UVA one-photon hyperspectral light sheet imaging was performed here to capture and reconstruct three dimensional metabolic maps of mouse embryos during development. We explored numerically and experimentally the advantages of phasor-based hyperspectral approach for detecting embryo metabolism with a single wavelength excitation compared to the conventional detection approach using bandpass filters.

In this work we present a microscope on a chip for automatic structured light sheet imaging of single cells. This integrated platform has been fabricated by femtosecond laser micromachining in glass substrates and it encompasses integrated optical elements such as waveguides, lenses and beam splitters as well as a microfluidic channel for sample delivery. Processing fluorescent cells, we have proven enhanced image resolution, automatic and continuous imaging as well as device ease of use

Root hairs are a delicate single-cell system whose growth is regulated by a fine mechanism characterised by the presence of a tip-high Ca2+ gradient that shows regular oscillations in growing root hairs. We show a method based on the use of Light sheet fluorescence microscopy (LSFM) which allows the quasi-physiological analysis of Arabidopsis thaliana plant roots hairs with excellent spatial and temporal resolution over a wide field of view. We show how the healthy growing root hairs are linked to precise oscillations and how a disruption of this mechanism can be associated to specific genes.

Minimally invasive endoscopy using coherent fiber bundles shows great potential for numerous applications in biomedical imaging. With a diffuser on the distal side of the fiber bundle and computational image recovery, single-shot 3D imaging is possible by encoding the image volume into 2D speckle patterns. In comparison to equivalent lens systems, a higher space-bandwidth product can be achieved. However, decoding the image with iterative algorithms is time-consuming. Thus, we propose utilizing a neural network for fast 2D and 3D image reconstruction at video rate. In this work, single-shot 3D fluorescence imaging with an ultra-thin endoscope is demonstrated, enabling applications like calcium imaging for in vivo brain diagnostics at cellular resolution.

Scanning fluorescence microscopes can image large tissues at the diffraction-limit. Scanning systems are also used for manipulation such as laser severing or optogenetic activation.

The conventional approach to image tissues with a scanning microscope involves scanning the entire bounding box enclosing the tissue, plane by plane, which is time-consuming and results in a high light dose.

We have developed a “smart” microscope that adapts its scanning scheme to the morphology of embryonic cell sheets, with no prior knowledge of the structure of interest. The surface of the tissue is first delineated from the acquisition of a very fractional scan of sample-space, using a robust estimation strategy. Subsequent high-resolution imaging can then be restricted to this targeted structure of interest, yielding a ~20-fold reduction in the scan path and, thus, an equivalent reduction in light dose and increase in speed. Additional scan path reduction can also be obtained using a propagative scanning approach. The resulting reduction in light dose (order of magnitude) is highly beneficial in terms of photobleaching.

We demonstrate the efficacy of our smart-scanning technique imaging Drosophila embryos and demonstrate how it can also be employed in a smart dissection scheme to make precise cuts on large non-planar tissues.