Multiview Hilbert transformation in full-ring transducer array-based photoacoustic computed tomography

Based on the photoacoustic (PA) effect, PA tomography directly measures specific optical absorption, i.e., absorbed optical energy per unit volume. We recently developed a full-ring ultrasonic transducer array-based photoacoustic computed tomography (PACT) system for small-animal whole-body imaging. The system has a full-view detection angle and high in-plane resolution (∼100  μm). However, due to the bandpass frequency response of the piezoelectric transducer elements and the limited elevational detection coverage of the full-ring transducer array, the reconstructed images present bipolar (i.e., both positive and negative) pixel values, which cause ambiguities in image interpretation for physicians and biologists. We propose a multiview Hilbert transformation method to recover the unipolar initial pressure for full-ring PACT. The effectiveness of the proposed algorithm was first validated by numerical simulations and then demonstrated with ex vivo mouse brain structural imaging and in vivo mouse whole-body imaging.

Using Light Sheet Fluorescence Microscopy to Image Zebrafish Eye Development

Light sheet fluorescence microscopy (LSFM) is gaining more and more popularity as a method to image embryonic development. The main advantages of LSFM compared to confocal systems are its low phototoxicity, gentle mounting strategies, fast acquisition with high signal to noise ratio and the possibility of imaging samples from various angles (views) for long periods of time. Imaging from multiple views unleashes the full potential of LSFM, but at the same time it can create terabyte-sized datasets. Processing such datasets is the biggest challenge of using LSFM. In this protocol we outline some solutions to this problem. Until recently, LSFM was mostly performed in laboratories that had the expertise to build and operate their own light sheet microscopes. However, in the last three years several commercial implementations of LSFM became available, which are multipurpose and easy to use for any developmental biologist. This article is primarily directed to those researchers, who are not LSFM technology developers, but want to employ LSFM as a tool to answer specific developmental biology questions. Here, we use imaging of zebrafish eye development as an example to introduce the reader to LSFM technology and we demonstrate applications of LSFM across multiple spatial and temporal scales. This article describes a complete experimental protocol starting with the mounting of zebrafish embryos for LSFM. We then outline the options for imaging using the commercially available light sheet microscope. Importantly, we also explain a pipeline for subsequent registration and fusion of multiview datasets using an open source solution implemented as a Fiji plugin. While this protocol focuses on imaging the developing zebrafish eye and processing data from a particular imaging setup, most of the insights and troubleshooting suggestions presented here are of general use and the protocol can be adapted to a variety of light sheet microscopy experiments.