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Neurophotonics • Open Access

Comprehensive optical and data management infrastructure for high-throughput light-sheet microscopy of whole mouse brains
Author(s): M. Caroline Müllenbroich; Ludovico Silvestri; Leonardo Onofri; Irene Costantini; Marcel van’t Hoff; Leonardo Sacconi; Giulio Iannello; Francesco S. Pavone

Paper Abstract

Comprehensive mapping and quantification of neuronal projections in the central nervous system requires high-throughput imaging of large volumes with microscopic resolution. To this end, we have developed a confocal light-sheet microscope that has been optimized for three-dimensional (3-D) imaging of structurally intact clarified whole-mount mouse brains. We describe the optical and electromechanical arrangement of the microscope and give details on the organization of the microscope management software. The software orchestrates all components of the microscope, coordinates critical timing and synchronization, and has been written in a versatile and modular structure using the LabVIEW language. It can easily be adapted and integrated to other microscope systems and has been made freely available to the light-sheet community. The tremendous amount of data routinely generated by light-sheet microscopy further requires novel strategies for data handling and storage. To complete the full imaging pipeline of our high-throughput microscope, we further elaborate on big data management from streaming of raw images up to stitching of 3-D datasets. The mesoscale neuroanatomy imaged at micron-scale resolution in those datasets allows characterization and quantification of neuronal projections in unsectioned mouse brains.

Paper Details

Date Published: 29 June 2015
PDF: 13 pages
Neurophoton. 2(4) 041404 doi: 10.1117/1.NPh.2.4.041404
Published in: Neurophotonics Volume 2, Issue 4
Show Author Affiliations
M. Caroline Müllenbroich, Univ. degli Studi di Firenze (Italy)
Univ. of Florence (Italy)
Ludovico Silvestri, European Lab. for Non-linear Spectroscopy (Italy)
National Institute of Optics (Italy)
Leonardo Onofri, Univ. degli Studi di Firenze (Italy)
Univ. Campus Bio-Medico of Rome (Italy)
Irene Costantini, Univ. degli Studi di Firenze (Italy)
Marcel van’t Hoff, Univ. degli Studi di Firenze (Italy)
Leonardo Sacconi, Univ degli Studi di Firenze (Italy)
National Institute of Optics (Italy)
Giulio Iannello, Univ. Campus Bio-Medico (Italy)
Francesco S. Pavone, Univ. of Florence (Italy)

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