Translating single-neuron axonal reconstructions into meso-scale connectivity statistics in the mouse somatosensory thalamus DOI Creative Commons

Nestor Timonidis,

Rembrandt Bakker, Mario Rubio-Teves

et al.

Frontiers in Neuroinformatics, Journal Year: 2023, Volume and Issue: 17

Published: Dec. 1, 2023

Characterizing the connectomic and morphological diversity of thalamic neurons is key for better understanding how thalamus relays sensory inputs to cortex. The recent public release complete single-neuron reconstructions enables analysis previously inaccessible connectivity patterns from individual neurons. Here we focus on Ventral Posteromedial (VPM) nucleus characterize full 257 VPM neurons, obtained by combining data MouseLight Braintell projects. Neurons were clustered according their most dominantly targeted cortical area further subdivided jointly areas. We a 2D embedding using dissimilarity between all pairs axonal trees. curved shape allowed us 1-dimensional coordinate. coordinate values aligned both with progression soma position along dorsal-ventral lateral-medial axes that terminals posterior-anterior medial-lateral axes, as well an increase in number branching points, distance width. Taken together, have developed novel workflow linking three challenging aspects connectomics, namely topography, higher order diversity, test-case. linked unified access portal contains morphologies integrated flatmap subcortical visualization tools. resulting processed been made available Python, can thus be used modeling experimentally validating new hypotheses thalamocortical connectivity.

Language: Английский

Dense, continuous membrane labeling and expansion microscopy visualization of ultrastructure in tissues DOI Creative Commons
Tay Shin, Hao Wang, Chi Zhang

et al.

Nature Communications, Journal Year: 2025, Volume and Issue: 16(1)

Published: Feb. 12, 2025

Abstract Lipid membranes are key to the nanoscale compartmentalization of biological systems, but fluorescent visualization them in intact tissues, with precision, is challenging do high labeling density. Here, we report ultrastructural membrane expansion microscopy (umExM), which combines an innovative label and optimized protocol, support dense tissues for visualization. We validate signal-to-background ratio, uniformity continuity, umExM brain slices, supports imaging proteins at a resolution ~60 nm on confocal microscope. demonstrate utility segmentation tracing neuronal processes, such as axons, mouse tissue. Combining optical fluctuation imaging, or iterating process, yields ~35 pointing towards potential electron ordinary light microscopes.

Language: Английский

Citations

1
Realization of cellomics to dive into the whole-body or whole-organ cell cloud DOI

Tomoki T. Mitani,

Etsuo A. Susaki, Katsuhiko Matsumoto

et al.

Nature Methods, Journal Year: 2024, Volume and Issue: 21(7), P. 1138 - 1142

Published: June 13, 2024

Language: Английский

Citations

2
The Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for large cleared samples DOI Creative Commons
Nikita Vladimirov, Fabian F. Voigt, Thomas Naert

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: June 21, 2023

In 2015, we launched the mesoSPIM initiative (www.mesospim.org), an open-source project for making light-sheet microscopy of large cleared tissues more accessible. Meanwhile, demand imaging larger samples at higher speed and resolution has increased, requiring major improvements in capabilities microscopy. Here, introduce next-generation ("Benchtop") with significantly increased field view, improved resolution, throughput, affordable cost simpler assembly compared to original version. We developed a new method testing objectives, enabling us select detection objectives optimal large-sensor sCMOS cameras. The achieves high spatial (1.5 μm laterally, 3.3 axially) across entire magnification up 20x, supports sample sizes ranging from sub-mm several centimetres, while being compatible multiple clearing techniques. microscope serves broad range applications neuroscience, developmental biology, even physics.

Language: Английский

Citations

6
SmartSPIM Pipeline: A Scalable Cloud-Based Image Processing Pipeline for Light-sheet Microscopy Data DOI

Camilo Laiton,

Nicholas A. Lusk,

John R. Rohde

et al.

Microscopy and Microanalysis, Journal Year: 2024, Volume and Issue: 30(Supplement_1)

Published: July 1, 2024

Language: Английский

Citations

0
An Omni-Mesoscope for multiscale high-throughput quantitative phase imaging of cellular dynamics and high-content molecular characterization DOI Creative Commons
Hongqiang Ma, Maomao Chen, Jianquan Xu

et al.

Science Advances, Journal Year: 2024, Volume and Issue: 10(42)

Published: Oct. 16, 2024

The mesoscope has emerged as a powerful imaging tool in biomedical research, yet its high cost and low resolution have limited broader application. Here, we introduce the Omni-Mesoscope, high–spatial-temporal multimodal mesoscopic platform built from cost-efficient off-the-shelf components. This system uniquely merges capabilities of label-free quantitative phase microscopy to capture live-cell morphodynamics across thousands cells with highly multiplexed fluorescence for comprehensive molecular characterization. Omni-Mesoscope offers mesoscale field view ~5 square millimeters spatial down 700 nanometers, enabling detailed subcellular features. We demonstrate capability delineating characteristics underlying rare morphodynamic cellular phenomena, including cancer cell responses chemotherapy emergence polyploidy drug-resistant cells. also integrate expansion technique enhance three-dimensional volumetric super-resolution thicker tissues, opening avenues biological exploration at unprecedented scales resolutions.

Language: Английский

Citations

0
Sharp resolution, big samples: ExA-SPIM microscope accelerates brain imaging DOI

Alla Katsnelson

Nature, Journal Year: 2023, Volume and Issue: unknown

Published: Aug. 11, 2023

Language: Английский

Citations

1
Microscale visualization of cellular features in adult macaque visual cortex DOI Open Access
Pooja Balaram, Kevin Takasaki,

Ayana Hellevik

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: Nov. 5, 2023

Expansion microscopy and light sheet imaging enable fine-scale resolution of intracellular features that comprise neural circuits. Most current techniques visualize sparsely distributed across whole brains or densely within individual brain regions. Here, we dense distributions immunolabeled proteins early visual cortical areas in adult macaque monkeys. This process may be combined with multiphoton magnetic resonance to produce multimodal atlases large, gyrencephalic brains.

Language: Английский

Citations

1
Current Status and Future Strategies for Advancing Functional Circuit MappingIn Vivo DOI
A. Berndt, Denise J. Cai, Adam E. Cohen

et al.

Journal of Neuroscience, Journal Year: 2023, Volume and Issue: 43(45), P. 7587 - 7598

Published: Nov. 8, 2023

The human brain represents one of the most complex biological systems, containing billions neurons interconnected through trillions synapses. Inherent to is a biochemical complexity involving ions, signaling molecules, and peptides that regulate neuronal activity allow for short- long-term adaptations. Large-scale noninvasive imaging techniques, such as fMRI EEG, have highlighted regions involved in specific functions visualized connections between different areas. A major shortcoming, however, need more information on cell types neurotransmitters involved, well poor spatial temporal resolution. Recent technologies been advanced circuit mapping implemented behaving model organisms address this. Here, we highlight strategies targeting subtypes, identifying, releasing controlling gene expression, monitoring circuits real-time vivo . Combined, these approaches us establish direct causal links from genes molecules systems level ultimately cognitive processes.

Language: Английский

Citations

1
Community Newsletter: Nanoscale brain imaging; naturalistic mouse set-ups DOI

Michael Fergenson

The Transmitter, Journal Year: 2023, Volume and Issue: unknown

Published: Jan. 1, 2023

Language: Английский

Citations

0
Repurposed electronics lens spies neurons across entire mouse brain DOI Open Access
Holly E. Barker

The Transmitter, Journal Year: 2023, Volume and Issue: unknown

Published: Jan. 1, 2023

By bloating brain samples and imaging them with a powerful microscope, researchers can reconstruct neurons across the entire mouse brain, according to new preprint.The technique could help scientists uncover neural circuits responsible for complex behaviors, as well pathways that are altered in neurological conditions.Tracking axons understand how individual areas communicate over long distances.But tracing their path through is tricky, says study investigator Adam Glaser, senior scientist at Allen Institute Neural Dynamics Seattle, Washington.Axons, which capable of spanning be less than micrometer diameter, so mapping route requires detailed imaging, he says.One existing approach involves microscope slices off an ultra-thin section then scans it, repeating process about 20,000 times capture brain.Scientists blend images together form 3D reconstruction neuronal pathways.https://www.spectrumnews.org/wp-content/uploads/2023/07/1200-inside-Video-3.mp4 Illuminated axons:The tool trace all 24 hours.But takes several days therefore more prone complications -bubbles forming on lens, say -than faster techniques, Glaser says.And slicing distort edges image, making it "challenging or impossible" stitch back together,

Language: Английский

Citations

0