like H1N1 virus (G4-EA-H1N1) are currently available. We investigated the presence and variation of potential G-quadruplex forming sequences (PQS), which can serve as targets for antiviral treatment. Results PQS were identified in all 77 genomes. The total number of PQS in G4-EA-H1N1 genomes was 571. Interestingly, the number of PQS per genome in individual close relative viruses varied from 4 to 12. PQS were not randomly distributed in the 8 segments of the G4-EA-H1N1 genome, the highest frequency of PQS being found in the NP segment (1.39 per 1000 nt), which is considered a potential target for antiviral therapy. In contrast, no PQS was found in the NS segment. Analyses of variability pointed the importance of some PQS; even if genome variation of influenza virus is extreme, the PQS with the highest G4Hunter score is the most conserved in all tested genomes. G-quadruplex formation in vitro was experimentally confirmed using spectroscopic methods. Conclusions The results presented here hint several G-quadruplex-forming sequences in G4-EA-H1N1 genomes, that could provide good therapeutic targets.

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