title: Transcriptome-wide mapping reveals reversible and dynamic N(1)-methyladenosine methylome.
abstract: N(1)-Methyladenosine (m(1)A) is a prevalent post-transcriptional RNA modification, yet little is known about its abundance, topology and dynamics in mRNA. Here, we show that m(1)A is prevalent in Homo sapiens mRNA, which shows an m(1)A/A ratio of ∼0.02%. We develop the m(1)A-ID-seq technique, based on m(1)A immunoprecipitation and the inherent ability of m(1)A to stall reverse transcription, as a means for transcriptome-wide m(1)A profiling. m(1)A-ID-seq identifies 901 m(1)A peaks (from 600 genes) in mRNA and noncoding RNA and reveals a prominent feature, enrichment in the 5' untranslated region of mRNA transcripts, that is distinct from the pattern for N(6)-methyladenosine, the most abundant internal mammalian mRNA modification. Moreover, m(1)A in mRNA is reversible by ALKBH3, a known DNA/RNA demethylase. Lastly, we show that m(1)A methylation responds dynamically to stimuli, and we identify hundreds of stress-induced m(1)A sites. Collectively, our approaches allow comprehensive analysis of m(1)A modification and provide tools for functional studies of potential epigenetic regulation via the reversible and dynamic m(1)A methylation.
authors: State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing, China.|Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China.
authors: Xiaoyu
authors: X
authors: Li
authors: State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing, China.|Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China.|Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China.
authors: Xushen
authors: X
authors: Xiong
authors: State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing, China.|Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China.
authors: Kun
authors: K
authors: Wang
authors: State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing, China.|Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China.
authors: Lixia
authors: L
authors: Wang
authors: State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing, China.|Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China.|Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China.
authors: Xiaoting
authors: X
authors: Shu
authors: State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing, China.|Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China.|Academy for Advanced Interdisciplinary Studies, Peking University, Beijing, China.
authors: Shiqing
authors: S
authors: Ma
authors: State Key Laboratory of Protein and Plant Gene Research, School of Life Sciences, Peking University, Beijing, China.|Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, China.|Synthetic and Functional Biomolecules Center, Department of Chemical Biology, College of Chemistry and Molecular Engineering, Peking University, Beijing, China.
authors: Chengqi
authors: C
authors: Yi
mesh_terms: D000241:Adenosine / Q000031:analogs & derivatives* / Q000378:metabolism; D000071500:AlkB Homolog 3, Alpha-Ketoglutarate-Dependent Dioxygenase; D000906:Antibodies; D001483:Base Sequence; D002460:Cell Line; D045643:DNA Repair Enzymes / Q000235:genetics / Q000378:metabolism; D049308:Dioxygenases / Q000235:genetics / Q000378:metabolism; D005786:Gene Expression Regulation / Q000502:physiology; D006801:Humans; D008745:Methylation; D012323:RNA Processing, Post-Transcriptional; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D059467:Transcriptome
chemical_list: D000906:Antibodies; D012333:RNA, Messenger; C002230:1-methyladenosine; D049308:Dioxygenases; C486439:ALKBH3 protein, human; D000071500:AlkB Homolog 3, Alpha-Ketoglutarate-Dependent Dioxygenase; D045643:DNA Repair Enzymes; D000241:Adenosine