Dynamic m6A mRNA methylation reveals the involvement of AcALKBH10 in ripening-related quality regulation in kiwifruit

Su, D. ORCID: https://orcid.org/0000-0002-6783-3758, Shu, P. ORCID: https://orcid.org/0000-0003-2091-374X, Hu, N., Chen, Y., Wu, Y., Deng, H. ORCID: https://orcid.org/0000-0001-6440-6972, Du, X., Zhang, X., Wang, R., Li, H., Zeng, Y. ORCID: https://orcid.org/0000-0002-7969-6754, Li, D. ORCID: https://orcid.org/0000-0002-5138-4492, Xie, Y., Li, M., Hong, Yiguo, Liu, K. ORCID: https://orcid.org/0000-0003-4078-739X and Liu, M. ORCID: https://orcid.org/0000-0001-8004-1758 (2024) Dynamic m6A mRNA methylation reveals the involvement of AcALKBH10 in ripening-related quality regulation in kiwifruit. New Phytologist, 243 (6). pp. 2265-2278. ISSN 1469-8137

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Abstract

Summary Kiwifruit ripening is a complex and highly coordinated process that occurs in conjunction with the formation of fruit edible quality. The significance of epigenetic changes, particularly the impact of N6‐methyladenosine (m6A) RNA modification on fruit ripening and quality formation, has been largely overlooked. We monitored m6A levels and gene expression changes in kiwifruit at four different stages using LC‐MS/MS, MeRIP, RNA‐seq, and validated the function of AcALKBH10 through heterologous transgenic expression in tomato. Notable m6A modifications occurred predominantly at the stop codons and the 3′ UTRs and exhibited a gradual reduction in m6A levels during the fruit ripening process. Moreover, these m6A modifications in the aforementioned sites demonstrated a discernible inverse relationship with the levels of mRNA abundance throughout the ripening process, suggesting a repression effect of m6A modification in the modulation of kiwifruit ripening. We further demonstrated that AcALKBH10 rather than AcECT9 predominantly regulates m6A levels in ripening‐related genes, thereby exerting the regulatory control over the ripening process and the accumulation of soluble sugars and organic acids, ultimately influencing fruit ripening and quality formation. In conclusion, our findings illuminate the epi‐regulatory mechanism involving m6A in kiwifruit ripening, offering a fresh perspective for cultivating high‐quality kiwifruit with enhanced nutritional attributes.

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