Combined and differential roles of ADD domains of DNMT3A and DNMT3L on DNA methylation landscapes in mouse germ cells

• Published in: Nature communications 2024-04, Vol.15 (1), p.3266-3266, Article 3266
• Main Authors: Kubo, Naoki, Uehara, Ryuji, Uemura, Shuhei, Ohishi, Hiroaki, Shirane, Kenjiro, Sasaki, Hiroyuki
• Format: Article
• Language: English
• Subjects: 45; 45/91; 49/23; 49/39; 631/136/2434; 631/208/176/1968; 631/208/176/1988; 631/208/200; 64/60; 82/1; Amino acids; Animals; Deoxyribonucleic acid; DNA; DNA (Cytosine-5-)-Methyltransferases - metabolism; DNA Methylation; DNA methyltransferase; DNA Methyltransferase 3A; Female; Gametocytes; Germ cells; Germ Cells - metabolism; Histone H3; Histones; Histones - metabolism; Humanities and Social Sciences; In vivo methods and tests; Lysine; Male; Mammals; Mammals - metabolism; Mice; multidisciplinary; Oocytes; Proteins; Science; Science (multidisciplinary); Spermatozoa; Transcription Factors - metabolism
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-024-47699-2

DNA methyltransferase 3A (DNMT3A) and its catalytically inactive cofactor DNA methyltransferase 3-Like (DNMT3L) proteins form functional heterotetramers to deposit DNA methylation in mammalian germ cells. While both proteins have an ATRX-DNMT3-DNMT3L (ADD) domain that recognizes histone H3 tail unmethylated at lysine-4 (H3K4me0), the combined and differential roles of the domains in the two proteins have not been fully defined in vivo. Here we investigate DNA methylation landscapes in female and male germ cells derived from mice with loss-of-function amino acid substitutions in the ADD domains of DNMT3A and/or DNMT3L. Mutations in either the DNMT3A-ADD or the DNMT3L-ADD domain moderately decrease global CG methylation levels, but to different degrees, in both germ cells. Furthermore, when the ADD domains of both DNMT3A and DNMT3L lose their functions, the CG methylation levels are much more reduced, especially in oocytes, comparable to the impact of the Dnmt3a/3L knockout. In contrast, aberrant accumulation of non-CG methylation occurs at thousands of genomic regions in the double mutant oocytes and spermatozoa. These results highlight the critical role of the ADD-H3K4me0 binding in proper CG and non-CG methylation in germ cells and the various impacts of the ADD domains of the two proteins. DNMT3A and DNMT3L form a complex to deposit DNA methylation in mammalian germ cells. Here, the authors report that loss-of-function of ADD domains of DNMT3A and/or DNMT3L has various impacts on DNA methylation landscapes in mouse oocytes and sperm.