Extended Data Fig. 6: Overexpression of Kdm5b histone demethylase abrogates paternal LAD establishment in the zygote. | Nature

Extended Data Fig. 6: Overexpression of Kdm5b histone demethylase abrogates paternal LAD establishment in the zygote.

From: Genome–lamina interactions are established de novo in the early mouse embryo

Extended Data Fig. 6

a, Quantifications of immunostaining with H3K9me3 in zygotes injected with wild-type and mutant KDM4D. Violin plots show the values at most 1.5 × IQR and median (red lines). n = at least three biologically independent samples. Wilcoxon rank-sum test P values shown (two-sided). b, Average paternal-specific H3K4me3 signal at paternal-specific LAD boundaries of each respective embryonic stage. c, Average maternal specific H3K4me3 signal at maternal specific LAD boundaries of each respective embryonic stage. d, Quantification as described for a but with H3K4me3. e, Immunostaining and quantification of lamin B1 localization in the Kdm5b-expressing zygotes. f, Global transcription detection (EU incorporation) and quantification in H3K4me3 in the Kdm5b-expressing zygotes. g, Immunofluorescent staining of H3K9me3 in mutant and wild-type KDM5B-expressing embryos. h, Immunofluorescent staining of H3K9me2 in mutant and wild-type KDM5B injected embryos. i, Hierarchical clustering based on Pearson correlation of Dam–lamin B1 signal from single pronuclei of wild-type and mutant Kdm5b-injected zygotes (samples from three independent experiments). For comparison, population average Dam and Dam–lamin B1 signals are included as grey and black squares, respectively. j, Average Dam–lamin B1 signal at LAD boundaries in hybrid H3K4me3 manipulated embryos. Signal shown in maternal genome (top) and paternal genome (bottom). k, Chromosome profiles of H3K4me3 ChIP with sequencing (ChIP–seq)20 signal from sperm, early zygotes and late zygotes. l, Average H3K4me3 levels in sperm, early zygotes and late zygotes at paternal zygotic LAD borders. In eh, violin plots show the values at most 1.5 × IQR and median (red lines); Wilcoxon rank-sum test P values shown (two-sided). Scale bars, 10 μm.

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