m<sup>6</sup>A-modified RNAs possess distinct poly(A) tails

Shuang Wu; Yiwei Zhang; Lan Yao; Jiaqiang Wang; Falong Lu; Yusheng Liu

doi:10.1016/j.jgg.2022.10.001

Volume 50 Issue 3

Mar. 2023

Turn off MathJax

Article Contents

Article Navigation > Journal of Genetics and Genomics > 2023 > 50(3): 208-211

PDF( 1151 KB)

m⁶A-modified RNAs possess distinct poly(A) tails

doi: 10.1016/j.jgg.2022.10.001

1. College of Life Science, Northeast Agricultural University, Harbin, Hei Longjiang 150030, China;
2. State Key Laboratory of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China;
3. College of Life Science, Northeast Agricultural University, Harbin, Hei Longjiang 150030, China;
4. State Key Laboratory of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China;
5. University of Chinese Academy of Sciences, Beijing 100049, China;
6. State Key Laboratory of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing 100101, China;
7. College of Life Science, Northeast Forestry University, Harbin, Hei Longjiang 150040, China

Funds:

We thank Ms. Ying Liu for her technical assistance in cell culturing. We thank Dr. Hu Nie for his technical assistance in bioinformatic analysis. This work was supported by the National Key Research and Development Program of China (2020YFA0804000), the Strategic Priority Research Program of the Chinese Academy of Sciences (XDA24020203), the CAS Project for Young Scientists in Basic Research (YSBR-012), the National Natural Science Foundation of China (31970588, 32170606, 32201060), the Natural Science Foundation of Heilongjiang province (YQ2020C003), the China Postdoctoral Science Foundation (2020M670516, 2020T130687), and the State Key Laboratory of Molecular Developmental Biology.

Received Date: 2022-08-25
Accepted Date: 2022-10-09
Rev Recd Date: 2022-10-09
Publish Date: 2022-10-15

Abstract

FullText(HTML)

References(20)

References

[1]	Chang, H., Lim, J., Ha, M.,Kim, V.N., 2014. TAIL-seq: genome-wide determination of poly(A) tail length and 3' end modifications. Mol. Cell 53, 1044-1052.
[2]	Dominissini, D., Moshitch-Moshkovitz, S., Schwartz, S., Salmon-Divon, M., Ungar, L., Osenberg, S., Cesarkas, K., Jacob-Hirsch, J., Amariglio, N., Kupiec, M., et al., 2012. Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature 485, 201-206.
[3]	Hu, L., Liu, S., Peng, Y., Ge, R., Su, R., Senevirathne, C., Harada, B.T., Dai, Q., Wei, J., Zhang, L., et al., 2022. m(6)A RNA modifications are measured at single-base resolution across the mammalian transcriptome. Nat. Biotechnol. 40, 1210-1219.
[4]	Huang, H., Weng, H., Sun, W., Qin, X., Shi, H., Wu, H., Zhao, B.S., Mesquita, A., Liu, C., Yuan, C.L., et al., 2018. Recognition of RNA N(6)-methyladenosine by IGF2BP proteins enhances mRNA stability and translation. Nat. Cell Biol. 20, 285-295.
[5]	Kortel, N., Ruckle, C., Zhou, Y., Busch, A., Hoch-Kraft, P., Sutandy, F.X.R., Haase, J., Pradhan, M., Musheev, M., Ostareck, D., et al., 2021. Deep and accurate detection of m6A RNA modifications using miCLIP2 and m6Aboost machine learning. Nucleic Acids Res. 49, e92.
[6]	Liu, X., Wang, H., Zhao, X., Luo, Q., Wang, Q., Tan, K., Wang, Z., Jiang, J., Cui, J., Du, E., et al., 2021. Arginine methylation of METTL14 promotes RNA N(6)-methyladenosine modification and endoderm differentiation of mouse embryonic stem cells. Nat. Commun. 12, 3780.
[7]	Liu, Y., Nie, H., Liu, H.,Lu, F., 2019. Poly(A) inclusive RNA isoform sequencing (PAIso-seq) reveals wide-spread non-adenosine residues within RNA poly(A) tails. Nat. Commun. 10, 5292.
[8]	Liu, Y., Nie, H., Zhang, Y., Lu, F.,Wang, J., 2022a. Comprehensive analysis of mRNA poly(A) tails by PAIso-seq2. Sci. China Life Sci. 65.
[9]	Liu, Y., Zhang, Y., Wang, J.,Lu, F., 2022b. Transcriptome-wide measurement of poly(A) tail length and composition at subnanogram total RNA sensitivity by PAIso-seq. Nat. Protoc. 17, 1980-2007.
[10]	Meyer, K.D., Saletore, Y., Zumbo, P., Elemento, O., Mason, C.E.,Jaffrey, S.R., 2012. Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons. Cell 149, 1635-1646.
[11]	Viegas, I.J., de Macedo, J.P., Serra, L., De Niz, M., Temporao, A., Silva Pereira, S., Mirza, A.H., Bergstrom, E., Rodrigues, J.A., Aresta-Branco, F., et al., 2022. N(6)-methyladenosine in poly(A) tails stabilize VSG transcripts. Nature 604, 362-370.
[12]	Wang, X., Lu, Z., Gomez, A., Hon, G.C., Yue, Y., Han, D., Fu, Y., Parisien, M., Dai, Q., Jia, G., et al., 2014. N6-methyladenosine-dependent regulation of messenger RNA stability. Nature 505, 117-120.
[13]	Wang, X., Zhao, B.S., Roundtree, I.A., Lu, Z., Han, D., Ma, H., Weng, X., Chen, K., Shi, H.,He, C., 2015. N(6)-methyladenosine modulates messenger RNA translation efficiency. Cell 161, 1388-1399.
[14]	Weill, L., Belloc, E., Bava, F.A.,Mendez, R., 2012. Translational control by changes in poly(A) tail length: recycling mRNAs. Nat. Struct. Mol. Biol. 19, 577-585.
[15]	Wen, J., Lv, R., Ma, H., Shen, H., He, C., Wang, J., Jiao, F., Liu, H., Yang, P., Tan, L., et al., 2018. Zc3h13 regulates nuclear RNA m(6)A methylation and mouse embryonic stem cell self-renewal. Mol. Cell 69, 1028-1038 e1026.
[16]	Workman, R.E., Tang, A.D., Tang, P.S., Jain, M., Tyson, J.R., Razaghi, R., Zuzarte, P.C., Gilpatrick, T., Payne, A., Quick, J., et al., 2019. Nanopore native RNA sequencing of a human poly(A) transcriptome. Nat. Methods 16, 1297-1305.
[17]	Yang, D., Qiao, J., Wang, G., Lan, Y., Li, G., Guo, X., Xi, J., Ye, D., Zhu, S., Chen, W., et al., 2018a. N6-Methyladenosine modification of lincRNA 1281 is critically required for mESC differentiation potential. Nucleic Acids Res. 46, 3906-3920.
[18]	Yang, Y., Hsu, P.J., Chen, Y.S.,Yang, Y.G., 2018b. Dynamic transcriptomic m(6)A decoration: writers, erasers, readers and functions in RNA metabolism. Cell Res. 28, 616-624.
[19]	Yu, S.,Kim, V.N., 2020. A tale of non-canonical tails: gene regulation by post-transcriptional RNA tailing. Nat. Rev. Mol. Cell Biol. 21, 542-556.
[20]	Zhao, X., Yang, Y., Sun, B.F., Shi, Y., Yang, X., Xiao, W., Hao, Y.J., Ping, X.L., Chen, Y.S., Wang, W.J., et al., 2014. FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis. Cell Res. 24, 1403-1419.