Asian Pacific Journal of Cancer Prevention

Asian Pacific Journal of Cancer Prevention (아시아태평양암예방학회)
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Microarray Analysis of Long Non-coding RNA Expression Profile Associated with 5-Fluorouracil-Based Chemoradiation Resistance in Colorectal Cancer Cells

  • Xiong, Wei (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Jiang, Yong-Xin (Cancer Research Institute of Yunnan Province, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Ai, Yi-Qin (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Liu, Shan (Cancer Research Institute of Yunnan Province, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Wu, Xing-Rao (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Cui, Jian-Guo (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Qin, Ji-Yong (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Liu, Yan (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Xia, Yao-Xiong (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Ju, Yun-He (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • He, Wen-Jie (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Wang, Yong (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Li, Yun-Fen (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Hou, Yu (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Wang, Li (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University) ;
  • Li, Wen-Hui (Department of Radiation Oncology, Yunnan Cancer Hospital, The Third Affiliated Hospital of Kunming Medical University)
  • Published : 2015.04.29
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Abstract

Background: Preoperative 5-fluorouracil (5-FU)-based chemoradiotherapy is a standard treatment for locally advanced colorectal cancer (CRC). However, CRC cells often develop chemoradiation resistance (CRR). Recent studies have shown that long non-coding RNA (lncRNA) plays critical roles in a myriad of biological processes and human diseases, as well as chemotherapy resistance. Since the roles of lncRNAs in 5-FU-based CRR in human CRC cells remain unknown, they were investigated in this study. Materials and Methods: A 5-FU-based concurrent CRR cell model was established using human CRC cell line HCT116. Microarray expression profiling of lncRNAs and mRNAs was undertaken in parental HCT116 and 5-FU-based CRR cell lines. Results: In total, 2,662 differentially expressed lncRNAs and 2,398 mRNAs were identified in 5-FU-based CRR HCT116 cells when compared with those in parental HCT116. Moreover, 6 lncRNAs and 6 mRNAs found to be differentially expressed were validated by quantitative real time PCR (qRT-PCR). Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis for the differentially expressed mRNAs indicated involvement of many, such as Jak-STAT, PI3K-Akt and NF-kappa B signaling pathways. To better understand the molecular basis of 5-FU-based CRR in CRC cells, correlated expression networks were constructed based on 8 intergenic lncRNAs and their nearby coding genes. Conclusions: Changes in lncRNA expression are involved in 5-FU-based CRR in CRC cells. These findings may provide novel insight for the prognosis and prediction of response to therapy in CRC patients.

Keywords

References

  1. Ashburner M, Ball CA, Blake JA, et al (2000). Gene ontology:tool for the unification of biology. The Gene Ontology Consortium. Nat Genet, 25, 25-9. https://doi.org/10.1038/75556
  2. Alaiyan B, Ilyayev N, Stojadinovic A, et al (2013). Differential expression of colon cancer associated transcript1 (CCAT1) along the colonic adenoma-carcinoma sequence. BMC Cancer, 13, 196. https://doi.org/10.1186/1471-2407-13-196
  3. Bosset JF, Collette L, Calais G, et al (2006). Chemotherapy with preoperative radiotherapy in rectal cancer. N Engl J Med, 355, 1114-23. https://doi.org/10.1056/NEJMoa060829
  4. Bhatlekar S, Fields JZ, Boman BM (2014). HOX genes and their role in the development of human cancers. J Mol Med (Berl), 92, 811-23. https://doi.org/10.1007/s00109-014-1181-y
  5. Chen YS, Xu SX, Ding YB, et al (2013).Helicobacter pylori Infection and the risk of colorectal adenoma and adenocarcinoma: an updated meta-analysis of different testing methods. Asian Pac J Cancer Prev, 14, 7613-9. https://doi.org/10.7314/APJCP.2013.14.12.7613
  6. Chen YS, Xu SX, Ding YB, et al (2014).Colorectal cancer screening in high-risk populations: a survey of cognition among medical professionals in Jiangsu, China. Asian Pac J Cancer Prev, 14, 6487-91.
  7. Cunningham D, Atkin W, Lenz HJ, et al (2010). Colorectal cancer. Lancet, 375, 1030-47. https://doi.org/10.1016/S0140-6736(10)60353-4
  8. Choi S, Ku JL (2011). Resistance of colorectal cancer cells to radiation and 5-FU is associated with MELK expression. Biochem Biophys Res Commun, 412, 207-13. https://doi.org/10.1016/j.bbrc.2011.07.060
  9. Cheetham SW, Gruhl F, Mattick JS, et al (2013). Long noncoding RNAs and the genetics of cancer. Br J Cancer, 108, 2419-25. https://doi.org/10.1038/bjc.2013.233
  10. Folkesson J, Birgisson H, Pahlman L, et al (2005). Swedish Rectal Cancer Trial: long lasting benefits from radiotherapy on survival and local recurrence rate. J Clin Oncol, 23, 5644-50. https://doi.org/10.1200/JCO.2005.08.144
  11. Fan Y, Shen B, Tan M, et al (2014). Long non-coding RNA UCA1 increases chemoresistance of bladder cancer cells by regulating Wnt signaling. FEBS J, 281, 1750-8. https://doi.org/10.1111/febs.12737
  12. Fatica A, Bozzoni I (2014). Long non-coding RNAs: new players in cell differentiation and development. Nat Rev Genet, 15, 7-21. https://doi.org/10.1038/nri3777
  13. Guttman M, Amit I, Garber M, et al (2009). Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature, 458, 223-7. https://doi.org/10.1038/nature07672
  14. Geisler S, Coller J (2013). RNA in unexpected places: long noncoding RNA functions in diverse cellular contexts. Nat Rev Mol Cell Biol, 14, 699-712. https://doi.org/10.1038/nrm3679
  15. Gong JP, Yang L, Huang XE, et al (2014).Outcomes based on risk assessment of anastomotic leakage after rectal cancer surgery. Asian Pac J Cancer Prev, 15, 707-12. https://doi.org/10.7314/APJCP.2014.15.2.707
  16. Han Y, Zhang M, Li N, et al (2004). KLRL1, a novel killer cell lectinlike receptor, inhibits natural killer cell cytotoxicity. Blood, 104, 2858-66. https://doi.org/10.1182/blood-2004-03-0878
  17. Haggar FA, Boushey RP (2009). Colorectal cancer epidemiology: incidence, mortality, survival, and risk factors. Clin Colon Rectal Surg, 22, 191-7. https://doi.org/10.1055/s-0029-1242458
  18. Han J, Rong LF, Shi CB, et al (2014). Screening of lymph nodes metastasis associated lncRNAs in colorectal cancer patients. World J Gastroenterol, 20, 8139-50. https://doi.org/10.3748/wjg.v20.i25.8139
  19. Jing L, Yuan W, Ruofan D, et al (2014). HOTAIR enhanced aggressive biological behaviors and induced radio-resistance via inhibiting p21 in cervical cancer. Tumour Biol, [Epub ahead of print]
  20. Jiang M, Huang O, Xie Z, et al (2014). A novel long non-coding RNA-ARA: adriamycin resistance-associated. Biochem Pharmacol, 87, 254-83. https://doi.org/10.1016/j.bcp.2013.10.020
  21. Khalil AM, Guttman M, Huarte M, et al (2009). Many human large intergenic noncoding RNAs associate with chromatinmodifying complexes and affect gene expression. Proc Natl Acad Sci U S A, 106, 11667-72. https://doi.org/10.1073/pnas.0904715106
  22. Kanehisa M, Goto S, Furumichi M, et al (2010). KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res, 38, 355-60. https://doi.org/10.1093/nar/gkp896
  23. Kogo R, Shimamura T, Mimori K, et al (2011). Long noncoding RNA HOTAIR regulates polycomb-dependent chromatin modification and is associated with poor prognosis in colorectal cancers. Cancer Res, 71, 6320-6. https://doi.org/10.1158/0008-5472.CAN-11-1021
  24. Kontos CK, Scorilas A (2012). Kallikrein-related peptidases (KLKs): a gene family of novel cancer biomarkers. Clin Chem Lab Med, 50, 1877-91.
  25. Kye BH, Cho HM (2014). Overview of radiation therapy for treating rectal cancer. Ann Coloproctol, 30, 165-74. https://doi.org/10.3393/ac.2014.30.4.165
  26. Livak KJ, Schmittgen TD (2001). Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods, 25, 402-8. https://doi.org/10.1006/meth.2001.1262
  27. Luqman S, Pezzuto JM (2010) NF$\kappa$B: a promising target for natural products in cancer chemoprevention. Phytother Res, 24, 949-63.
  28. Liao WT, Jiang D, Yuan J, et al (2011). HOXB7 as a prognostic factor and mediator of colorectal cancer progression. Clin Cancer Res, 17, 3569-78. https://doi.org/10.1158/1078-0432.CCR-10-2533
  29. Ling H, Spizzo R, Atlasi Y, et al (2013). CCAT2, a novel noncoding RNA mapping to 8q24, underlies metastatic progression and chromosomal instability in colon cancer. Genome Res, 23, 1446-61. https://doi.org/10.1101/gr.152942.112
  30. Liu Z, Sun M, Lu K, et al (2013). The long noncoding RNA HOTAIR contributes to cisplatin resistance of human lung adenocarcinoma cells via downregualtion of p21(WAF1/CIP1) expression. PLoS One, 8, 77293. https://doi.org/10.1371/journal.pone.0077293
  31. Lee H, Kim C, Ku JL, et al (2014). A long non-coding RNA snaR contributes to 5-fluorouracil resistance in human colon cancer cells. Mol Cells, 37, 540-6. https://doi.org/10.14348/molcells.2014.0151
  32. Niehrs C (2012). The complex world of WNT receptor signalling. Nat Rev Mol Cell Biol, 13, 767-79 https://doi.org/10.1038/nrm3470
  33. Ojima E, Inoue Y, Watanabe H, et al (2006). The optimal schedule for 5-fluorouracil radiosensitization in colon cancer cell lines. Oncol Rep, 16, 1085-91.
  34. Orom UA, Derrien T, Beringer M, et al (2010). Long noncoding RNAs with enhancer-like function in human cells. Cell, 143, 46-58. https://doi.org/10.1016/j.cell.2010.09.001
  35. Qi P, Du X (2013). The long non-coding RNAs, a new cancer diagnostic and therapeutic gold mine. Mod Pathol, 26, 155-65. https://doi.org/10.1038/modpathol.2012.160
  36. Rinn JL, Kertesz M, Wang JK, et al (2007). Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell, 129, 1311-23. https://doi.org/10.1016/j.cell.2007.05.022
  37. Sauer R, Becker H, Hohenberger W, et al (2004). Preoperative versus postoperative chemoradiotherapy for rectal cancer. N Engl J Med, 351, 1731-40. https://doi.org/10.1056/NEJMoa040694
  38. Spitzner M, Emons G, Kramer F, et al (2010). A gene expression signature for chemoradiosensitivity of colorectal cancer cells. Int J Radiat Oncol Biol Phys, 78, 1184-92. https://doi.org/10.1016/j.ijrobp.2010.06.023
  39. Tsang WP, Kwok TT (2007). Riboregulator H19 induction of MDR1-associated drug resistance in human hepatocellular carcinoma cells. Oncogene, 26, 4877-81. https://doi.org/10.1038/sj.onc.1210266
  40. Talieri M, Li L, Zheng Y, et al (2009). The use of kallikreinrelated peptidases as adjuvant prognostic markers in colorectal cancer. Br J Cancer, 100, 1659-65. https://doi.org/10.1038/sj.bjc.6605033
  41. Tong YS, Zhou XL, Wang XW, et al (2014). Association of decreased expression of long non-coding RNA LOC285194 with chemoradiotherapy resistance and poor prognosis in esophageal squamous cell carcinoma. J Transl Med, 12, 233. https://doi.org/10.1186/s12967-014-0233-y
  42. Vazquez A, Bond EE, Levine AJ, et al (2008). The genetics of the p53 pathway, apoptosis and cancer therapy. Nat Rev Drug Discov, 7, 979-87. https://doi.org/10.1038/nrd2656
  43. Wilusz JE, Sunwoo H, Spector DL (2009). Long noncoding RNAs: functional surprises from the RNA world. Genes Dev, 23, 1494-504. https://doi.org/10.1101/gad.1800909
  44. Wu XY, Huang XE, Cao J, et al (2014). A predictive model for evaluating responsiveness to pemetrexed treatment in patients with advanced colorectal cancer. Asian Pac J Cancer Prev, 15, 5941-4. https://doi.org/10.7314/APJCP.2014.15.14.5941
  45. Xiang JF, Yin QF, Chen T, et al (2014). Human colorectal cancerspecific CCAT1-L lncRNA regulates long-range chromatin interactions at the MYC locus. Cell Res, 24, 513-31. https://doi.org/10.1038/cr.2014.35
  46. Xue Y, Ma G, Gu D, et al (2015). Genome-wide analysis of long noncoding RNA signature in human colorectal cancer. Gene, 556, 227-34. https://doi.org/10.1016/j.gene.2014.11.060
  47. Yang Y, Li H, Hou S, et al (2013). The noncoding RNA expression profile and the effect of lncRNA AK126698 on cisplatin resistance in non-small-cell lung cancer cell. PLoS One, 8, 65309. https://doi.org/10.1371/journal.pone.0065309

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