Extended Data Fig. 8: PCDHγ removal causes a lateral clustering of excitatory neuron clones during embryonic and neonatal neocortical development.

a, Representative 3D reconstruction images of E15 WT (left) and Pcdhg cKO (right) clones labelled by MADM at E12. Coloured lines indicate the layer boundaries and coloured dots represent the cell bodies of labelled cells. The x-/y-/z-axes indicate the spatial orientation of the clone with the x-axis parallel to the brain pial surface and the y-axis perpendicular to the pial surface. Similar symbols and displays are used in subsequent panels. Scale bar, 100 μm. b—e, Quantification of the pairwise (b, c) and maximal (d, e) lateral and radial distances between cells in individual E15 WT and Pcdhg cKO clones (WT, n = 54 clones from ~160 brain slices/4 brains; Pcdhg cKO, n = 62 clones from ~150 brain slices/4 brains). f, Representative 3D reconstruction images of E18 WT (left) and Pcdhg cKO (right) clones labelled by MADM at E12. Scale bar, 100 μm. g—j, Quantification of the pairwise (g, h) and maximal (i, j) lateral and radial distances between cells in individual E18 WT and Pcdhg cKO clones (WT, n = 60 clones from ~140 brain slices/4 brains; Pcdhg cKO, n = 76 clones from ~135 brain slices/4 brains). k, l, Representative 3D reconstruction images of P7 WT (left) and Pcdhg cKO (right) symmetric (k) and asymmetric (l) clones labelled by MADM at E12. Coloured lines indicate the layer boundaries and coloured dots represent the cell bodies of labelled neurons. Note that the Pcdhg cKO clones are more laterally clustered than the WT clones. Scale bars, 100 μm. m—p, Quantification of the pairwise (m, n) and maximal (o, p) lateral and radial distances between neurons in individual P7 WT and Pcdhg cKO clones (WT, n = 66 clones from ~204 brain slices/4 brains; Pcdhg cKO, n = 71 clones from ~215 brain slices/4 brains). Data are representative of three independent experiments. Two-tailed unpaired Student’s t-test was used for statistical test. Box plots as in Fig. 1.

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