ArticleProceedings of the National Academy of Sciences of the United States of America2009
Hybridization kinetics is different inside cells.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- Stability of non-canonical nucleic acid structure as a potential modulator of cell fate.Nucleic acids research · 2026Review
- Kinetics and dynamics of oligonucleotide hybridization.Nature reviews. Chemistry · 2025Review
- Heat application in live cell imaging.FEBS open bio · 2024Review
- Advances in electrochemical biosensor design for the detection of the stress biomarker cortisol.Analytical and bioanalytical chemistry · 2024Review
- Beneficial and detrimental effects of non-specific binding during DNA hybridization.Biophysical journal · 2023Article
- Assembly of Biologically Functional Structures by Nucleic Acid Templating: Implementation of a Strategy to Overcome Inhibition by Template Excess.Molecules (Basel, Switzerland) · 2022Article
- Integration of chemically modified nucleotides with DNA strand displacement reactions for applications in living systems.Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology · 2022Review
- Recent developments in the characterization of nucleic acid hybridization kinetics.Current opinion in biomedical engineering · 2021Article
- Kinetics of heterochiral strand displacement from PNA-DNA heteroduplexes.Nucleic acids research · 2021Article
- Kinetic Microscale Thermophoresis for Simultaneous Measurement of Binding Affinity and Kinetics.Angewandte Chemie (International ed. in English) · 2021Article
- Measuring DNA Hybridization Kinetics in Live Cells Using a Time-Resolved 3D Single-Molecule Tracking Method.Journal of the American Chemical Society · 2019Article
- Towards a Bioelectronic Computer: A Theoretical Study of a Multi-Layer Biomolecular Computing System That Can Process Electronic Inputs.International journal of molecular sciences · 2018Article
- Lipid vesicles chaperone an encapsulated RNA aptamer.Nature communications · 2018Article
- 3D single-molecule tracking enables direct hybridization kinetics measurement in solution.Nanoscale · 2017Article
- Environmental Fluctuations and Stochastic Resonance in Protein Folding.Chemphyschem : a European journal of chemical physics and physical chemistry · 2016Article
- RNA Hairpin Folding in the Crowded Cell.Angewandte Chemie (International ed. in English) · 2016Article
- DNA nanotechnology from the test tube to the cell.Nature nanotechnology · 2015Review
- Relative Cosolute Size Influences the Kinetics of Protein-Protein Interactions.Biophysical journal · 2015Article
- Expanding discriminative dimensions for analysis and imaging.Chemical science · 2015Article
- Periodic and stochastic thermal modulation of protein folding kinetics.The Journal of chemical physics · 2014Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
It is generally expected that the kinetics of reactions inside living cells differs from the situation in bulk solutions. Macromolecular crowding and specific binding interactions could change the diffusion properties and the availability of free molecules. Their impact on reaction kinetics in the relevant context of living cells is still elusive, mainly because the difficulty of capturing fast kinetics in vivo. This article shows spatially resolved measurements of DNA hybridization kinetics in single living cells. HeLa cells were transfected with a FRET-labeled dsDNA probe by lipofection. We characterized the hybridization reaction kinetics with a kinetic range of 10 micros to 1 s by a combination of laser-driven temperature oscillations and stroboscopic fluorescence imaging. The time constant of the hybridization depended on DNA concentration within individual cells and between cells. A quantitative analysis of the concentration dependence revealed several-fold accelerated kinetics as compared with free solution for a 16-bp probe and decelerated kinetics for a 12-bp probe. We did not find significant effects of crowding agents on the hybridization kinetics in vitro. Our results suggest that the reaction rates in vivo are specifically modulated by binding interactions for the two probes, possibly triggered by their different lengths. In general, the presented imaging modality of temperature oscillation optical lock-in microscopy allows to probe biomolecular interactions in different cell compartments in living cells for systems biology.
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