Chromosome wide analysis of CUGBP1 binding sites identifies the tetraspanin CD9 mRNA as a target for CUGBP1-mediated down-regulation

Biochemical and Biophysical Research Communications

Volumn 394, Issue 4, 2010, Pages 884-889

  Le Tonquèze, Olivier ^a   Gschloessl, Bernhard ^a   Namanda Vanderbeken, Allen ^a   Legagneux, Vincent ^a   Paillard, Luc ^a   Audic, Yann ^a  

^a UNIVERSITÉ DE RENNES 1   (France)

Author keywords

CELF 1; Motif scoring; Post transcriptional regulations; RNA binding proteins

Indexed keywords

CD9 ANTIGEN; CUGBP1 PROTEIN; MESSENGER RNA; RNA BINDING PROTEIN; TETRASPANIN; UNCLASSIFIED DRUG;

ALTERNATIVE RNA SPLICING; ARTICLE; BINDING SITE; CHROMOSOME 12; CHROMOSOME ANALYSIS; DOWN REGULATION; HUMAN; HUMAN CELL; IMMUNOPRECIPITATION; PRIORITY JOURNAL; PROGNOSIS; PROTEIN BINDING; PROTEIN EXPRESSION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA STABILITY; RNA TRANSLATION;

3' UNTRANSLATED REGIONS; ANTIGENS, CD; BINDING SITES; CELLS, CULTURED; CHROMOSOMES, HUMAN, PAIR 12; COMPUTATIONAL BIOLOGY; DOWN-REGULATION; GENE EXPRESSION REGULATION; GENE KNOCKDOWN TECHNIQUES; HUMANS; MEMBRANE GLYCOPROTEINS; RNA STABILITY; RNA, MESSENGER; RNA-BINDING PROTEINS; SEQUENCE ANALYSIS, DNA;

EID: 77950929491     PISSN: 0006291X     EISSN: 10902104     Source Type: Journal    
DOI: 10.1016/j.bbrc.2010.03.020     Document Type: Article

References (34)

1. Barreau C., Paillard L., and Osborne H.B. AU-rich elements and associated factors: are there unifying principles?. Nucleic Acids Res. 33 22 (2005) 7138-7150
2. Vlasova I.A., Tahoe N.M., Fan D., Larsson O., Rattenbacher B., Sternjohn J.R., et al. Conserved GU-rich elements mediate mRNA decay by binding to CUG-binding protein 1. Mol. Cell 29 2 (2008) 263-270
3. Osborne H.B., Gautier-Courteille C., Graindorge A., Barreau C., Audic Y., Thuret R., et al. Post-transcriptional regulation in Xenopus embryos: role and targets of EDEN-BP. Biochem. Soc. Trans. 33 Pt. 6 (2005) 1541-1543
4. Daughters R.S., Tuttle D.L., Gao W., Ikeda Y., Moseley M.L., Ebner T.J., et al. RNA gain-of-function in spinocerebellar ataxia type 8. PLoS Genet. 5 8 (2009) e1000600
5. Julien M., Luc P., Yann A., Bertrand C., Olivier D., Christine Le B., et al. CUG-BP1/CELF1 requires UGU-rich sequences for high-affinity binding. Biochem. J. 400 2 (2006) 291-301
6. Zöller M. Tetraspanins: push and pull in suppressing and promoting metastasis. Nat. Rev. Cancer 9 1 (2009) 40-55
7. Graindorge A., Le Tonquèze O., Thuret R., Pollet N., Osborne H.B., and Audic Y. Identification of CUG-BP1/EDEN-BP target mRNAs in Xenopus tropicalis. Nucleic Acids Res. 36 6 (2008) 1861-1870
8. Shannon C. A mathematical theory of communication. Bell Syst. Tech. J. 27 (1948) 379-423
9. Gschloessl B., Guermeur Y., and Cock J.M. HECTAR: a method to predict subcellular targeting in heterokonts. BMC Bioinf. 9 (2008) 393
10. Audic Y., Omilli F., and Osborne H.B. Postfertilization deadenylation of mRNAs in Xenopus laevis embryos is sufficient to cause their degradation at the blastula stage. Mol. Cell. Biol. 17 1 (1997) 209-218
11. Audic Y., Omilli F., and Osborne H.B. Embryo deadenylation element-dependent deadenylation is enhanced by a cis element containing AUU repeats. Mol. Cell. Biol. 18 12 (1998) 6879-6884
12. Legagneux V., Bouvet P., Omilli F., Chevalier S., and Osborne H.B. Identification of RNA-binding proteins specific to Xenopus Eg maternal mRNAs: association with the portion of Eg2 mRNA that promotes deadenylation in embryos. Development 116 4 (1992) 1193-1202
13. Bouvet P., Omilli F., Arlot-Bonnemains Y., Legagneux V., Roghi C., Bassez T., et al. The deadenylation conferred by the 3′ untranslated region of a developmentally controlled mRNA in Xenopus embryos is switched to polyadenylation by deletion of a short sequence element. Mol. Cell. Biol. 14 3 (1994) 1893-1900
14. Paillard L., Omilli F., Legagneux V., Bassez T., Maniey D., and Osborne H.B. EDEN and EDEN-BP, a cis element and an associated factor that mediate sequence-specific mRNA deadenylation in Xenopus embryos. EMBO J. 17 1 (1998) 278-287
15. Fejes A.P., Robertson G., Bilenky M., Varhol R., Bainbridge M., and Jones S.J.M. FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology. Bioinformatics 24 15 (2008) 1729-1730
16. Nakamura Y., Handa K., Iwamoto R., Tsukamoto T., Takahasi M., and Mekada E. Immunohistochemical distribution of CD9, heparin binding epidermal growth factor-like growth factor, and integrin {{alpha}}3{beta}1 in normal human tissues. J. Histochem. Cytochem. 49 4 (2001) 439-444
17. Clay D., Rubinstein E., Mishal Z., Anjo A., Prenant M., Jasmin C., et al. CD9 and megakaryocyte differentiation. Blood 97 7 (2001) 1982-1989
18. Limb J., Yoon S., Lee K.E., Kim B., Lee S., Bae Y.S., et al. Regulation of megakaryocytic differentiation of K562 cells by FosB, a member of the Fos family of AP-1 transcription factors. Cell. Mol. Life Sci. 66 11-12 (2009) 1962-1973
19. De Bruyne E., Bos T.J., Asosingh K., Vande Broek I., Menu E., Van Valckenborgh E., et al. Epigenetic silencing of the tetraspanin CD9 during disease progression in multiple myeloma cells and correlation with survival. Clin. Cancer Res. 14 10 (2008) 2918-2926
20. Paillard L., Legagneux V., Maniey D., and Osborne H.B. c-Jun ARE targets mRNA deadenylation by an EDEN-BP (embryo deadenylation element-binding protein)-dependent pathway. J. Biol. Chem. 277 5 (2002) 3232-3235
21. Mili S., and Steitz J.A. Evidence for reassociation of RNA-binding proteins after cell lysis: implications for the interpretation of immunoprecipitation analyses. RNA 10 11 (2004) 1692-1694
22. Kawai T., Lal A., Yang X., Galban S., Mazan-Mamczarz K., and Gorospe M. Translational control of cytochrome c by RNA-binding proteins TIA-1 and HuR. Mol. Cell. Biol. 26 8 (2006) 3295-3307
23. López de Silanes I., Zhan M., Lal A., Yang X., and Gorospe M. Identification of a target RNA motif for RNA-binding protein HuR. Proc. Natl. Acad. Sci. USA 101 9 (2004) 2987-2992
24. V. Gandemer, M. Aubry, M. Roussel, A. Rio, M. de Tayrac, A. Vallee, et al., CD9 expression can be used to predict childhood TEL/AML1-positive acute lymphoblastic leukemia: proposal for an accelerated diagnostic flowchart. Leuk. Res. [Internet], 2009, Nov 4 [cité 2010 Jan 26]; Available from: http://www.ncbi.nlm.nih.gov.gate1.inist.fr/pubmed/19896186.
25. Barreau C., Watrin T., Beverley Osborne H., and Paillard L. Protein expression is increased by a class III AU-rich element and tethered CUG-BP1. Biochem. Biophys. Res. Commun. 347 3 (2006) 723-730
26. Moraes K.C.M., Wilusz C.J., and Wilusz J. CUG-BP binds to RNA substrates and recruits PARN deadenylase. RNA 12 6 (2006) 1084-1091
27. Wang J., Bégin L.R., Bérubé N.G., Chevalier S., Aprikian A.G., Gourdeau H., et al. Down-regulation of CD9 expression during prostate carcinoma progression is associated with CD9 mRNA modifications. Clin. Cancer Res. 13 8 (2007) 2354-2361
28. Seymour L., Bezwoda W.R., and Meyer K. Tumor factors predicting for prognosis in metastatic breast cancer. The presence of P24 predicts for response to treatment and duration of survival. Cancer 66 11 (1990) 2390-2394
29. Cajot J.F., Sordat I., Silvestre T., and Sordat B. Differential display cloning identifies motility-related protein (MRP1/CD9) as highly expressed in primary compared to metastatic human colon carcinoma cells. Cancer Res. 57 13 (1997) 2593-2597
30. Adachi M., Taki T., Ieki Y., Huang C.L., Higashiyama M., and Miyake M. Correlation of KAI1/CD82 gene expression with good prognosis in patients with non-small cell lung cancer. Cancer Res. 56 8 (1996) 1751-1755
31. Kusukawa J., Ryu F., Kameyama T., and Mekada E. Reduced expression of CD9 in oral squamous cell carcinoma: CD9 expression inversely related to high prevalence of lymph node metastasis. J. Oral Pathol. Med. 30 2 (2001) 73-79
32. San Miguel J.F., Ojeda E., Gonzalez M., Orfao A., Cañizo M.C., Sanchez J., et al. Prognostic value of immunological markers in acute myeloblastic leukemia. Leukemia 3 2 (1989) 108-111
33. Gandemer V., Rio A., de Tayrac M., Sibut V., Mottier S., Ly Sunnaram B., et al. Five distinct biological processes and 14 differentially expressed genes characterize TEL/AML1-positive leukemia. BMC Genom. 8 (2007) 385
34. Ikeyama S., Koyama M., Yamaoko M., Sasada R., and Miyake M. Suppression of cell motility and metastasis by transfection with human motility-related protein (MRP-1/CD9) DNA. J. Exp. Med. 177 5 (1993) 1231-1237