Synchrotron radiation micro-tomography for high-resolution neurovascular network morphology investigation

Cao, Y.; Zhang, M.; Ding, H.; Chen, Z.; Tang, B.; Wu, T.; Xiao, B.; Duan, C.; Ni, S.; Jiang, L.; Luo, Z.; Li, C.; Zhao, J.; Liao, S.; Yin, X.; Fu, Y.; Xiao, T.; Lu, H.; Hu, J.

doi:10.1107/S1600577519003060

Figure 4
Multi-scale reconstruction in neocortex. (A) Cortical neuronal somata reconstruction to aid in cortical layer boundaries (dotted lines) based on cell number and size. Large neurons are labeled red; intermediate ones are labeled yellow; and small ones are labeled blue. The site of the saturated segmentation is in layer V (pink arrow). These two-layer VI pyramidal cell somata (red and green arrows) give rise to the apical dendrites that form the core of the saturated cylinders. (B) A single section of the manually saturated reconstruction of the high-resolution data. The borders of the cylinders encompassing the `red' and `green' apical dendrites are outlined in this section as red and green quadrilaterals. This section runs through the center of the `green' apical dendrite. (C) A single section of a fully automated saturated reconstruction of the high-resolution data. The higher magnification view (lower left inset) shows 2D merge and split errors. (D) The two pyramidal cells (red and green arrows) whose apical dendrites lie in the centers of the saturated reconstructions. Dendritic spines reconstructed in the high-resolution image stack only. (E) The saturated reconstruction volume. (F–N) The `parts list' of the saturated volume. (O) Reconstruction of 30 dendrites contained within cylinder 1 (pink arrow) that were traced back to their cell bodies. These dendrites were predominantly apical dendrites of pyramidal cells (gold), several basal dendrites of pyramidal cells (blue), and in one case both a branch of the apical and a basal dendrite branch of the same pyramidal cell entered the volume (green) and a small number of non-pyramidal cell dendrites (red). The somata of the red and green apical dendrites that lie at the centers of saturated reconstruction are shown by the red and green arrows. Scale bars: 1 µm for (B) and (C); and 7 µm for (E). Reproduced with permission from Kasthuri et al. (2015

). Copyright (2015), Elsevier.

JOURNAL OF
SYNCHROTRON
RADIATION

ISSN: 1600-5775

Volume 26| Part 3| May 2019| Pages 607-618

https://doi.org/10.1107/S1600577519003060

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