A5088856493- Advanced biosensing and bioanalysis techniques
- RNA and protein synthesis mechanisms
- Advanced Fluorescence Microscopy Techniques
- CRISPR and Genetic Engineering
- RNA Interference and Gene Delivery
- DNA and Nucleic Acid Chemistry
- RNA Research and Splicing
- Nanopore and Nanochannel Transport Studies
- Advanced Electron Microscopy Techniques and Applications
- Bacteriophages and microbial interactions
- RNA modifications and cancer
- MicroRNA in disease regulation
- Advanced Proteomics Techniques and Applications
- Bacterial Genetics and Biotechnology
- DNA Repair Mechanisms
- Force Microscopy Techniques and Applications
- Monoclonal and Polyclonal Antibodies Research
- Advanced Biosensing Techniques and Applications
- Diffusion and Search Dynamics
- Click Chemistry and Applications
- Insect symbiosis and bacterial influences
- Integrated Circuits and Semiconductor Failure Analysis
- Chemical Synthesis and Analysis
- Evolution and Genetic Dynamics
- Microfluidic and Capillary Electrophoresis Applications
Delft University of Technology
2016-2025
Ewha Womans University
2022-2025
Leiden University
2024
University of Groningen
2020
Kavli Energy NanoScience Institute
2015-2017
University of Illinois Urbana-Champaign
2004-2015
Seoul National University
2008-2011
Howard Hughes Medical Institute
2006
Single-molecule fluorescence spectroscopy has proven to be instrumental in understanding a wide range of biological phenomena at the nanoscale. Important examples what this technique can yield sciences are mechanistic insights on protein-protein and protein-nucleic acid interactions. When interactions proteins probed single-molecule level, or their substrates often immobilized glass surface, which allows for long-term observation. This immobilization scheme may introduce unwanted surface...
Prokaryotic Argonaute proteins (pAgos) constitute a diverse group of endonucleases which some mediate host defense by utilizing small interfering DNA guides (siDNA) to cleave complementary invading DNA. This activity can be repurposed for programmable cleavage. However, currently characterized DNA-cleaving pAgos require elevated temperatures (≥65°C) their activity, making them less suitable applications that moderate temperatures, such as genome editing. Here, we report the functional and...
Six interfluorophore FRET efficiencies Eij (see scheme) can be determined in real time by a single-molecule four-color technique both confocal and total-internal-reflection fluorescence microscopy. This was used to probe the correlated motion of four arms Holliday junction, assess correlation RecA-mediated strand exchange events at ends synaptic complex.
Vesicle encapsulation offers a biologically relevant environment for many soluble proteins and nucleic acids an optimal immobilization medium single-molecule fluorescence assays. Furthermore, the confinement of biomolecules within small volumes opens up new avenues to unique experimental configurations. Nevertheless, vesicles' impermeability, even toward ions other molecules such as ATP, hinders more general applications. We therefore developed methods induce pores into vesicles. Porous...
Single-molecule (sm) fluorescence detection is a powerful method for studying biological events without time and population averaging. Förster (fluorescence) resonance energy transfer (FRET) spectroscopic technique in which the efficiency of from donor to acceptor molecules used determine distances between 30–80 Å range. Structural changes or relative motion two interacting can be detected by change FRET. This article focuses primarily on smFRET based total internal reflection (TIR)...
The RNA-binding protein TRBP is a central component of the Dicer complex. Despite decade biochemical and structural studies, essential functionality in microRNA (miRNA) biogenesis remains unknown. Here we show that an integral cofactor for time-efficient processing RNA-crowded environments. We competed pre-miRNA with large amount cellular RNA species found Dicer-TRBP, but not alone, resilient. To apprehend mechanism this substrate selectivity, use single-molecule fluorescence. real-time...
Post-translational modifications (PTMs) of proteins play key roles in cellular processes. Hence, PTM identification is crucial for elucidating the mechanism complex processes and disease. Here we present a method detection at single-molecule level using FraC biological nanopores. We focus on two major PTMs, phosphorylation glycosylation, that mutually compete protein modification sites, an important regulatory process has been implicated pathogenic pathways many diseases. show phosphorylated...
Article15 May 2015Open Access Source Data TUT7 controls the fate of precursor microRNAs by using three different uridylation mechanisms Boseon Kim Center for RNA Research, Institute Basic Science, Seoul, Korea School Biological Sciences, Seoul National University, Search more papers this author Minju Ha Luuk Loeff Kavli NanoScience, Department BioNanoScience, Delft University Technology, Delft, The Netherlands Hyeshik Chang Dhirendra K Simanshu Structural Biology Program, Memorial...
It is unclear that how subcellular organelles respond to external mechanical stimuli. Here, we investigated the molecular mechanisms by which force regulates Ca2+ signaling at endoplasmic reticulum (ER) in human mesenchymal stem cells. Without extracellular Ca2+, ER release source of intracellular oscillations induced laser-tweezer-traction plasma membrane, providing a model study stimuli can be transmitted deep inside cell body. This upon stimulation mediated not only support cytoskeleton...
MicroRNAs (miRNAs) direct post-transcriptional regulation of human genes by guiding Argonaute proteins to complementary sites in messenger RNAs (mRNAs) targeted for repression. An enigmatic feature many conserved mammalian miRNA target is that an adenosine (A) nucleotide opposite nucleotide-1 confers enhanced repression independently base pairing potential the miRNA. In this study, we show Argonaute2 (Ago2) possesses a solvated surface pocket specifically binds adenine nucleobases 1 position...