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Updated: Apr 18, 2026

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Deep-Tissue Three-Photon Fluorescence Microscopy in Intact Mouse and Zebrafish Brain
Published on: January 13, 2022
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Three photon microscopy of mouse brain structure and function at 2 mm depth and beyond.
Monzilur Rahman1, Chi Liu1, Dimitre G Ouzounov1
1School of Applied and Engineering Physics, Cornell University, Ithaca, New York, USA.
Biorxiv : the Preprint Server for Biology
|April 17, 2026
Summary
Researchers developed an advanced 1300-nm three-photon microscope for deep brain imaging. This new technology allows high-resolution, noninvasive visualization of neural activity and brain vasculature in intact mice.
Area of Science:
- Neuroscience
- Biomedical Imaging
- Optical Microscopy
Background:
- Understanding brain function requires high-resolution, noninvasive imaging of neuronal activity deep within brain tissue.
- Current multiphoton microscopy techniques have limitations in imaging depth, hindering exploration of deeper brain structures.
Purpose of the Study:
- To develop and demonstrate an improved 1300-nm three-photon microscope capable of maximal excitation and collection efficiency.
- To achieve deep-tissue imaging of neuronal activity and brain vasculature at unprecedented depths in the intact mouse brain.
Main Methods:
- Utilized an improved 1300-nm three-photon microscopy platform engineered for maximal excitation and collection efficiency.
- Performed structural imaging of brain vasculature and functional imaging of neural activities in intact mouse brains.
Main Results:
- Achieved structural imaging of brain vasculature at depths up to 2.5 mm.
- Enabled functional imaging of neural activities at depths up to 2 mm, reaching previously inaccessible deep brain regions.
- Demonstrated imaging up to the theoretical three-photon depth limit.
Conclusions:
- The improved 1300-nm three-photon microscope significantly extends the frontier of deep-tissue functional imaging.
- This technology opens new possibilities for longitudinal and mechanistic studies in neuroscience and related fields.
- Enables noninvasive, single-cell resolution imaging deep within the brain.

