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Article Open Access

Expression profile of tRNA‑derived fragments in pancreatic cancer

  • Authors:
    • Lei Jin
    • Chunfu Zhu
    • Xihu Qin
  • View Affiliations / Copyright

    Affiliations: Department of Hepato‑Biliary‑Pancreatic Surgery, The Affiliated Changzhou No. 2 People's Hospital of Nanjing Medical University, Changzhou, Jiangsu 213003, P.R. China
    Copyright: © Jin et al. This is an open access article distributed under the terms of Creative Commons Attribution License.
  • Pages: 3104-3114
    |
    Published online on: July 11, 2019
       https://doi.org/10.3892/ol.2019.10601
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Abstract

Pancreatic cancer is a deadly disease, the deadliest of all the solid tumors; the 5‑year survival rate of patients with this disease is ~8%. Previously, high‑throughput sequencing has led to the discovery of novel small non‑coding RNAs, also known as transfer RNA‑derived fragments (tRFs). Studies have suggested that tRFs may be novel biomarkers for certain diseases. However, the expression of tRFs in pancreatic cancer has yet to be characterized. In the present study, the expression levels of tRFs observed in clinical pancreatic cancer samples were analyzed, quantitative PCR (qPCR) was performed to validate the tRFs expression levels and bioinformatics predictions were analyzed. The results revealed that the pancreatic cancer samples screened out a total of 48 tRFs and transfer RNA halves (tiRNAs). There were four tRFs and tiRNAs selected for qPCR validation; the findings were consistent with the sequencing results. Bioinformatic predictions revealed that AS‑tDR‑000064 was predicted to have 2,450 target genes; AS‑tDR‑000069 was predicted 445 target genes; AS‑tDR‑000102 was predicted 746 target genes; and AS‑tDR‑001391 was predicted 216 target genes. Gene Ontology (GO) analyses demonstrated that the target genes of AS‑tDR‑000064 were mostly enriched in ‘the regulation of cellular processes’ (Biological Process), ‘the synapses’ (Cellular Component) and ‘enzyme binding’ (Molecular Function). The target genes of AS‑tDR‑000069 were mostly enriched in ‘signaling’ (Biological Process), ‘the plasma membrane’ (Cellular Component) and ‘phosphatidylinositol 3‑kinase (PI3K) binding’(Molecular Function), the target genes of AS‑tDR‑000102 were mostly enriched in ‘axon development’ (Biological Process), ‘the synapse’ (Cellular Component) and ‘sequence‑specific DNA binding’ (Molecular Function) and the target genes of AS‑tDR‑001391 were mostly enriched in ‘the neuromuscular processes’ (Biological Process), the neurons’ (Cellular Component) and ‘PDZ domain binding’ (Molecular Function). The Kyoto Encyclopedia of Genes and Genomes pathway analyses revealed that the target genes of AS‑tDR‑000064 were mostly enriched in ‘the Ras signaling pathway’, the target genes of AS‑tDR‑000069 were mostly enriched in ‘the cancer pathways’, the target genes of AS‑tDR‑000102 were mostly enriched in ‘axon guidance’ and the target genes of AS‑tDR‑001391 were mostly enriched in ‘the PI3K/protein kinase‑B signaling pathway’.
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1 

Kleeff J, Korc M, Apte M, La Vecchia C, Johnson CD, Biankin AV, Neale RE, Tempero M, Tuveson DA, Hruban RH and Neoptolemos JP: Pancreatic cancer. Nat Rev Dis Primers. 2:160222016. View Article : Google Scholar : PubMed/NCBI

2 

Parker SL, Tong T, Bolden S and Wingo PA: Cancer statistics, 1997. CA Cancer J Clin. 47:5–27. 1997. View Article : Google Scholar : PubMed/NCBI

3 

Siegel RL, Miller KD and Jemal A: Cancer statistics, 2017. CA Cancer J Clin. 67:7–30. 2017. View Article : Google Scholar : PubMed/NCBI

4 

Rahib L, Smith BD, Aizenberg R, Rosenzweig AB, Fleshman JM and Matrisian LM: Projecting cancer incidence and deaths to 2030: The unexpected burden of thyroid, liver, and pancreas cancers in the United States. Cancer Res. 74:2913–2921. 2014. View Article : Google Scholar : PubMed/NCBI

5 

Ryan DP, Hong TS and Bardeesy N: Pancreatic adenocarcinoma. N Engl J Med. 371:1039–1049. 2014. View Article : Google Scholar : PubMed/NCBI

6 

Kawaji H, Nakamura M, Takahashi Y, Sandelin A, Katayama S, Fukuda S, Daub CO, Kai C, Kawai J, Yasuda J, et al: Hidden layers of human small RNAs. BMC Genomics. 9:1572008. View Article : Google Scholar : PubMed/NCBI

7 

Cole C, Sobala A, Lu C, Thatcher SR, Bowman A, Brown JW, Green PJ, Barton GJ and Hutvagner G: Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs. RNA. 15:2147–2160. 2009. View Article : Google Scholar : PubMed/NCBI

8 

Lee YS, Shibata Y, Malhotra A and Dutta A: A novel class of small RNAs: tRNA-derived RNA fragments (tRFs). Genes Dev. 23:2639–2649. 2009. View Article : Google Scholar : PubMed/NCBI

9 

Thompson DM and Parker AR: Stressing out over tRNA cleavage. Cell. 138:215–219. 2009. View Article : Google Scholar : PubMed/NCBI

10 

Martens-Uzunova ES, Olvedy M and Jenster G: Beyond microRNA-novel RNAs derived from small non-coding RNA and their implication in cancer. Cancer Lett. 340:2012013. View Article : Google Scholar : PubMed/NCBI

11 

Kumar P, Anaya J, Mudunuri SB and Dutta A: Meta-analysis of tRNA derived RNA fragments reveals that they are evolutionarily conserved and associate with AGO proteins to recognize specific RNA targets. BMC Biol. 12:782014. View Article : Google Scholar : PubMed/NCBI

12 

Thompson DM and Parker R: The RNase Rny1p cleaves tRNAs and promotes cell death during oxidative stress in Saccharomyces cerevisiae. J Cell Biol. 185:43–50. 2009. View Article : Google Scholar : PubMed/NCBI

13 

Yamasaki S, Ivanov P, Hu GF and Anderson P: Angiogenin cleaves tRNA and promotes stress-induced translational repression. J Cell Biol. 185:35–42. 2009. View Article : Google Scholar : PubMed/NCBI

14 

Haussecker D, Huang YA, Parameswaran P, Fire AZ and Kay MA: Human tRNA-derived small RNAs in the global regulation of RNA silencing. RNA. 16:673–695. 2010. View Article : Google Scholar : PubMed/NCBI

15 

Kumar P, Mudunuri SB, Anaya J and Dutta A: tRFdb: A database for transfer RNA fragments. Nucleic Acids Res. 43:(Database Issue). D141–D145. 2015. View Article : Google Scholar : PubMed/NCBI

16 

Chen Q, Yan M, Cao Z, Li X, Zhang Y, Shi J, Feng GH, Peng H, Zhang X, Zhang Y, et al: Sperm tsRNAs contribute to intergenerational inheritance of an acquired metabolic disorder. Science. 351:397–400. 2016. View Article : Google Scholar : PubMed/NCBI

17 

Goodarzi H, Liu X, Nguyen HC, Zhang S, Fish L and Tavazoie SF: Endogenous tRNA-derived fragments suppress breast cancer progression via YBX1 displacement. Cell. 161:790–802. 2015. View Article : Google Scholar : PubMed/NCBI

18 

Blanco S, Dietmann S, Flores JV, Hussain S, Kutter C, Humphreys P, Lukk M, Lombard P, Treps L, Popis M, et al: Aberrant methylation of tRNAs links cellular stress to neuro-developmental disorders. EMBO J. 33:2020–2039. 2014. View Article : Google Scholar : PubMed/NCBI

19 

Shao Y, Sun Q, Liu X, Wang P, Wu R and Ma Z: tRF-Leu-CAG promotes cell proliferation and cell cycle in non-small cell lung cancer. Chem Biol Drug Des. 90:730–738. 2017. View Article : Google Scholar : PubMed/NCBI

20 

Huang B, Yang H, Cheng X, Wang D, Fu S, Shen W, Zhang Q, Zhang L, Xue Z, Li Y, et al: tRF/miR-1280 suppresses stem cell-like cells and metastasis in colorectal cancer. Cancer Res. 77:3194–3206. 2017. View Article : Google Scholar : PubMed/NCBI

21 

Gebetsberger J, Zywicki M, Künzi A and Polacek N: tRNA-derived fragments target the ribosome and function as regulatory non-coding RNA in Haloferax volcanii. Archaea. 2012:2609092012. View Article : Google Scholar : PubMed/NCBI

22 

Ivanov P, Emara MM, Villen J, Gygi SP and Anderson P: Angiogenin-induced tRNA fragments inhibit translation initiation. Mol Cell. 43:613–623. 2011. View Article : Google Scholar : PubMed/NCBI

23 

Zhang S, Sun L and Kragler F: The phloem-delivered RNA pool contains small noncoding RNAs and interferes with translation. Plant Physiol. 150:378–387. 2009. View Article : Google Scholar : PubMed/NCBI

24 

Maute RL, Schneider C, Sumazin P, Holmes A, Califano A, Basso K and Dalla-Favera R: tRNA-derived microRNA modulates proliferation and the DNA damage response and is downregulated in B cell lymphoma. Proc Natl Acad Sci USA. 110:1404–1409. 2013. View Article : Google Scholar : PubMed/NCBI

25 

Edge SB and Compton CC: The American Joint Committee on Cancer the 7th edition of the AJCC cancer staging manual and the future of TNM. Ann Surg Oncol. 17:1471–1474. 2010. View Article : Google Scholar : PubMed/NCBI

26 

Durdevic Z and Schaefer M: tRNA modifications: Necessary for correct tRNA-derived fragments during the recovery from stress? Bioessays. 35:323–327. 2013. View Article : Google Scholar : PubMed/NCBI

27 

Livak KJ and Schmittgen TD: Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method. Methods. 25:402–408. 2001. View Article : Google Scholar : PubMed/NCBI

28 

Martens-Uzunova ES, Jalava SE, Dits NF, van Leenders GJ, Møller S, Trapman J, Bangma CH, Litman T, Visakorpi T and Jenster G: Diagnostic and prognostic signatures from the small non-coding RNA transcriptome in prostate cancer. Oncogene. 31:978–991. 2012. View Article : Google Scholar : PubMed/NCBI

29 

Mishima E, Inoue C, Saigusa D, Inoue R, Ito K, Suzuki Y, Jinno D, Tsukui Y, Akamatsu Y, Araki M, et al: Conformational change in transfer RNA is an early indicator of acute cellular damage. J Am Soc Nephrol. 25:2316–2326. 2014. View Article : Google Scholar : PubMed/NCBI

30 

Greenway MJ, Andersen PM, Russ C, Ennis S, Cashman S, Donaghy C, Patterson V, Swingler R, Kieran D, Prehn J, et al: ANG mutations segregate with familial and ‘sporadic’ amyotrophic lateral sclerosis. Nat Genet. 38:411–413. 2006. View Article : Google Scholar : PubMed/NCBI

31 

Olvedy M, Scaravilli M, Hoogstrate Y, Visakorpi T, Jenster G and Martens-Uzunova ES: A comprehensive repertoire of tRNA-derived fragments in prostate cancer. Oncotarget. 7:24766–24777. 2016. View Article : Google Scholar : PubMed/NCBI

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Copy and paste a formatted citation
Spandidos Publications style
Jin L, Zhu C and Qin X: Expression profile of tRNA‑derived fragments in pancreatic cancer. Oncol Lett 18: 3104-3114, 2019.
APA
Jin, L., Zhu, C., & Qin, X. (2019). Expression profile of tRNA‑derived fragments in pancreatic cancer. Oncology Letters, 18, 3104-3114. https://doi.org/10.3892/ol.2019.10601
MLA
Jin, L., Zhu, C., Qin, X."Expression profile of tRNA‑derived fragments in pancreatic cancer". Oncology Letters 18.3 (2019): 3104-3114.
Chicago
Jin, L., Zhu, C., Qin, X."Expression profile of tRNA‑derived fragments in pancreatic cancer". Oncology Letters 18, no. 3 (2019): 3104-3114. https://doi.org/10.3892/ol.2019.10601
Copy and paste a formatted citation
x
Spandidos Publications style
Jin L, Zhu C and Qin X: Expression profile of tRNA‑derived fragments in pancreatic cancer. Oncol Lett 18: 3104-3114, 2019.
APA
Jin, L., Zhu, C., & Qin, X. (2019). Expression profile of tRNA‑derived fragments in pancreatic cancer. Oncology Letters, 18, 3104-3114. https://doi.org/10.3892/ol.2019.10601
MLA
Jin, L., Zhu, C., Qin, X."Expression profile of tRNA‑derived fragments in pancreatic cancer". Oncology Letters 18.3 (2019): 3104-3114.
Chicago
Jin, L., Zhu, C., Qin, X."Expression profile of tRNA‑derived fragments in pancreatic cancer". Oncology Letters 18, no. 3 (2019): 3104-3114. https://doi.org/10.3892/ol.2019.10601
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