tRNA modification genes are associated with genomic instability, proliferative programs, and poor prognosis in breast cancer

Edgren H, Kallioniemi O. Integrated breast cancer genomics. Cancer Cell. 2006;10(6):453–4.

Article  CAS  PubMed  Google Scholar 

Heng YJ, Lester SC, Tse GM, Factor RE, Allison KH, Collins LC, et al. The molecular basis of breast cancer pathological phenotypes. J Pathol. 2017;241(3):375–91.

Article  CAS  PubMed  Google Scholar 

Nolan E, Lindeman GJ, Visvader JE. Deciphering breast cancer: from biology to the clinic. Cell. 2023;186(8):1708–28.

Article  CAS  PubMed  Google Scholar 

Wang M, Klevebring D, Lindberg J, Czene K, Grönberg H, Rantalainen M. Determining breast cancer histological grade from RNA-sequencing data. Breast Cancer Res. 2016;18(1):48.

Article  PubMed  PubMed Central  Google Scholar 

Pedersen CB, Nielsen FC, Rossing M, Olsen LR. Using microarray-based subtyping methods for breast cancer in the era of high-throughput RNA sequencing. Mol Oncol. 2018;12(12):2136–46.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Sendoel A, Dunn JG, Rodriguez EH, Naik S, Gomez NC, Hurwitz B, et al. Translation from unconventional 5’ start sites drives tumour initiation. Nature. 2017;541(7638):494–9.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Xu Y, Poggio M, Jin HY, Shi Z, Forester CM, Wang Y, et al. Translation control of the immune checkpoint in cancer and its therapeutic targeting. Nat Med. 2019;25(2):301–11.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Fabbri L, Chakraborty A, Robert C, Vagner S. The plasticity of mRNA translation during cancer progression and therapy resistance. Nat Rev Cancer. 2021;21(9):558–77.

Article  CAS  PubMed  Google Scholar 

Gebauer F, Hentze MW. Molecular mechanisms of translational control. Nat Rev Mol Cell Biol. 2004;5(10):827–35.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Izidoro MS, Sokabe M, Villa N, Merrick WC, Fraser CS. Human eukaryotic initiation factor 4E (eIF4E) and the nucleotide-bound state of eIF4A regulate eIF4F binding to RNA. J Biol Chem. 2022;298(10):102368.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Brito Querido J, Sokabe M, Díaz-López I, Gordiyenko Y, Fraser CS, Ramakrishnan V. The structure of a human translation initiation complex reveals two independent roles for the helicase eIF4A. Nat Struct Mol Biol. 2024;31(3):455–64.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Leppek K, Das R, Barna M. Functional 5’ UTR mRNA structures in eukaryotic translation regulation and how to find them. Nat Rev Mol Cell Biol. 2018;19(3):158–74.

Article  CAS  PubMed  Google Scholar 

Konicek BW, Dumstorf CA, Graff JR. Targeting the eIF4F translation initiation complex for cancer therapy. Cell Cycle. 2008;7(16):2466–71.

Article  CAS  PubMed  Google Scholar 

Huang R, Yamamoto T, Nakata E, Ozaki T, Kurozumi K, Wei F, et al. CDKAL1 drives the maintenance of cancer stem-like cells by assembling the eIF4F translation initiation complex. Adv Sci. 2023;10(12):e2206542.

Article  Google Scholar 

Amiri M, Mahmood N, Tahmasebi S, Sonenberg N. eIF4F-mediated dysregulation of mRNA translation in cancer. RNA. 2025;31(3):416–28.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hellen CUT. Translation termination and ribosome recycling in eukaryotes. Cold Spring Harb Perspect Biol. 2018. https://doi.org/10.1101/cshperspect.a032656.

Article  PubMed  PubMed Central  Google Scholar 

Smith TJ, Giles RN, Koutmou KS. Anticodon stem-loop tRNA modifications influence codon decoding and frame maintenance during translation. Semin Cell Dev Biol. 2024;154(Pt B):105–13.

Article  CAS  PubMed  Google Scholar 

Zhang M, Lu Z. tRNA modifications: greasing the wheels of translation and beyond. RNA Biol. 2025;22(1):1–25.

PubMed  PubMed Central  Google Scholar 

Schultz SK, Kothe U. RNA modifying enzymes shape tRNA biogenesis and function. J Biol Chem. 2024;300(8):107488.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Kassambara A, Kosinski M, Biecek P. Survminer: drawing survival curves using 'ggplot2'. 0.5.1.999 ed: GitHub; 2025.

Heath AP, Ferretti V, Agrawal S, An M, Angelakos JC, Arya R, et al. The NCI genomic data commons. Nat Genet. 2021;53(3):257–62.

Article  CAS  PubMed  Google Scholar 

Parker JS, Mullins M, Cheang MC, Leung S, Voduc D, Vickery T, et al. Supervised risk predictor of breast cancer based on intrinsic subtypes. J Clin Oncol. 2009;27(8):1160–7.

Article  PubMed  PubMed Central  Google Scholar 

Thorsson V, Gibbs DL, Brown SD, Wolf D, Bortone DS, Ou Yang TH, et al. The immune landscape of cancer. Immunity. 2018;48(4):812-30.e14.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Vasaikar SV, Straub P, Wang J, Zhang B. LinkedOmics: analyzing multi-omics data within and across 32 cancer types. Nucleic Acids Res. 2018;46(D1):D956–63.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hänzelmann S, Castelo R, Guinney J. GSVA: gene set variation analysis for microarray and RNA-seq data. BMC Bioinform. 2013;14:7.

Article  Google Scholar 

Wei D, Zhai B, Zeng H, Liu L, Gao H, Xiang S, et al. TRMT10A regulates tRNA-ArgCCT m(1)G9 modification to generate tRNA-derived fragments influencing vasculogenic mimicry formation in glioblastoma. Cell Death Dis. 2025;16(1):209.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Huang M, Long J, Yao Z, Zhao Y, Zhao Y, Liao J, et al. METTL1-mediated m7G tRNA modification promotes lenvatinib resistance in hepatocellular carcinoma. Cancer Res. 2023;83(1):89–102.

Article  CAS  PubMed  Google Scholar 

Rübsam FNM, Liu-Wei W, Sun Y, Patel BI, van der Toorn W, Piechotta M, et al. MoDorado: enhanced detection of tRNA modifications in nanopore sequencing by off-label use of modification callers. Nucleic Acids Res. 2025;53(15):gkaf795.

Article  PubMed  PubMed Central  Google Scholar 

Wei W, Zhang S, Han H, Wang X, Zheng S, Wang Z, et al. NAT10-mediated ac4C tRNA modification promotes EGFR mRNA translation and gefitinib resistance in cancer. Cell Rep. 2023;42(7):112810.

Article  CAS  PubMed  Google Scholar 

Hori H. Transfer RNA modification enzymes with a thiouridine synthetase, methyltransferase and pseudouridine synthase (THUMP) domain and the nucleosides they produce in tRNA. Genes. 2023. https://doi.org/10.3390/genes14020382.

Article  PubMed  PubMed Central  Google Scholar 

Ishiguro K, Fujimura A, Shirouzu M. Structural insights into tRNA recognition of the human FTSJ1-THADA complex. Commun Biol. 2025;8(1):893.

Article  CAS  PubMed  PubMed Central 

Comments (0)

No login
gif