Three-dimensional visualization of multiple synapses in thick sections using high-voltage electron microscopy in the rat spinal cord

This data article contains complementary figure and movies (Supplementary Movies 1–3) related to the research article entitled, “Effective synaptome analysis of itch-mediating neurons in the spinal cord: a novel immunohistochemical methodology using high-voltage electron microscopy” [7]. It is important to show the synaptic connections at the ultrastructural level to understand the neural circuit, which requires the three-dimensional (3-D) analyses in the electron microscopy. Here, we applied a new sample preparation method, a high-contrast en bloc staining according to the protocol of the National Center for Microscopy and Imaging Research (NCMIR), University of California, San Diego, CA, USA to high-voltage electron microscopy (HVEM) tomography in order to examine the 3-D chemical neuroanatomy of the rat spinal cord. Pre-embedding immunoelectron microscopy was used in this study. HVEM has an excellent potential to directly visualize the ultrastructures in semi-thin sections (~5 μm thick), and we have successfully visualized many itch-mediating synaptic connections and neural networks in the spinal cord using “HVEM tomography”. Moreover, the methodology used in this study is simple and can be applied in multiple ways. This is an important contribution to ultrastructural investigations of the central nervous system in the present post-genomic age.


Subject area
Biology More specific subject area

Neuroscience
Type of data Images and movies How data was acquired Using high-voltage electron microscopy (HVEM) (Hitachi H-1250M at the National Institute for Physiological Sciences, Okazaki, Japan). Computer tomography analyses were performed with Chimera (University of California, San Francisco; UCSF, CA, USA).

Data format
Images were processed with IMOD, UCSF Chimera and the AMIRA software packages. Experimental factors Three-dimensional (3-D) analyses were performed. Immunostained semi-thin sections were observed with HVEM by tilting the specimen from À 60.01 to þ 60.01, continuously. These 121 serial-tilted images were digitized and 3-D models were constructed using IMOD software. Animations and ultrastructural analyses were performed with UCSF Chimera software and manually segmented using the AMIRA software package.

Experimental features
We applied a high-contrast en bloc staining to HVEM tomography.

Data source location Not applicable Data accessibility
The data are supplied with this article

Value of the data
Application of NCMIR method en bloc to high-voltage electron microscopy (HVEM) tomography allows a fine membranous visualization of the three-dimensional (3-D) structure in semi-thin sections at the ultrastructural level.
This new methodology using HVEM tomography combined with immunohistochemistry is useful for the 3-D analysis of both synaptic connections and chemical neuroanatomy at the ultrastructural level, and this is potentially a new research approach/alternative for many laboratories.
Using HVEM tomography, we demonstrated a previously uncharacterized itch-mediating neural network.
The HVEM methodology can be widely and easily applied in multiple ways at either the cellular and organotypic levels.
1. Data, experimental design, materials and methods

Animals
Adult male Wistar rats were obtained from the Charles River Laboratories Japan (Yokohama, Japan). All experimental procedures have been authorized by the Committees for Animal Research, Okayama University and Kyoto Prefectural University of Medicine, Japan.

Immunohistochemistry for high-voltage electron microscopy (HVEM)
Male rats (n¼3) were overdosed with sodium pentobarbital and perfusion fixed with 4% paraformaldehyde, 0.1% glutaraldehyde, and 0.3% tannic acid in 0.1 M phosphate buffer. Cervical spinal cords were immediately removed and immersed in 4% paraformaldehyde in 0.1 M phosphate buffer for 3 h. Spinal sections (C3-C6 level; 30 mm in thickness) were prepared with a LinearSlicer s (Dosaka EM, Kyoto, Japan). Immunohistochemistry for gastrin-releasing peptide (GRP) was performed in this study according to our previous method [5,6,8]. The free-floating sections were thoroughly washed with phosphate buffered saline (PBS) and preincubated in PBS containing 0.05% Triton X-100, 1% normal goat serum, and 1% BSA for 30 min at room temperature to block nonspecific reactions. Sections were then incubated with the primary rabbit antiserum against rat GRP 20-29 (1:1000) (AssayPro, St. Charles, MO, USA) overnight at room temperature with gentle agitation. The GRP antiserum used in this study have previously shown to be specific for rat GRP in the spinal cord [7,8]. Immunoreactive (ir) products were detected with a streptavidin-biotin kit (Nichirei, Tokyo, Japan), followed by diaminobenzidine development, as described previously [7,8]. The sections were dehydrated and flat embedded in epoxy resin (Quetol-812; Nisshin EM, Tokyo, Japan) as previously described [3,5,8]. Subsequently, semi-thin sections (1-2 mm in thickness) containing the GRP-positive fibers in the dorsal horn (DH) of the cervical spinal cord were then prepared and collected on mesh grids coated with a collodion film. Each gridmounted semi-thin section was first selected using a light microscope (Olympus; BH-2, Tokyo, Japan). Selected grids or sections were observed using an HVEM (Hitachi H-1250M; National Institute for Physiological Sciences, Okazaki, Japan) at an accelerating voltage of 1000 kV (Fig. 1).

En bloc staining (NCMIR method) for HVEM tomography
The GRP-immunostained sections were then subjected to special en bloc staining according to the protocol of the National Center for Microscopy and Imaging Research (NCMIR), University of California, San Diego, CA, USA with slight modifications [1]. The NCMIR method is widely used for serial block-face SEM (SBF-SEM), which was designed to enhance signal for backscatter electron imaging of epoxyembedded mammalian tissue at low accelerating voltages [1]. This sample preparation method for effective heavy metal staining was applied to our synaptome analysis by HVEM tomography. Briefly, after being washed with 0.15 M cacodylate buffer, the sections were post-fixed for 1 h in 2% aqueous osmium tetroxide/1.5% potassium ferrocyanide in 0.15 M cacodylate buffer, for 20 min in a thiocarbohydrazide solution, and then for 30 min in a 2% osmium tetroxide solution. Sections were placed in 1% uranyl acetate overnight at 4 1C and then in a lead aspartate solution in a 60 1C oven for 30 min.

Tomography
The specimen was tilted from À 60.01 to þ60.01 and imaged at 11 steps (121 images per view; 0.0, 71.0 $ 760.0). The images were digitized and 3-D models were constructed using IMOD software [2,4]. Individual subcellular and organelle structures were observed by UCSF Chimera and manually segmented using the AMIRA software package (FEI Visualization Science Group, Burlington, MA, USA) [4]. This software package was also used to generate the 3-D image figures (Fig. 1).

Conflict of interests
The authors declare that there are no potential conflicts of interest.