LINC00520 is induced by Src, STAT3, and PI3K and plays a functional role in breast cancer

Oncotarget

Volumn 7, Issue 50, 2016, Pages 81981-81994

  Henry, Whitney S ^a   Hendrickson, David G ^b,c   Beca, Francisco ^a   Glass, Benjamin ^a   Lindahl Allen, Marianne ^a   He, Lizhi ^a   Ji, Zhe ^a   Struhl, Kevin ^a   Beck, Andrew H ^a   Rinn, John L ^b,c   Toker, Alex ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

^b Harvard University   (United States)

^c BROAD INSTITUTE OF MIT AND HARVARD   (United States)

Author keywords

Breast cancer; LINC00520; LncRNA; PI3K; Src

Indexed keywords

LONG UNTRANSLATED RNA; PHOSPHATIDYLINOSITOL 3 KINASE; POLYCOMB REPRESSIVE COMPLEX 2; RNA; SHORT HAIRPIN RNA; STAT3 PROTEIN; TRANSCRIPTION FACTOR; PHOSPHATIDYLINOSITOL 4,5 BISPHOSPHATE 3 KINASE; PIK3CA PROTEIN, HUMAN; PROTEIN KINASE P60; STAT3 PROTEIN, HUMAN;

ARTICLE; BREAST CANCER; BREAST EPITHELIUM CELL; CELL MIGRATION; CONTROLLED STUDY; GENE; GENE EXPRESSION PROFILING; HOMEOSTASIS; HUMAN; HUMAN CELL; LINC00520 GENE; ONCOGENE; ONCOGENE SRC; PATHOPHYSIOLOGY; RNA INTERFERENCE; RNA SEQUENCE; TRANSCRIPTION REGULATION; UPREGULATION; BREAST TUMOR; CELL MOTION; CELL PROLIFERATION; CELL TRANSFORMATION; ENZYMOLOGY; FEMALE; GENE EXPRESSION REGULATION; GENETIC TRANSFECTION; GENETICS; MAMMARY GLAND; MCF-7 CELL LINE; METABOLISM; MUTATION; PATHOLOGY; SIGNAL TRANSDUCTION; TIME FACTOR; TUMOR INVASION;

BREAST NEOPLASMS; CELL MOVEMENT; CELL PROLIFERATION; CELL TRANSFORMATION, NEOPLASTIC; CLASS I PHOSPHATIDYLINOSITOL 3-KINASES; FEMALE; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; MAMMARY GLANDS, HUMAN; MCF-7 CELLS; MUTATION; NEOPLASM INVASIVENESS; ONCOGENE PROTEIN PP60(V-SRC); RNA INTERFERENCE; RNA, LONG NONCODING; SIGNAL TRANSDUCTION; STAT3 TRANSCRIPTION FACTOR; TIME FACTORS; TRANSFECTION; UP-REGULATION;

EID: 85004081563     PISSN: None     EISSN: 19492553     Source Type: Journal    
DOI: 10.18632/oncotarget.11962     Document Type: Article

References (43)

1. Gupta RA, Shah N, Wang KC, Kim J, Horlings HM, Wong DJ, Tsai MC, Hung T, Argani P, Rinn JL, Wang Y, Brzoska P, Kong B, Li R, West RB, van de Vijver MJ, et al. Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis. Nature. 2010; 464:1071-1076.
2. Prensner JR, Iyer MK, Balbin OA, Dhanasekaran SM, Cao Q, Brenner JC, Laxman B, Asangani IA, Grasso CS, Kominsky HD, Cao X, Jing X, Wang X, Siddiqui J, Wei JT, Robinson D, et al. Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression. Nature biotechnology. 2011; 29:742-749.
3. Lin R, Maeda S, Liu C, Karin M and Edgington TS. A large noncoding RNA is a marker for murine hepatocellular carcinomas and a spectrum of human carcinomas. Oncogene. 2007; 26:851-858.
4. Calin GA, Liu CG, Ferracin M, Hyslop T, Spizzo R, Sevignani C, Fabbri M, Cimmino A, Lee EJ, Wojcik SE, Shimizu M, Tili E, Rossi S, Taccioli C, Pichiorri F, Liu X, et al. Ultraconserved regions encoding ncRNAs are altered in human leukemias and carcinomas. Cancer cell. 2007; 12:215-229.
5. Huarte M. The emerging role of lncRNAs in cancer. Nat Med. 2015; 21:1253-1261.
6. Huarte M, Guttman M, Feldser D, Garber M, Koziol MJ, Kenzelmann-Broz D, Khalil AM, Zuk O, Amit I, Rabani M, Attardi LD, Regev A, Lander ES, Jacks T and Rinn JL. A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response. Cell. 2010; 142:409-419.
7. Zheng GX, Do BT, Webster DE, Khavari PA and Chang HY. Dicer-microRNA-Myc circuit promotes transcription of hundreds of long noncoding RNAs. Nature structural & molecular biology. 2014; 21:585-590.
8. Bussemakers MJ, van Bokhoven A, Verhaegh GW, Smit FP, Karthaus HF, Schalken JA, Debruyne FM, Ru N and Isaacs WB. DD3: a new prostate-specific gene, highly overexpressed in prostate cancer. Cancer research. 1999; 59:5975-5979.
9. Hessels D, Klein Gunnewiek JM, van Oort I, Karthaus HF, van Leenders GJ, van Balken B, Kiemeney LA, Witjes JA and Schalken JA. DD3(PCA3)-based molecular urine analysis for the diagnosis of prostate cancer. European urology. 2003; 44:8-15; discussion 15-16.
10. Srikantan V, Zou Z, Petrovics G, Xu L, Augustus M, Davis L, Livezey JR, Connell T, Sesterhenn IA, Yoshino K, Buzard GS, Mostofi FK, McLeod DG, Moul JW and Srivastava S. PCGEM1, a prostate-specific gene, is overexpressed in prostate cancer. Proceedings of the National Academy of Sciences of the United States of America. 2000; 97:12216-12221.
11. Yang L, Lin C, Jin C, Yang JC, Tanasa B, Li W, Merkurjev D, Ohgi KA, Meng D, Zhang J, Evans CP and Rosenfeld MG. lncRNA-dependent mechanisms of androgen-receptorregulated gene activation programs. Nature. 2013; 500:598-602.
12. Ji P, Diederichs S, Wang W, Boing S, Metzger R, Schneider PM, Tidow N, Brandt B, Buerger H, Bulk E, Thomas M, Berdel WE, Serve H and Muller-Tidow C. MALAT-1, a novel noncoding RNA, and thymosin beta4 predict metastasis and survival in early-stage non-small cell lung cancer. Oncogene. 2003; 22:8031-8041.
13. Huarte M and Rinn JL. Large non-coding RNAs: missing links in cancer? Human molecular genetics. 2010; 19(R2):R152-161.
14. Yap KL, Li S, Munoz-Cabello AM, Raguz S, Zeng L, Mujtaba S, Gil J, Walsh MJ and Zhou MM. Molecular interplay of the noncoding RNA ANRIL and methylated histone H3 lysine 27 by polycomb CBX7 in transcriptional silencing of INK4a. Molecular cell. 2010; 38:662-674.
15. Khaitan D, Dinger ME, Mazar J, Crawford J, Smith MA, Mattick JS and Perera RJ. The melanoma-upregulated long noncoding RNA SPRY4-IT1 modulates apoptosis and invasion. Cancer research. 2011; 71:3852-3862.
16. Chisholm KM, Wan Y, Li R, Montgomery KD, Chang HY and West RB. Detection of long non-coding RNA in archival tissue: correlation with polycomb protein expression in primary and metastatic breast carcinoma. PLoS One. 2012; 7:e47998.
17. Iliopoulos D, Hirsch HA and Struhl K. An epigenetic switch involving NF-kappaB, Lin28, Let-7 MicroRNA, and IL6 links inflammation to cell transformation. Cell. 2009; 139:693-706.
18. Fleming JD, Giresi PG, Lindahl-Allen M, Krall EB, Lieb JD and Struhl K. STAT3 acts through pre-existing nucleosomedepleted regions bound by FOS during an epigenetic switch linking inflammation to cancer. Epigenetics & chromatin. 2015; 8:7.
19. Samuels Y, Wang Z, Bardelli A, Silliman N, Ptak J, Szabo S, Yan H, Gazdar A, Powell SM, Riggins GJ, Willson JK, Markowitz S, Kinzler KW, Vogelstein B and Velculescu VE. High frequency of mutations of the PIK3CA gene in human cancers. Science. 2004; 304:554.
20. Isakoff SJ, Engelman JA, Irie HY, Luo J, Brachmann SM, Pearline RV, Cantley LC and Brugge JS. Breast cancerassociated PIK3CA mutations are oncogenic in mammary epithelial cells. Cancer research. 2005; 65:10992-11000.
21. Hacisuleyman E, Goff LA, Trapnell C, Williams A, Henao-Mejia J, Sun L, McClanahan P, Hendrickson DG, Sauvageau M, Kelley DR, Morse M, Engreitz J, Lander ES, Guttman M, Lodish HF, Flavell R, et al. Topological organization of multichromosomal regions by the long intergenic noncoding RNA Firre. Nature structural & molecular biology. 2014; 21:198-206.
22. Church DM, Goodstadt L, Hillier LW, Zody MC, Goldstein S, She X, Bult CJ, Agarwala R, Cherry JL, DiCuccio M, Hlavina W, Kapustin Y, Meric P, Maglott D, Birtle Z, Marques AC, et al. Lineage-specific biology revealed by a finished genome assembly of the mouse. PLoS Biol. 2009; 7:e1000112.
23. Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A and Rinn JL. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes & development. 2011; 25:1915-1927.
24. Penny GD, Kay GF, Sheardown SA, Rastan S and Brockdorff N. Requirement for Xist in X chromosome inactivation. Nature. 1996; 379:131-137.
25. Caparros ML, Alexiou M, Webster Z and Brockdorff N. Functional analysis of the highly conserved exon IV of XIST RNA. Cytogenetic and genome research. 2002; 99:99-105.
26. Tsai MC, Manor O, Wan Y, Mosammaparast N, Wang JK, Lan F, Shi Y, Segal E and Chang HY. Long noncoding RNA as modular scaffold of histone modification complexes. Science. 2010; 329:689-693.
27. Wang KC, Yang YW, Liu B, Sanyal A, Corces-Zimmerman R, Chen Y, Lajoie BR, Protacio A, Flynn RA, Gupta RA, Wysocka J, Lei M, Dekker J, Helms JA and Chang HY. A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature. 2011; 472:120-124.
28. Bertani S, Sauer S, Bolotin E and Sauer F. The noncoding RNA Mistral activates Hoxa6 and Hoxa7 expression and stem cell differentiation by recruiting MLL1 to chromatin. Molecular cell. 2011; 43:1040-1046.
29. Brown CJ, Hendrich BD, Rupert JL, Lafreniere RG, Xing Y, Lawrence J and Willard HF. The human XIST gene: analysis of a 17 kb inactive X-specific RNA that contains conserved repeats and is highly localized within the nucleus. Cell. 1992; 71:527-542.
30. Hutchinson JN, Ensminger AW, Clemson CM, Lynch CR, Lawrence JB and Chess A. A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains. BMC genomics. 2007; 8:39.
31. Sone M, Hayashi T, Tarui H, Agata K, Takeichi M and Nakagawa S. The mRNA-like noncoding RNA Gomafu constitutes a novel nuclear domain in a subset of neurons. Journal of cell science. 2007; 120:2498-2506.
32. Coccia EM, Cicala C, Charlesworth A, Ciccarelli C, Rossi GB, Philipson L and Sorrentino V. Regulation and expression of a growth arrest-specific gene (gas5) during growth, differentiation, and development. Molecular and cellular biology. 1992; 12:3514-3521.
33. Kino T, Hurt DE, Ichijo T, Nader N and Chrousos GP. Noncoding RNA gas5 is a growth arrest-and starvationassociated repressor of the glucocorticoid receptor. Sci Signal. 2010; 3:ra8.
34. Yoon JH, Abdelmohsen K, Srikantan S, Yang X, Martindale JL, De S, Huarte M, Zhan M, Becker KG and Gorospe M. LincRNA-p21 suppresses target mRNA translation. Molecular cell. 2012; 47:648-655.
35. Ji Z, Song R, Regev A and Struhl K. Many lncRNAs, 5'UTRs, and pseudogenes are translated and some are likely to express functional proteins. eLife. 2015; 4.
36. Pang H, Flinn R, Patsialou A, Wyckoff J, Roussos ET, Wu H, Pozzuto M, Goswami S, Condeelis JS, Bresnick AR, Segall JE and Backer JM. Differential enhancement of breast cancer cell motility and metastasis by helical and kinase domain mutations of class IA phosphoinositide 3-kinase. Cancer research. 2009; 69:8868-8876.
37. Miller FR, Santner SJ, Tait L and Dawson PJ. MCF10DCIS. com xenograft model of human comedo ductal carcinoma in situ. Journal of the National Cancer Institute. 2000; 92:1185-1186.
38. Debnath J, Muthuswamy SK and Brugge JS. Morphogenesis and oncogenesis of MCF-10A mammary epithelial acini grown in three-dimensional basement membrane cultures. Methods. 2003; 30:256-268.
39. Chin YR and Toker A. The Actin-Bundling Protein Palladin Is an Akt1-Specific Substrate that Regulates Breast Cancer Cell Migration. Molecular cell. 2010; 38:333-344.
40. Trapnell C, Hendrickson DG, Sauvageau M, Goff L, Rinn JL and Pachter L. Differential analysis of gene regulation at transcript resolution with RNA-seq. Nat Biotechnol. 2013; 31:46-53.
41. Tusher VG, Tibshirani R and Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proceedings of the National Academy of Sciences of the United States of America. 2001; 98:5116-5121.
42. Dennis G, Jr., Sherman BT, Hosack DA, Yang J, Gao W, Lane HC and Lempicki RA. DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome biology. 2003; 4:P3.
43. Brown KK, Montaser-Kouhsari L, Beck AH and Toker A. MERIT40 Is an Akt Substrate that Promotes Resolution of DNA Damage Induced by Chemotherapy. Cell reports. 2015; 11:1358-1366.