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RNA Methylation

We have developed two independent new methods, MeRIP-Seq and TRAC-Seq, to profile the m7G tRNA methylome at single nucleotide resolution. We identified the subset m7G-modified tRNAs and discovered that the METTL1/WDR4-mediated m7G tRNA methylome is required for normal mRNA translation and ESC self-renewal and differentiation.

  1. Lin S., Liu Q., Lelyveld V. S., Choe J., Szostak J. W., and Gregory R. I. Mettl1/Wdr4-mediated m7G tRNA methylome is required for normal mRNA translation and embryonic stem cell self-renewal and differentiation. Mol Cell 2018, 71, 244-255. PMID: 29983320. PMC6086580.
  2. Liu Q., and Gregory R. I. RNAmod: an integrated system for the annotation of mRNA modifications. Nucleic Acids Res 2019, 47, W548-W555. PMID: 31147718. PMC6602476.
  3. Lin S., Liu Q., Jiang Y. Z., and Gregory R. I. Nucleotide resolution profiling of m7G modification by TRAC-Seq. Nat Protoc 2019, 14, 3220-3242. PMID: 31619810. PMC8959837.
  4. Chen H., Gu L., Orellana E. A., Wang Y., Guo J., Liu Q., Wang L., Shen Z., Wu H., Gregory R. I., Xing Y., and Shi Y.. METTL4 is an snRNA m6Am methyltransferase that regulates RNA splicing. Cell Res 2020, 6, 544-547. PMID: 31913360. PMC7264358.
  5. Liu Q., Lang X., and Gregory R. I. An informatics pipeline for profiling and annotating RNA modifications. Methods Mol Biol 2021, 2298, 15-27. PMID: 34085236.
  6. Cui J., Liu Q., Sendinc E., Shi Y., and Gregory R. I. Nucleotide resolution profiling of m3C RNA modification by HAC-seq. Nucleic Acids Res 2021, 49, e27. PMID: 33313824. PMC7969016.
  7. Xiong X., Hou L., Park Y., Molinie B., GTEx Consortium, Gregory R. I., and Kellis M. Genetic drivers of m6A methylation in human brain, lung, heart and muscle. Nature Genet 2021, 53, 1156-1165. PMID: 34211177. PMC9112289.
  8. Orellana E. A., Siegal E., and Gregory R. I. tRNA dysregulation and disease. Nat Rev Genet 2022, 23, 651-664. PMID: 35681060. PMC11170316.
  9. Yang X., Triboulet R., Liu Q., Sendinc E., and Gregory R. I. Exon junction complex shapes the m6A epitranscriptome. Nat Commun 2022, 13, 7904. PMID: 36550132. PMC9780246.
  10. Liu Q., Peng X., Shen M., Qian Q., Xing J., Li C., and Gregory R. I. Ribo-uORF: a comprehensive data resource of upstream open reading frames (uORFs) based on ribosome profiling. Nucleic Acids Res 2023, 51, D248-D261. PMID: 36440758. PMC9825487.
  11. Li J., Wang L., Hahn Q., Nowak R. P., Viennet T., Orellana E. A., Roy Burman S. S., Yue H., Hunkeler M., Fontana P., Wu H., Arthanari H., Fischer E. S., and Gregory R. I. Structural basis of regulated m7G tRNA modification by METTL1-WDR4. Nature. 2023, 613, 391-397. PMID: 36599985. PMC11179147.