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. 2023 Nov 30;12:RP89373. doi: 10.7554/eLife.89373

Figure 2. Changes in the histone H3K4me2 modification in germline-expressed genes.

H3K4me2 signal around gene promoters (–200 to +500 bp) with transcripts enriched in specific germline cell types. Transcript expression was derived from FCA snRNA-seq clustering (Raz et al., 2023). (A) Expression (snRNA-seq) in wildtype testes and H3K4me2 enrichment in bam mutant, in aly mutant, and in wildtype testes in germline stages. Z-scores for H3K4me2 signal were calculated between the three genotypes. Notable germline-enriched genes are indicated, including those expressed in GSCs, in meiosis, or for cell division (black), linked to the Y chromosome (purple), or expressed post-meiotically (orange). (B) Selected examples of promoters with germline-enriched expression. Expression z-scores from FCA snRNA-seq across 18 germline clusters (Raz et al., 2023) and H3K4me2 enrichment in bam mutant, in aly mutant, and in wildtype testes. (C) Distribution of H3K4me2 around promoters with germline-enriched expression. The testis somatic category comprises the top tercile of promoters with somatic cell-type expression in snRNA-seq data (Raz et al., 2023). Only promoters with no promoter of a second gene within 1 kb upstream are shown.

Figure 2.

Figure 2—figure supplement 1. Genes with germline-enriched expression in testes.

Figure 2—figure supplement 1.

(A) FCA clustering. Number of promoters in each cluster is marked on the left. (B) MA plot and threshold for germline-enriched genes (snRNA-seq data showing gexp/sexp with >1 cut-off). Red marks genes in germline-expressed clusters 1–5, and blue marks genes in testes somatic clusters 6–10. The threshold for assigning genes with germline-enriched expression is in green.