TY - JOUR
T1 - Quantitative profiling of m6A at single base resolution across the life cycle of rice and Arabidopsis
AU - Wang, Guanqun
AU - Li, Haoxuan
AU - Ye, Chang
AU - He, Kayla
AU - Liu, Shun
AU - Jiang, Bochen
AU - Ge, Ruiqi
AU - Gao, Boyang
AU - Wei, Jiangbo
AU - Zhao, Yutao
AU - Li, Aixuan
AU - Zhang, Di
AU - Zhang, Jianhua
AU - He, Chuan
N1 - Publisher Copyright:
© The Author(s) 2024.
PY - 2024/6/7
Y1 - 2024/6/7
N2 - N6-methyladenosine (m6A) plays critical roles in regulating mRNA metabolism. However, comprehensive m6A methylomes in different plant tissues with single-base precision have yet to be reported. Here, we present transcriptome-wide m6A maps at single-base resolution in different tissues of rice and Arabidopsis using m6A-SAC-seq. Our analysis uncovers a total of 205,691 m6A sites distributed across 22,574 genes in rice, and 188,282 m6A sites across 19,984 genes in Arabidopsis. The evolutionarily conserved m6A sites in rice and Arabidopsis ortholog gene pairs are involved in controlling tissue development, photosynthesis and stress response. We observe an overall mRNA stabilization effect by 3’ UTR m6A sites in certain plant tissues. Like in mammals, a positive correlation between the m6A level and the length of internal exons is also observed in plant mRNA, except for the last exon. Our data suggest an active m6A deposition process occurring near the stop codon in plant mRNA. In addition, the MTA-installed plant mRNA m6A sites correlate with both translation promotion and translation suppression, depicting a more complicated regulatory picture. Our results therefore provide in-depth resources for relating single-base resolution m6A sites with functions in plants and uncover a suppression-activation model controlling m6A biogenesis across species.
AB - N6-methyladenosine (m6A) plays critical roles in regulating mRNA metabolism. However, comprehensive m6A methylomes in different plant tissues with single-base precision have yet to be reported. Here, we present transcriptome-wide m6A maps at single-base resolution in different tissues of rice and Arabidopsis using m6A-SAC-seq. Our analysis uncovers a total of 205,691 m6A sites distributed across 22,574 genes in rice, and 188,282 m6A sites across 19,984 genes in Arabidopsis. The evolutionarily conserved m6A sites in rice and Arabidopsis ortholog gene pairs are involved in controlling tissue development, photosynthesis and stress response. We observe an overall mRNA stabilization effect by 3’ UTR m6A sites in certain plant tissues. Like in mammals, a positive correlation between the m6A level and the length of internal exons is also observed in plant mRNA, except for the last exon. Our data suggest an active m6A deposition process occurring near the stop codon in plant mRNA. In addition, the MTA-installed plant mRNA m6A sites correlate with both translation promotion and translation suppression, depicting a more complicated regulatory picture. Our results therefore provide in-depth resources for relating single-base resolution m6A sites with functions in plants and uncover a suppression-activation model controlling m6A biogenesis across species.
UR - http://www.scopus.com/inward/record.url?scp=85195533953&partnerID=8YFLogxK
U2 - 10.1038/s41467-024-48941-7
DO - 10.1038/s41467-024-48941-7
M3 - Journal article
C2 - 38849358
AN - SCOPUS:85195533953
SN - 2041-1723
VL - 15
JO - Nature Communications
JF - Nature Communications
M1 - 4881
ER -