3D live imaging is important for a better understanding of biological processes, but it is challenging with current techniques such as spinning-disk confocal microscopy. Bessel beam plane illumination microscopy allows high-speed 3D live fluorescence imaging of living cellular and multicellular specimens with nearly isotropic spatial resolution, low photobleaching and low photodamage. unlike conventional fluorescence imaging techniques that usually have a unique operation mode, Bessel plane illumination has several modes that offer different performance with different imaging metrics. to achieve optimal results from this technique, the appropriate operation mode needs to be selected and the experimental setting must be optimized for the specific application and associated sample properties. Here we explain the fundamental working principles of this technique, discuss the pros and cons of each operational mode and show through examples how to optimize experimental parameters. We also describe the procedures needed to construct, align and operate a Bessel beam plane illumination microscope by using our previously reported system as an example, and we list the necessary equipment to build such a microscope. assuming all components are readily available, it would take a person skilled in optical instrumentation ~1 month to assemble and operate a microscope according to this protocol. accompanied by slower imaging speed, faster photobleaching and higher photodamage, thereby limiting the number of time points for live imaging. TP fluorescence microscopy achieves optical sectioning and simultaneously avoids an out-of-focus background through nonlinear absorption of the excitation, but the imaging speed is still limited by point-scanned detection using the photomultiplier tube (PMT), and nonlinear mechanisms introduce additional photodamage. It also has a limited multicolor imaging capability. In practice, confocal and, more recently, spinning-disk confocal microscopy have been the most common methods for live 3D imaging of cellular-scale specimens.
Selective plane illumination microscopy (SPIM)Although the technique is a century old 1 , the rapid development of SPIM over the last decade 2-9 was driven by the need for highspeed, low-photobleaching and noninvasive 3D live imaging. SPIM minimizes the out-of-focus excitation by using two objectives with optical axes orthogonal to each other separately for excitation and detection. The sample is illuminated from the side by sending a sheet of excitation light into the sample, so that the illumination is confined near the focal plane of the orthogonal detection objective (Fig. 1a). In comparison with epi-illumination methods, SPIM has the following advantages. First, the confined excitation provides optical sectioning automatically by producing minimal out-of-focus fluorescence background. Second, the method is as fast as conventional wide-field detection, as fluorescence is imaged across the entire excitation plane simultaneously. Third, if the sheet thickness is comparable...