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Super-resolution Fluorescence Microscopy

Super-resolution Fluorescence Microscopy

Super-resolution fluorescence microscopy (SRFM) provides a better resolution than conventional fluorescence microscopy by reducing the point spread function (PSF). PSF is the light intensity distribution from a point that causes it to appear blurred. Due to PSF, each fluorescing point appears bigger than its actual size, and it is the PSF interference of nearby fluorophores that causes the blurred image. Various approaches to achieving higher resolution through SRFM have recently been...

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Related Experiment Video

Updated: Jan 13, 2026

Real-time Imaging of Single Engineered RNA Transcripts in Living Cells Using Ratiometric Bimolecular Beacons

Real-time Imaging of Single Engineered RNA Transcripts in Living Cells Using Ratiometric Bimolecular Beacons

Published on: August 6, 2014

A Near-Infrared Aptamer:Dye System For Live-Cell Super-Resolution RNA Imaging.

Simon Fürbacher¹, Pia Doll¹, Jingye Zhang¹

¹Institute of Pharmacy and Molecular Biotechnology (IPMB), Heidelberg University, 69120 Heidelberg, Germany.

Journal of the American Chemical Society

|January 8, 2026

Summary

This summary is machine-generated.

We developed SiRiuS, a novel near-infrared fluorescent light-up aptamer system for RNA imaging in live cells. This advanced probe offers high performance for super-resolution microscopy and dynamic RNA process visualization.

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Fluorescent End-Labeling and Encapsulation of Long RNAs for Single-Molecule FRET-TIRF Microscopy

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Last Updated: Jan 13, 2026

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Published on: August 6, 2014

Conventional BODIPY Conjugates for Live-Cell Super-Resolution Microscopy and Single-Molecule Tracking

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Fluorescent End-Labeling and Encapsulation of Long RNAs for Single-Molecule FRET-TIRF Microscopy

Fluorescent End-Labeling and Encapsulation of Long RNAs for Single-Molecule FRET-TIRF Microscopy

Published on: October 18, 2024

Area of Science:

Molecular Biology
Biochemistry
Microscopy

Background:

Silicon rhodamine (SiR) probes offer advantages for live-cell and super-resolution imaging.
Fluorescent light-up aptamers (FLAPs) are emerging tools for RNA visualization.
SiR probes are underutilized in FLAP-based RNA imaging.

Purpose of the Study:

To develop a high-performance SiR-based FLAP system for RNA imaging in mammalian live cells.
To enhance aptamer-dye interactions for superior fluorogenicity and photostability.
To enable time-resolved and super-resolution imaging of dynamic RNA processes.

Main Methods:

Combined evolutionary aptamer evolution (FACS) with rational design, mutations, and truncations.
Systematic chemical derivatization to improve the SiR dye.
Validation in live-cell imaging and STED super-resolution microscopy.

Main Results:

Developed the SiRiuS:SiR-5 aptamer:dye pair with high fluorogenicity and photostability.
Demonstrated strong fluorescence enhancement for effective live-cell RNA visualization.
Enabled time-resolved imaging of dynamic RNA processes like stress granule formation.
Successfully applied the system in STED super-resolution microscopy for sub-diffraction limit RNA imaging.

Conclusions:

The SiRiuS:SiR-5 system is a powerful NIR imaging platform for RNA in live cells.
It facilitates advanced applications including super-resolution microscopy of RNA.
Its orthogonality to other FLAPs enhances its utility for complex RNA dynamics studies.