Tissue post-fixation for scanning electron microscopy
Spinal cord sections from the lower thoracic region containing the region of interest (dorsal column) obtained from three mice were selected for scanning electron microscopy (SEM) experiments. Only sections located near the spinal cord injury (less than 1 mm away) were processed for imaging. Sections were washed with phosphate buffer (PB, 100 Mm, pH 7.4) then incubated for 1 hour in a solution comprising equal volumes of 4% osmium tetroxide (EMS, Pennsylvania, USA, cat# 19190) and 3% potassium ferrocyanide (Sigma-Aldrich, Ontario, Canada, cat# P9387) diluted in PB. Following washes in double-distilled water, the sections were incubated in a filtered 1% thiocarbohydrazide solution (diluted in double distilled water; Sigma-Aldrich, Ontario, Canada, cat# 223220) for 20 minutes, then in 2% aqueous osmium tetroxide for 30 minutes. The sections were dehydrated in increasing concentrations of ethanol for 10 minutes each (2 x 35%, 1 x 50%, 1 x 70%, 1 x 80%, 1 x 90%, 3 x 100%) and washed in propylene oxide (Sigma-Aldrich, #cat 110205-18L-C) 3 times 10 minutes. The spinal cord tissues were embedded overnight in Durcupan resin (20 g component A, 20 g component B, 0.6 g component C, 0.4 g component D; Sigma Canada, Toronto, cat# 44610) and delicately placed for flat-embedding on fluoropolymer films (ACLAR®, Pennsylvania, USA, Electron Microscopy Sciences, cat# 50425-25) the next day. The montage was kept in a convection oven at 55˚C for 5 days to allow for resin polymerization.
Following resin polymerization, the region of interest contained in resin (dorsal column) was excised from the embedded sections and glued onto resin blocks for ultramicrotomy using a Leica ARTOS 3D. Sections from two to four levels per animal (6–8 µm apart) were cut at a thickness of 73 nm and placed onto silicon wafers for SEM imaging using a Zeiss Crossbeam 350 SEM operating at a 1.4 kV voltage and 1.2 nA current. Images of the ultrathin sections were first acquired at a resolution of 25 nm per pixel to allow for the identification of MG/MDM cell bodies with relation to the SCI site (25–27). MG/MDM located near the lesion area (directly contacting degraded myelinated axons or surrounded by parenchyma with clear signs of dystrophy or myelin alterations) and far (in proximity to the white matter of the dorsal column adjacent to the lesion surrounded by parenchyma without any signs of dystrophy or myelin alterations but observed in the same ultrathin section) were next imaged at a resolution of 5 nm per pixel for ultrastructural analyses. Images were stitched and exported as tifs using the software Zeiss Atlas 5 (Fibics, Ottawa).
Ultrastructural analysis of MG/MDM located far versus near the SCI site
Images of 10–14 MG/MDM from each animal (n = 3 animals; 37–42 MG/MDM per location, far from vs near the injury site) at a resolution of 5 nm per pixel were analyzed. All images were blinded to the experimental conditions. We analyzed a total sample size of 79 MG/MDM cell bodies which was determined to be sufficient to obtain statistical power based on the software G*Power V3.1 (effect size of 0.9; power of 0.9 estimated at 60 MG/MDM) (25, 27, 28). We did not perform immunostaining to distinguish MG/MDM as we wanted to further investigate the presence of glycogen granules within their cytoplasm (27) and the possible presence of dark MG (27, 29). MG/MDM were instead identified based on their distinct ultrastructural features, including their hetero- and euchromatin pattern, presence of long and narrow stretches of endoplasmic reticulum (ER) and unique distribution of organelles throughout their cytoplasm (26, 30). Dark MG are differentiated from MG by an electron-dense cytoplasm, loss of nuclear heterochromatin pattern and prevalent presence of ultrastructural markers of cellular stress (27). The quantitative analysis of MG’s intracellular content and their direct interactions with parenchymal elements was previously described in (26, 27, 30–33).
For parenchymal investigation, MG/MDM interactions with myelinated axons, both non- and degraded, were assessed. Non-degraded myelinated axons were identified by their electron-dense sheaths surrounding the axonal cytoplasm, while myelinated axons were classified as degraded if the myelin sheaths were degraded and/or if the myelinated axons were swollen or showed signs of dystrophy (e.g., presenting a dark cytoplasm) (34, 35). The ratio of contacts with degraded myelinated axons over all myelinated axons was calculated. The number of MG/MDM making a direct contact with a degraded myelinated axons was also determined. Axon terminals were characterized by their numerous circular synaptic vesicles (about 40 nm in diameter) while dendritic spines were only positively identified if they were located next to an axon terminal and possessed a post-synaptic density (electron-dense area) (26, 33, 36).
For MG/MDM intracellular content analysis, we assessed the presence of ultrastructural markers of phagolysosomal activity (partially-digested phagosomes, myelin containing phagosomes, fully-digested phagosomes, autophagosomes, primary lysosomes, secondary lysosomes, tertiary lysosomes), cellular stress (altered mitochondria, dilated ER) and alteration to other organelles (lipid bodies, elongated mitochondria, non-altered mitochondria, glycogen granules). Immature (primary and secondary) lysosomes were identified by their homogeneous (primary) or heterogeneous (secondary) appearance with the presence of electron-dense granules within. Tertiary lysosomes were differentiated from secondary lysosomes by the additional presence of residual lipid bodies and fully or partially-digested phagosomes (26, 35, 37, 38). Partially and fully-digested phagosomes were categorized based on their defined circular outline with an electron-lucent interior containing (partially-digested) or not (fully-digested) cellular elements (26, 38). We further examined phagosomes specifically presenting features of myelinated elements due to the location of the MG/MDM cell bodies within the white matter. Autophagosomes were recognized by their circular double-membrane containing elements with an interior that has the same appearance (electron-density) as the cytoplasm it came from (26, 27).
ER were identified by their long and narrow stretches located throughout the cytoplasm, while their cisternae were determined to be dilated if their width was beyond 100 nm (26, 30, 32, 39, 40). The ratio of dilated ER cisternae over non-dilated counterparts was calculated. Mitochondria were distinguished by their electron-dense double membrane and interior containing several cristae structures (26,30,37,41,42). Mitochondria were defined as altered if they possessed one of the following; degraded inner or outer membrane as identified by electron-lucent patches, swollen appearance, enlarged and electron-lucent cristae, or “holy shape” shown by mitochondria enwrapping themselves (26, 29, 39, 43). Elongated mitochondria were positively identified if their length measured more than 1000 nm (26, 31). The proportion of cells containing at least one element (relative percentage) was calculated for altered mitochondria and elongated mitochondria. The ratio of altered mitochondria over all mitochondria was also calculated. We additionally investigated the presence of glycogen granules, a carbohydrate storage that is defined ultrastructurally as 20–42 nm diameter electron-dense puncta (44). These were recently shown using SEM to be present within the cytoplasm of MG located near dystrophic neurites and amyloid beta plaques in a mouse model of Alzheimer’s disease pathology (27).
We further analyzed using the software ImageJ the shape of MG/MDM cell bodies by tracing the cytoplasmic and nuclear membrane with the “Freehand tool”, examining area, perimeter, solidity, aspect ratio and circularity. Aspect ratio was calculated by dividing the height over the width of the cell body while circularity was determined by multiplying 4π times the area over the perimeter squared (32, 35, 45, 46). Both measurements provide information on the elongation state of the cell (e.g., the closer the value is to 0, the more elongated is the cell body based on their circularity) (35, 45, 46).