Two novel splice variants of SOX2OT, SOX2OT-S1, and SOX2OT-S2 are coupregulated with SOX2 and OCT4 in esophageal squamous cell carcinoma

Stem Cells

Volumn 32, Issue 1, 2014, Pages 126-134

  Shahryari, Alireza ^a   Rafiee, Mahmoud Reza ^a   Fouani, Youssef ^a   Oliae, Nasrin Alipour ^a   Samaei, Nader Mansour ^b   Shafiee, Mohammad ^b,c   Semnani, Shahryar ^b   Vasei, Mohammad ^d   Mowla, Seyed Javad ^a  

^a TARBIAT MODARES UNIVERSITY   (Iran)

^b GOLESTAN UNIVERSITY OF MEDICAL SCIENCES   (Iran)

^c NATIONAL INSTITUTE OF GENETIC ENGINEERING AND BIOTECHNOLOGY   (Iran)

^d TEHRAN UNIVERSITY OF MEDICAL SCIENCES   (Iran)

Author keywords

ESCC; LncRNA; Novel spliced variants; SOX2; SOX2OT; Stem cell

Indexed keywords

OCTAMER TRANSCRIPTION FACTOR 4; SOX2 OVERLAPPING TRANSCRIPT S1; SOX2 OVERLAPPING TRANSCRIPT S2; TRANSCRIPTION FACTOR SOX2; UNCLASSIFIED DRUG;

ARTICLE; CANCER GROWTH; CELL CYCLE; CELL CYCLE G1 PHASE; CELL DIFFERENTIATION; CELLULAR DISTRIBUTION; CONTROLLED STUDY; DOWN REGULATION; EMBRYONAL CARCINOMA STEM CELL; ESOPHAGEAL SQUAMOUS CELL CARCINOMA; EXON; HUMAN; HUMAN CELL; NUCLEOTIDE SEQUENCE; PLURIPOTENT STEM CELL; PROTEIN EXPRESSION; PROTEIN FUNCTION; PROTEIN STABILITY; UPREGULATION;

ESCC; LNCRNA; NOVEL SPLICED VARIANTS; SOX2; SOX2OT; STEM CELL;

CARCINOMA, SQUAMOUS CELL; CELL CULTURE TECHNIQUES; CELL DIFFERENTIATION; EMBRYONAL CARCINOMA STEM CELLS; ESOPHAGEAL NEOPLASMS; HUMANS; OCTAMER TRANSCRIPTION FACTOR-3; PLURIPOTENT STEM CELLS; PROTEIN ISOFORMS; RNA INTERFERENCE; RNA SPLICING; RNA, LONG NONCODING; SOXB1 TRANSCRIPTION FACTORS; UP-REGULATION;

EID: 84891792702     PISSN: 10665099     EISSN: None     Source Type: Journal    
DOI: 10.1002/stem.1542     Document Type: Article

References (42)

1. Ponting CP, Oliver PL, Reik W. Evolution and functions of long noncoding RNAs. Cell 2009;136:629-641.
2. Wilusz JE, Sunwoo H, Spector DL. Long noncoding RNAs: Functional surprises from the RNA world. Genes Dev 2009;23:1494-1504.
3. Tsai MC, Manor O, Wan Y et al. Long noncoding RNA as modular scaffold of histone modification complexes. Science 2009;329:689-693.
4. Peng X, Gralinski L, Armour CD et al. Unique signatures of long noncoding RNA expression in response to virus infection and altered innate immune signaling. MBio 2010;1: e00206-e00210. doi:10.1128/mBio.00206-10.
5. Mercer TR, Dinger ME, Mattick JS. Long non-coding RNAs: Insights into functions. Nat Rev 2009;10:155-159.
6. Khalil AM, Guttman M, Huarte M et al. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. PNAS 2009;106:11667-11672.
7. Esteller M. Non-coding RNAs in human disease. Nat Rev 2011;12:861-874.
8. Perez DS, Hoage TR, Pritchett JR et al. Long, abundantly expressed non-coding transcripts are altered in cancer. Hum Mol Genet 2007;17:642-655.
9. Prensner JR, Chinnaiyan AM. The emergence of lncRNAs in cancer biology. Cancer Discov 2011;1:391-407.
10. Huarte M, Rinn JL. Large non-coding RNAs: Missing links in cancer? Hum Mol Genet
11. Guttman M, Amit I, Garber M et al. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 2009;458:223-227.
12. Dinger ME, Amaral PP, Mercer TR et al. Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation. Genome Res 2008;18:1433-1445.
13. Wang XQ, Crutchley JL, Dostie J. Shaping the genome with non-coding RNAs. Curr Genomics 2011;12:307-321.
14. Zhang X, Lian Z, Padden C et al. A myelopoiesis-associated regulatory intergenic noncoding RNA transcript within the human HOXA cluster. Blood 2009;113:2526-2534.
15. Orom UA, Derrien T, Beringer M et al. Long noncoding RNAs with enhancer-like function in human cells. Cell 2010;143:46-58.
16. Taft RJ, Pang KC, Mercer TR et al. Noncoding RNAs: Regulators of disease. J Pathol 2010;220:126-139.
17. Mattick JS. The genetic signatures of noncoding RNAs. PLoS Genet 2009;5: e1000459.
18. Rinn JL, Kertesz M, Wang JK et al. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell 2007;129:1311-1323.
19. Gibb EA, Brown CJ, Lam WL. The functional role of long non-coding RNA in human carcinomas. Mol Cancer 2011; 10:38-55.
20. Gupta RA, Shah N, Wang KC et al. Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis. Nature 2010;464:1071-1076.
21. Loewer S, Cabili MN, Guttman M et al. Large intergenic non-coding RNA-RoR modulates reprogramming of human. Nat Genet 2010;42:1113-1117.
22. Yuan P, Kadara H, Behrens C et al. Sex determining region Y-Box 2 (SOX2) is a potential cell-lineage gene highly expressed in the pathogenesis of squamous cell carcinomas of the lung. PLoS One 2010;5:e9112.
23. Maier S, Wilbertz T, Braun M et al. SOX2 amplification is a common event in squamous cell carcinomas of different organ sites. Hum Pathol 2011;42:1078-1088.
24. Rizzino A. Sox2 and Oct-3/4: A versatile pair of master regulators that orchestrate the self-renewal and pluripotency of embryonic stem cells by functioning as molecular rheostats. Wiley Interdiscip Rev Syst Biol Med 2009;1:228-236.
25. Bass AJ, Watanabe H, Mermel CH et al. SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas. Nat Genet 2009;41:1238-1242.
26. Hussenet T, Dali S, Exinger J et al. SOX2 is an oncogene activated by recurrent 3q26.3 amplifications in human lung squamous cell carcinomas. PLoS One 2010;5:e8960.
27. Boyer LA, Lee TI, Cole MF et al. Core transcriptional regulatory circuitry in human embryonic stem cells. Cell 2005;122:947-956.
28. Fantes J, Ragge NK, Lynch SA et al. Mutations in SOX2 cause anophthalmia. Nat Genet 2003;33:461-463.
29. Amaral PP, Neyt C, Wilkins SJ et al. Complex architecture and regulated expression of the Sox2ot locus during vertebrate development. RNA 2009;15:2013-2027.
30. Coyle DE, Li J, Baccei M. Regional differentiation of retinoic acid-induced human pluripotent embryonic carcinoma stem cell neurons. PLoS One 2011;6:e16174. doi: 10.1371/journal.pone. 0016174.
31. Liu Y, Shin S, Zeng X et al. Genome wide profiling of human embryonic stem cells (hESCs), their derivatives and embryonal carcinoma cells to develop base profiles of U.S. Federal government approved hESC lines. BMC Dev Biol 2006;6:20.
32. Enver T, Soneji S, Joshi C et al. Cellular differentiation hierarchies in normal and culture-adapted human embryonic stem cells. Hum Mol Genet 2005;14:3129-3140. doi: 10.1093/hmg/ddi345.
33. Sperger JM, Chen X, Draper JS et al. Gene expression patterns in human embryonic stem cells and human pluripotent germ cell tumors. Proc Natl Acad Sci USA 2003; 100:13350-13355.
34. Przyborski SA, Christie VB, Hayman MW et al. Human embryonal carcinoma stem cells: Models of embryonic development in humans. Stem Cells Dev 2004;13:400-408.
35. Yu SC, Ping YF, Yi L et al. Isolation and characterization of cancer stem cells from a human glioblastoma cell line U87. Cancer Lett 2008;265:124-134.
36. Atlasi Y, Mowla SJ, Ziaee SA et al. OCT4 spliced variants are differentially expressed in human pluripotent and nonpluripotent cells. Stem Cells 2008;26:3068-3074.
37. Ng SY, Johnson R, Stanton LWet al. Human long non-coding RNAs promote pluripotency and neuronal differentiation by association with chromatin modifiers and transcription factors. EMBO J 2011;31:522-533.
38. Sheik Mohamed J, Gaughwin PM, Lim B et al. Conserved long noncoding RNAs transcriptionally regulated by Oct4 and Nanog modulate pluripotency in mouse embryonic stem cells. RNA 2010;16:324-337.
39. Alonso MM, Diez-Valle R, Manterola L et al. Genetic and epigenetic modifications of Sox2contribute to the invasive phenotype of malignant gliomas. PLoS One 2011;6:e26740.
40. Oppel F, Muller N, Schackert G et al. SOX2-RNAi attenuates S-phase entry and induces RhoA-dependent switch to proteaseindependent amoeboid migration in human glioma cells. Mol Cancer 2011;10:137.
41. Masui S, Nakatake Y, Toyooka Y et al. Pluripotency governed by Sox2 via regulation of Oct3/4 expression in mouse embryonic stem cells. Nat Cell Biol 2007;9:625-635.
42. Mercer TR, Qureshi IA, Gokhan S et al. Long noncoding RNAs in neuronal-glial fate specification and oligodendrocyte lineage maturation. BMC Neurosci 2010;11:14.