scholarly journals A helical amplification system composed of artificial nucleic acids

2021 ◽  
Vol 12 (5) ◽  
pp. 1656-1660
Author(s):  
Hiromu Kashida ◽  
Keiji Nishikawa ◽  
Wenjing Shi ◽  
Toshiki Miyagawa ◽  
Hayato Yamashita ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acids ◽  
Nucleic Acid Hybridization ◽  
Amplification System ◽  
First Time

Herein we report an amplification system of helical excess triggered by nucleic acid hybridization for the first time.

scholarly journals Blink and you’ll miss it: a new biosensing strategy with nucleic acids

2017 ◽  
Vol 4 (1) ◽  
Author(s):  
Sameer Sajja ◽  
Brandon K. Roark ◽  
Morgan Chandler ◽  
Marcus Jones
Keyword(s):  
Quantum Dots ◽  
Electron Transfer ◽  
Nucleic Acid ◽  
Nucleic Acids ◽  
Fluorescent Sensors ◽  
Coupled Quantum Dots ◽  
Fluorescent Biosensors ◽  
Target Molecule ◽  
Fluorescence Blinking ◽  
First Time

AbstractFluorescent biosensors typically use energy or electron transfer to modulate the emission from a fluorophore. This requirement often makes it difficult to change the biosensor to make it selective to a difference target. In this research highlight we describe a recently reported strategy that relies, for the first time, on fluorescence blinking from nucleic acid-coupled quantum dots to report the presence of a target molecule. This strategy produces a decoupled biosensor, whose fluorescence output is not directly modulated by interaction with the target. The resulting biosensor can be readily modified to sense any target that can be selectively bound to nucleic acids and is therefore much more widely applicable than the vast majority of fluorescent sensors that have been reported.

scholarly journals Abiotic Fluorescent Receptors for Bioimaging: Sensing of Nucleic Acids

2019 ◽  
Vol 16 (3) ◽  
pp. 235-239
Author(s):  
Masood Ayoub ◽  
Bilal Ahmad Bhat ◽  
Shahjahan Ul Islam ◽  
Syed Masood Ahmad Rizvi ◽  
Qazi Mohd Junaid
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acids ◽  
Related Species ◽  
Living Cells ◽  
Nucleic Acid Detection ◽  
Acid Phosphate ◽  
Bio Imaging ◽  
Nitrogenous Base ◽  
First Time ◽  
Real Time Application

The design and development of synthetic fluorescent molecular architectures for sensing of nucleic acids and related species in living cells is an area of enormous interest. For the first time a novel compilation of single molecular abiotic fluorescent receptors for nucleic acid detection in living cells have been reviewed. Selected reports have been screened and thoroughly discussed which have revealed enormous promise for bio imaging. The mechanistic aspects of nucleic acid, phosphate or nitrogenous base sensing upon encounter with the receptors has been examined under diverse matrices. In addition to the cytotoxicity, specific conditions deciphering suitable and promising results for real-time application have been highlighted.

scholarly journals OaAEP1-mediated PNA-protein conjugation enables erasable imaging of membrane protein

2021 ◽  
Author(s):  
zhangwei lu ◽  
zhe li ◽  
Peng Zheng ◽  
bin jia ◽  
yutong liu ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acids ◽  
Peptide Nucleic Acid ◽  
Hek293 Cell ◽  
Nucleic Acid Hybridization ◽  
Strand Displacement ◽  
Small Peptide ◽  
Landing Platform ◽  
Different Types ◽  
Exciting Application

Methods to efficiently and site-specifically conjugate proteins to nucleic acids could enable exciting application in bioanalytics and biotechnology. Here, we report the use of the strict protein ligase to covalently ligate a protein to a peptide nucleic acid (PNA). The rapid ligation requires only a short N-terminal GL dipeptide in target protein and a C-terminal NGL tripeptide in PNA. We demonstrate the versatility of this approach by conjugating three different types of proteins with a PNA strand. The biostable PNA strand then serves as a generic landing platform for nucleic acid hybridization. Lastly, we show the erasable imaging of EGFR on HEK293 cell membrane through toehold-mediated strand displacement. This work provides a controlled tool for precise conjugation of proteins with nucleic acids through an extremely small peptide linker and facilitates further study of membrane proteins.

scholarly journals Rational design of an XNA ligase through docking of unbound nucleic acids to toroidal proteins

2019 ◽  
Vol 47 (13) ◽  
pp. 7130-7142 ◽  
Author(s):  
Michiel Vanmeert ◽  
Jamoliddin Razzokov ◽  
Muhammad Usman Mirza ◽  
Stephen D Weeks ◽  
Guy Schepers ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acids ◽  
Rational Design ◽  
Dna Ligase ◽  
Processing Enzymes ◽  
First Approximation ◽  
Acid Processing ◽  
First Time ◽  
Nucleic Acid Analogues

AbstractXenobiotic nucleic acids (XNA) are nucleic acid analogues not present in nature that can be used for the storage of genetic information. In vivo XNA applications could be developed into novel biocontainment strategies, but are currently limited by the challenge of developing XNA processing enzymes such as polymerases, ligases and nucleases. Here, we present a structure-guided modelling-based strategy for the rational design of those enzymes essential for the development of XNA molecular biology. Docking of protein domains to unbound double-stranded nucleic acids is used to generate a first approximation of the extensive interaction of nucleic acid processing enzymes with their substrate. Molecular dynamics is used to optimise that prediction allowing, for the first time, the accurate prediction of how proteins that form toroidal complexes with nucleic acids interact with their substrate. Using the Chlorella virus DNA ligase as a proof of principle, we recapitulate the ligase's substrate specificity and successfully predict how to convert it into an XNA-templated XNA ligase.

Nucleic Acid Molecules Prepared by Monolayer Techniques

1972 ◽  
Vol 30 ◽  
pp. 178-179
Author(s):  
Dimitrij Lang
Keyword(s):  
Electron Microscopy ◽  
Standard Deviation ◽  
Nucleic Acid ◽  
Cytochrome C ◽  
Nucleic Acids ◽  
Contour Length ◽  
Sample Standard Deviation ◽  
Molecular Weights ◽  
Length Measurements ◽  
Protein Monolayer

The success of the protein monolayer technique for electron microscopy of individual DNA molecules is based on the prevention of aggregation and orientation of the molecules during drying on specimen grids. DNA adsorbs first to a surface-denatured, insoluble cytochrome c monolayer which is then transferred to grids, without major distortion, by touching. Fig. 1 shows three basic procedures which, modified or not, permit the study of various important properties of nucleic acids, either in concert with other methods or exclusively:1) Molecular weights relative to DNA standards as well as number distributions of molecular weights can be obtained from contour length measurements with a sample standard deviation between 1 and 4%.

Snapshot blotting: The transfer of nucleic acids and nucleoprotein complexes from electrophoresis gels to EM grids

1992 ◽  
Vol 50 (1) ◽  
pp. 762-763
Author(s):  
Stephen D. Jett
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acids ◽  
Nucleic Acid Binding ◽  
Mobility Shift ◽  
Carbon Coated ◽  
Nucleoprotein Complexes ◽  
Mobility Shift Assay ◽  
Protein Nucleic Acid ◽  
Gel Mobility Shift ◽  
Nucleic Acid Interactions

The electrophoresis gel mobility shift assay is a popular method for the study of protein-nucleic acid interactions. The binding of proteins to DNA is characterized by a reduction in the electrophoretic mobility of the nucleic acid. Binding affinity, stoichiometry, and kinetics can be obtained from such assays; however, it is often desirable to image the various species in the gel bands using TEM. Present methods for isolation of nucleoproteins from gel bands are inefficient and often destroy the native structure of the complexes. We have developed a technique, called “snapshot blotting,” by which nucleic acids and nucleoprotein complexes in electrophoresis gels can be electrophoretically transferred directly onto carbon-coated grids for TEM imaging.

Molecular insights on the dynamic stability of peptide nucleic acid functionalized carbon and boron nitride nanotubes

2021 ◽  
Vol 23 (1) ◽  
pp. 219-228
Author(s):  
Nabanita Saikia ◽  
Mohamed Taha ◽  
Ravindra Pandey
Keyword(s):  
Nucleic Acid ◽  
Boron Nitride ◽  
Nucleic Acids ◽  
Dynamic Stability ◽  
Peptide Nucleic Acid ◽  
Rational Design ◽  
Peptide Nucleic Acids ◽  
Boron Nitride Nanotubes ◽  
Molecular Hybrids ◽  
Single Wall Nanotubes

The rational design of self-assembled nanobio-molecular hybrids of peptide nucleic acids with single-wall nanotubes rely on understanding how biomolecules recognize and mediate intermolecular interactions with the nanomaterial's surface.

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