Nucleic acid-selective light-up fluorescent biosensors for ratiometric two-photon imaging of the viscosity of live cells and tissues

Two water-soluble TPEF probes which can be applied as ratiometric viscosity sensors were shown to bind to nuclear DNA and RNA in the nucleolus and cytoplasm with high affinity, respectively.

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Endoplasmic reticulum-specific fluorescent probe for the two-photon imaging of endogenous superoxide anion (O2•-) in live cells and zebrafishes

Talanta ◽

10.1016/j.talanta.2020.122020 ◽

2021 ◽

Vol 225 ◽

pp. 122020

Author(s):

Yaru Lu ◽

Ruifei Wang ◽

Yaru Sun ◽

Minggang Tian ◽

Baoli Dong

Keyword(s):

Endoplasmic Reticulum ◽

Fluorescent Probe ◽

Superoxide Anion ◽

Live Cells ◽

Two Photon ◽

Photon Imaging ◽

Two Photon Imaging

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Thermodynamic and Kinetic Characterization of Duplex Formation between 2′-O, 4′-C-Methylene-modified Oligoribonucleotides, DNA and RNA

Bioscience Reports ◽

10.1007/s10540-007-9056-x ◽

2007 ◽

Vol 27 (6) ◽

pp. 327-333 ◽

Cited By ~ 10

Author(s):

Ulla Christensen

Keyword(s):

Nucleic Acid ◽

Full Length ◽

Locked Nucleic Acid ◽

Complementary Dna ◽

High Affinity ◽

Thermodynamics And Kinetics ◽

Dna And Rna ◽

Reaction Thermodynamics ◽

Duplex Formation

2′-O,4′-C-methylene-linked ribonucleotide derivatives, named LNA (locked nucleic acid) and BNA (bridged nucleic acid) are nucleic acid analogoues that have shown high-affinity recognition of DNA and RNA, and the employment of LNA oligomers for antisense activity, gene regulation and nucleic acid diagnostics seems promising. Here we show kinetic and thermodynamic results on the interaction of a series of 10 bases long LNA–DNA mixmers, gabmers as well as full length LNA's with the complementary DNA, RNA and LNA oligonucleotides in the presence and absence of 10 mM Mg2+- ions. Our results show no significant differences in the reaction thermodynamics and kinetics between the LNA species, only a tendency to stronger duplex formation with the gabmer and mixmer. Introduction of a few LNA's thus may be a better strategy, than using full length LNA's to obtain an oligonucleotide that markedly increases the strength of duplexes formed with the complementary DNA and RNA.

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Multicolor, One- and Two-Photon Imaging of Enzymatic Activities in Live Cells with Fluorescently Quenched Activity-Based Probes (qABPs)

Journal of the American Chemical Society ◽

10.1021/ja200808y ◽

2011 ◽

Vol 133 (31) ◽

pp. 12009-12020 ◽

Cited By ~ 94

Author(s):

Mingyu Hu ◽

Lin Li ◽

Hao Wu ◽

Ying Su ◽

Peng-Yu Yang ◽

...

Keyword(s):

Enzymatic Activities ◽

Live Cells ◽

Two Photon ◽

Photon Imaging ◽

Two Photon Imaging

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Two-photon imaging of formaldehyde in live cells and animals utilizing a lysosome-targetable and acidic pH-activatable fluorescent probe

Chemical Communications ◽

10.1039/c7cc03050a ◽

2017 ◽

Vol 53 (48) ◽

pp. 6520-6523 ◽

Cited By ~ 59

Author(s):

Xilei Xie ◽

Fuyan Tang ◽

Xiaoyan Shangguan ◽

Shiyi Che ◽

Jinye Niu ◽

...

Keyword(s):

Fluorescent Probe ◽

Living Systems ◽

Live Cells ◽

Acidic Ph ◽

Two Photon ◽

Photon Imaging ◽

Two Photon Imaging

A two-photon fluorescent probe presented lysosomal targetability and an acidic pH-activatable response toward formaldehyde, and was applied to visualize formaldehyde in living systems.

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Real-time noninvasive monitoring of cell mortality using a two-photon emissive probe based on quaternary ammonium

Journal of Materials Chemistry B ◽

10.1039/c8tb00976g ◽

2018 ◽

Vol 6 (27) ◽

pp. 4417-4421 ◽

Cited By ~ 4

Author(s):

Mingzhu Zhang ◽

Wei Du ◽

Xiaohe Tian ◽

Ruilong Zhang ◽

Meng Zhao ◽

...

Keyword(s):

Nucleic Acid ◽

Real Time ◽

Quaternary Ammonium ◽

Noninvasive Monitoring ◽

Apoptotic Cells ◽

Two Photon ◽

Dna And Rna ◽

Cell Mortality ◽

Emissive Probe

We report that a dicyanyl derivative QN2 containing quaternary ammonium was capable of identifying apoptotic cells by targeting nucleic acid (DNA and RNA).

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Novel nonplanar and rigid fluorophores with intensive emission in water and the application in two-photon imaging of live cells

RSC Advances ◽

10.1039/c6ra13226j ◽

2016 ◽

Vol 6 (75) ◽

pp. 71624-71627 ◽

Cited By ~ 3

Author(s):

Jingwen Zhang ◽

Chao Wang ◽

Lei Zhang ◽

Huijing Wu ◽

Yi Xiao ◽

...

Keyword(s):

Quantum Yield ◽

Extinction Coefficient ◽

Molar Extinction Coefficient ◽

Live Cells ◽

Two Photon ◽

Yield Value ◽

Photon Imaging ◽

Two Photon Imaging

Novel nonplanar and rigid fluorophores have been synthesized, by fusing a twisted heterocycle onto a naphthalimide skeleton, and exhibited excellent higher quantum yield value (Φ = 0.60–0.66) and molar extinction coefficient in water.

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Single-color, ratiometric biosensors for detecting signaling activities in live cells

eLife ◽

10.7554/elife.35458 ◽

2018 ◽

Vol 7 ◽

Cited By ~ 20

Author(s):

Brian L Ross ◽

Brian Tenner ◽

Michele L Markwardt ◽

Adam Zviman ◽

Guoli Shi ◽

...

Keyword(s):

Fluorescence Anisotropy ◽

Live Cells ◽

Signaling Networks ◽

Fluorescent Biosensors ◽

New Class ◽

Two Photon ◽

Multiplexed Imaging ◽

Color Sensors ◽

Real Time Tracking ◽

Color Variants

Genetically encoded fluorescent biosensors have revolutionized the study of signal transduction by enabling the real-time tracking of signaling activities in live cells. Investigating the interaction between signaling networks has become increasingly important to understanding complex cellular phenomena, necessitating an update of the biosensor toolkit to allow monitoring and perturbing multiple activities simultaneously in the same cell. We therefore developed a new class of fluorescent biosensors based on homo-FRET, deemed FLuorescence Anisotropy REporters (FLAREs), which combine the multiplexing ability of single-color sensors with a quantitative, ratiometric readout. Using an array of color variants, we were able to demonstrate multiplexed imaging of three activity reporters simultaneously in the same cell. We further demonstrate the compatibility of FLAREs for use with optogenetic tools as well as intravital two-photon imaging.

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Recent Advances in Chemical Modification of Peptide Nucleic Acids

Journal of Nucleic Acids ◽

10.1155/2012/518162 ◽

2012 ◽

Vol 2012 ◽

pp. 1-8 ◽

Cited By ~ 29

Author(s):

Eriks Rozners

Keyword(s):

Nucleic Acid ◽

Nucleic Acids ◽

Peptide Nucleic Acid ◽

Peptide Nucleic Acids ◽

Chemical Modifications ◽

Practical Applications ◽

High Affinity ◽

Dna And Rna ◽

Double Stranded Dna ◽

Ongoing Effort

Peptide nucleic acid (PNA) has become an extremely powerful tool in chemistry and biology. Although PNA recognizes single-stranded nucleic acids with exceptionally high affinity and sequence selectivity, there is considerable ongoing effort to further improve properties of PNA for both fundamental science and practical applications. The present paper discusses selected recent studies that improve on cellular uptake and binding of PNA to double-stranded DNA and RNA. The focus is on chemical modifications of PNA's backbone and heterocyclic nucleobases. The paper selects representative recent studies and does not attempt to provide comprehensive coverage of the broad and vibrant field of PNA modification.

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How human serum albumin recognizes DNA and RNA

Biological Chemistry ◽

10.1515/hsz-2017-0243 ◽

2018 ◽

Vol 399 (4) ◽

pp. 347-360 ◽

Cited By ~ 2

Author(s):

Ludmila I. Alinovskaya ◽

Sergey E. Sedykh ◽

Nikita V. Ivanisenko ◽

Svetlana E. Soboleva ◽

Georgy A. Nevinsky

Keyword(s):

Nucleic Acid ◽

Human Serum Albumin ◽

Binding Sites ◽

Sharp Increase ◽

Lower Affinity ◽

High Affinity ◽

Dna And Rna ◽

First Time ◽

Additional Nucleotide ◽

Specific Contribution

AbstractWe show here for the first time that HSA possesses two nucleic acid-(NA) binding sites and we estimated the relative contributions of the nucleotide links of (pN)nto their total affinity for these binding sites with higher and lower affinity for NAs. The minimal ligands of these binding sites areorthophosphate (Kd=3.0 and 20.0 mm), various dNMPs (5.6–400 μmand 0.063–18 mm) and different rNMPs (4.9–30 μmand 14–250 μm). Maximal contribution to the total affinity of all NAs to the first and second sites was observed for one nucleotide and was remarkably lower for three additional nucleotide units of (pN)n(n=1–4) with a significant decrease in the contribution at n=5–6, and at n≥7–8 all dependencies reached plateaus. For d(pA)nand r(pA)na relatively gradual decrease in the contribution to the affinity at n=1–6 was observed, while several d(pN)n, demonstrated a sharp increase in the contribution at n=2–4. Finally, all (pN)n>10demonstrated high affinity for the first (1.4–150 nm) and the second (80–2400 nm) sites of HSA. Double-stranded NAs showed significantly lower affinity comparing with single-stranded ligands. The thermodynamic parameters characterizing the specific contribution of every nucleotide link of all (pN)1−9(ΔG°) to their total affinity for HSA were estimated.

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