Genomics

Dataset Information

57

YTHDF3 facilitates translation and decay of the N6-methyladenosine-modified RNA


ABSTRACT: N6-methyladenosine (m6A) is the most abundant internal modification in eukaryotic messenger RNAs (mRNAs), and plays important roles in cell differentiation and organism development. It regulates multiple steps throughout the RNA life cycle including RNA processing, translation, and metabolism, via the recognition by selective binding proteins. In cytoplasm, m6A binding protein YTHDF1 facilitates translation of m6A-modified mRNAs, and YTHDF2 accelerates the decay of m6A-modified transcripts. The biological function of YTHDF3, another cytoplasmic m6A binder of the YTH domain family, remains unknown. Here, we report that YTHDF3 promotes protein synthesis in synergy with YTHDF1, and affects methylated mRNA decay mediated by YTHDF2. Cells deficient in all of YTHDF proteins experience the most dramatic accumulation of the m6A-methylated transcripts. These results indicate that in cytoplasm, YTHDF proteins act in an integrated and cooperative network to accelerate metabolism of m6A-modified mRNAs. The combinative and dynamic nature of YTHDF proteins may collectively impact fundamental biological processes and diseases related to m6A RNA methylation. Overall design: We utilized PAR-CLIP triplicates and RIP replicates to identify binding sites and target transcripts of YTHDF3, and performed ribosome profling replicates to assess the consequences of YTHDF3 siRNA knock-down in HeLa cells.

INSTRUMENT(S): Illumina HiSeq 2000 (Homo sapiens)

SUBMITTER: Chuan He  

PROVIDER: GSE86214 | GEO | 2016-09-15

SECONDARY ACCESSION(S): PRJNA340948

REPOSITORIES: GEO

Dataset's files

Source:
Action DRS
GSE86214_YTHDF3_PAR-CLIP.xlsx Xlsx
GSE86214_YTHDF3_RIP.xlsx Xlsx
GSE86214_siYTHDF3_RiboProfile.xlsx Xlsx
GSE86214_siYTHDF3_YTHDF12RIP.xlsx Xlsx
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Publications

YTHDF3 facilitates translation and decay of N<sup>6</sup>-methyladenosine-modified RNA.

Shi Hailing H   Wang Xiao X   Lu Zhike Z   Zhao Boxuan S BS   Ma Honghui H   Hsu Phillip J PJ   Liu Chang C   He Chuan C  

Cell research 20170120 3


N<sup>6</sup>-methyladenosine (m<sup>6</sup>A) is the most abundant internal modification in eukaryotic messenger RNAs (mRNAs), and plays important roles in cell differentiation and tissue development. It regulates multiple steps throughout the RNA life cycle including RNA processing, translation, and decay, via the recognition by selective binding proteins. In the cytoplasm, m<sup>6</sup>A binding protein YTHDF1 facilitates translation of m<sup>6</sup>A-modified mRNAs, and YTHDF2 accelerates th  ...[more]

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