Fig. 3: scm⁶A-seq distinguishes surrounded nucleolus (SN) and non-surrounded nucleolus (NSN) oocytes.

a–c Uniform manifold approximation and projection (UMAP) plot based on the reads count matrix of RNA-seq (a) and m⁶A-IP (b), and merged total reads count of single GV oocytes (c). The UMAP plot is colored on the basis of the cells type. Source data are provided as a Source data file. d The 3D plot showing the relative m⁶A level of each GV oocyte based on the UMAP results, colored by cells type (left) and cells reclassified by the comprehensive analysis of the gene expression matrix reduced dimensions by UMAP and m⁶A level (right). Source data are provided as a Source data file. e The two-dimensional UMAP diagram showing the cell populations on the basis of the classification results in (d). The Clusters 1–4 of cells were redefined as Control SN, Control NSN, Mettl3 cKO SN, and Mettl3 cKO NSN clusters according to the expression of marker RNAs and genome type of oocytes. Source data are provided as a Source data file. f Violin plot showing the quality of markers Gata3 and Mpak7 expression in oocytes in different clustering populations. g Combined box and scatter plot showing the difference in RNA amount between SN and NSN oocytes. n (Control SN) = 19, n (Control NSN) = 12, n (Mettl3 cKO SN) = 14, and n (Mettl3 cKO) = 12. The middle lines of the boxes represent the medians of datasets. The upper and bottom lines of the boxes are respectively the upper quantile and the lower quantile of the data. The whiskers mark the upper and lower limits of these datasets, respectively. The two-sided P value was calculated by unpaired student t test. Source data are provided as a Source data file. h Morphology of the pronuclear in both the SN and NSN oocytes isolated from the cumulus cell-oocyte complex (COC). Both control and METTL3-null oocytes were stained with DAPI and an anti-METTL3 antibody. n (Control) = 28, n (Mettl3^Gdf9 cKO) = 14. The white rectangle represents the area of the nucleus to be enlarged. Source data are provided as a Source data file. i Heatmap showing the expression levels of presentative genes in both control and METTL3-null oocytes (left) and oocytes at different growth stages (right). The representative genes were identified by the most differentially expressed genes in the SN and NSN oocytes compared to control oocytes. Source data are provided as a Source data file.