The metric analysis of three-dimensional dendritic tree patterns: a methodological review
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2021, Brain, Behavior, and ImmunityCitation Excerpt :Morphometric analysis of total dendritic length (summed lengths of all basal dendritic branches per neuron) and dendritic complexity, including the number of branches, branch points (nodes), and terminal tips (endings), for basal dendrites of all reconstructed neurons was performed with Neuroexplorer software (MBF Bioscience). Branch order analysis was also performed for these parameters according to a centrifugal nomenclature (Uylings et al., 1986), where the dendritic branches arising from the soma are considered first-order segments until they branch into second-order segments, which branch into third-order segments, etc. For further analysis of dendritic complexity, Sholl analysis (Sholl, 1956) was performed on all reconstructed neurons to calculate the number of intersections of dendrites per each Sholl ring (5-µm interval concentric spheres centered on the soma).
The Impact of Physical Enrichment in the Structure of the Medial Prefrontal Cortex and Nucleus Accumbens of the Adult Male Rat Brain
2021, NeuroscienceCitation Excerpt :Golgi-impregnated pyramidal neurons of the mPFC were readily identified by their characteristic triangular soma, apical dendrites extending toward the pial surface, and numerous dendritic spines. The criteria used to select neurons for reconstruction were those described by Uylings et al. and Radley et al. (Uylings et al., 1986; Radley et al., 2004): (1) location of the cell soma in layer II/III of the mPFC, approximately in the middle third of the section, located between 200 µm and 400 µm distance from the pial surface; (2) full impregnation of the neurons; (3) apical dendrite without truncated branches (except on the most superficial layer); (4) presence of at least 3 primary basal dendritic shafts, each of which branched at least once; and (5) no morphological changes attributable to incomplete dendritic impregnation of Golgi-Cox staining. Golgi-impregnated medium spiny neurons of the NAc subdivisions core and shell were identified, isolated inside those subdivisions, by their stellate shape and only full impregnation of the neurons without truncated branches were drawn.
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2013, Journal of Neuroscience MethodsCitation Excerpt :Given any shape, it is possible to map its morphological properties in terms of several measurements, which can be suitably represented as a feature vector (da F. Costa and Cesar Jr., 2001), namely a vector containing the measurements of the object under analysis. For instance, given the shape of a neuronal cell, it is possible to measure its volume, orientations of its processes (da F. Costa, 1995), its fractal dimension (da F. Costa and Velte, 1999; da F. Costa et al., 2002), lacunarity (Gefen et al., 1983; Mandelbrot, 1982; Allain and Cloitre, 1991), wavelet features (da F. Costa et al., 1997; da F. Costa and Cesar Jr., 1998), Sholl's concentric spheres (Uylings et al., 1986), excluded volume and autocorrelations (da F. Costa et al., 2005a), as well as families of Minkowski shape functionals (Barbosa et al., 2003b), to name but a few among many other possibilities (Uylings and van Pelt, 2002; van Pelt and Uylings, 2007; Uylings et al., 1986). Several of the commonly used measurements can be easily calculated through the L-measure software (Scorcioni et al., 2008), which accepts as an input a neuronal shape, described by a.swc file (Cannon et al., 1998), and outputs many shape descriptors of interest.