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. 2019 Nov 19;8:e50617. doi: 10.7554/eLife.50617

Figure 6. eCN numbers are reduced in eCN+GCP-En1/2 and eCN-En1/2 CKOs but not in GCP-En1/2 CKOs at P30.

(A) Representative immunohistochemistry for NeuN in all Dox regimens from midline (left) to lateral (right) cerebellum of P30 control and each of the cell specific En1/2 CKOs. (B) Quantification of NeuN+ cells that are 100–600 um2 (eCN size range) showing reduction in eCN+GCP- and eCN-En1/2 CKOs compared to controls, but not in GCP-En1/2 CKOs (Two-way ANOVA, F(1,24)=10.26, p=0.0038). (C,D) Mediolateral distribution of 100–600 um2 NeuN+ cells in eCN+GCP- and eCN-En1/2 CKO mutants showing a loss in medial and intermediate eCN compared to controls. eCN counts are plotted as bins of 5% percent of the mediolateral distance. (eCN+GCP-En1/2 CKO: Two-way ANOVA, F(1,120)=63.33, p=0.0001; eCN-En1/2 CKO: Two-way ANOVA, F(1,240)=104.4, p=0.0001) (E) Quantification of eCN in each nucleus of mutants relative to littermate controls (medial, MN; intermediate, IN; lateral, LN) showing a significant decrease in the MN and IN in eCN-En1/2 CKO (one-sample t-test per nucleus; MN: p=0.03, IN: p=0.02, LN: p=0.80) and eCN+GCP-En1/2 CKO mutants (one-sample t-test per nucleus; MN: p<0.0001, IN: p<0.001, LN: p=0.437). (F,G) Quantification of the ratio of PCs (from anterior and central sectors) to eCN in the medial nucleus in eCN+GCP- (F) and eCN-En1/2 CKOs (G), compared to the control littermates (Student’s t-test). Significant post hoc comparisons are shown in the figure. Scale bar = 250 μm. VeN = vestibular nuclei.

Figure 6.

Figure 6—figure supplement 1. Semi-automated eCN counting methodology.

Figure 6—figure supplement 1.

(A) NeuN immunofluorescence in sections of the CN from Atoh1-nTDTom mice. Digital zoom of the staining (i and ii) showing neurons that are NeuN+/nTDTom+ (arrows) or NeuN+/nTDTom- (arrowhead). (B) Quantification of the number of nTDTom+/NeuN+ cells and total number of NeuN+ cells from seven sections that encompass the mediolateral span of the CN in half a cerebellum. (C) NeuN+ cell body area was manually measured on seven sections collected from one Atoh1-nTDTom mouse using the free-hand tool in Fiji in either nTDTom+ or nTDTom- neurons. The size of the NeuN+/nTDTom+ (eCN neurons) ranged from approximately 125 um2 to 576 um2, whereas nTDTom- (CN interneurons) ranged from approximately 50 um2 to 240 um2. Quantification shows that the size of nTDTom+ cells is significantly larger than nTDTom- cells (Student’s t-test). (D) Example images of the steps in the image modifications used to enhance contrast and detect cell bodies using auto-threshold in Fiji. Digital zoom-in of NeuN immunohistochemistry (i and ii) for each image processing step shows reliable detection of NeuN+ neurons.