Identification and characterization of alternative promoters of zebrafish Rtn-4/Nogo genes in cultured cells and zebrafish embryos

Nucleic Acids Research

Volumn 38, Issue 14, 2010, Pages 4635-4650

  Chen, Yi Chung ^a   Wu, Bo Kai ^b   Chu, Cheng Ying ^a   Cheng, Chia Hsiung ^a   Han, Hau Wei ^b   Chen, Gen Der ^a   Lee, Ming Ting ^a   Hwang, Pung Pung ^c   Kawakami, Koichi ^d   Chang, Chun Che ^b   Huang, Chang Jen ^a,b  

^a INSTITUTE OF BIOLOGICAL CHEMISTRY   (Taiwan)

^b NATIONAL TAIWAN UNIVERSITY   (Taiwan)

^c INSTITUTE OF CELLULAR AND ORGANISMIC BIOLOGY   (Taiwan)

^d NATIONAL INSTITUTE OF GENETICS   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

GREEN FLUORESCENT PROTEIN; MESSENGER RNA; MYOD PROTEIN; MYOGENIC FACTOR 5; PROTEIN NOGO; PROTEIN NOGO B; TRANSCRIPTION FACTOR GATA 4; TRANSCRIPTION FACTOR GATA 6; UNCLASSIFIED DRUG; MYELIN PROTEIN; TRANSCRIPTION FACTOR GATA; XENOPUS PROTEIN;

ALTERNATIVE RNA SPLICING; ANIMAL CELL; ANIMAL CELL CULTURE; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; BRAIN; CONTROLLED STUDY; EMBRYO; EYE; GENE ACTIVITY; GENE EXPRESSION PROFILING; GENE IDENTIFICATION; GENE LOCATION; INTESTINE; LIVER; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; PROTEIN DOMAIN; SKELETAL MUSCLE; TISSUE DISTRIBUTION; TRANSGENICS; ZEBRA FISH; ANIMAL; ANIMAL EMBRYO; CELL LINE; EMBRYOLOGY; GENETICS; METABOLISM; TRANSGENIC ANIMAL;

DANIO RERIO; MAMMALIA;

ALTERNATIVE SPLICING; ANIMALS; ANIMALS, GENETICALLY MODIFIED; CELL LINE; EMBRYO, NONMAMMALIAN; GATA TRANSCRIPTION FACTORS; INTESTINES; LIVER; MICE; MYELIN PROTEINS; PROMOTER REGIONS, GENETIC; XENOPUS PROTEINS; ZEBRAFISH;

EID: 77955796070     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkq230     Document Type: Article

References (52)

1. Filbin,M.T. (2003) Myelin-associated inhibitors of axonal regeneration in the adult mammalian CNS. Nat. Rev. Neurosci., 4, 703-713.
2. Schwab,M.E. (2004) Nogo and axon regeneration. Curr. Opin. Neurobiol., 14, 118-124.
3. Yiu,G. and He,Z. (2003) Signaling mechanisms of the myelin inhibitors of axon regeneration. Curr. Opin. Neurobiol., 13, 545-551.
4. Fournier,A.E., GrandPre,T. and Strittmatter,S.M. (2001) Identification of a receptor mediating Nogo-66 inhibition of axonal regeneration. Nature, 409, 341-346.
5. Kim,J.E., Li,S., GrandPre,T., Qiu,D. and Strittmatter,S.M. (2003) Axon regeneration in young adult mice lacking Nogo-A/B. Neuron, 38, 187-199.
6. Kuang,E., Wan,Q., Li,X., Xu,H., Zou,T. and Qi,Y. (2006) ER stress triggers apoptosis induced by Nogo-B/ASY overexpression. Exp. Cell. Res., 312, 1983-1988.
7. Qi,B., Qi,Y., Watari,A., Yoshioka,N., Inoue,H., Minemoto,Y., Yamashita,K., Sasagawa,T. and Yutsudo,M. (2003) Pro-apoptotic ASY/Nogo-B protein associates with ASYIP. J. Cell. Physiol., 196, 312-318.
8. Acevedo,L., Yu,J., Erdjument-Bromage,H., Miao,R.Q., Kim,J.E., Fulton,D., Tempst,P., Strittmatter,S.M. and Sessa,W.C. (2004) A new role for Nogo as a regulator of vascular remodeling. Nat. Med., 10, 382-388.
9. Miao,R.Q., Gao,Y., Harrison,K.D., Prendergast,J., Acevedo,L.M., Yu,J., Hu,F., Strittmatter,S.M. and Sessa,W.C. (2006) Identification of a receptor necessary for Nogo-B stimulated chemotaxis and morphogenesis of endothelial cells. Proc. Natl Acad. Sci. USA, 103, 10997-11002.
10. Kritz,A.B., Yu,J., Wright,P.L., Wan,S., George,S.J., Halliday,C., Kang,N., Sessa,W.C. and Baker,A.H. (2008) In vivo modulation of Nogo-B attenuates neointima formation. Mol. Ther., 16, 1798-1804.
11. Becker,T., Wullimann,M.F., Becker,C.G., Bernhardt,R.R. and Schachner,M. (1997) Axonal regrowth after spinal cord transection in adult zebrafish. J. Comp. Neurol., 377, 577-595.
12. Wanner,M., Lang,D.M., Bandtlow,C.E., Schwab,M.E., Bastmeyer,M. and Stuermer,C.A. (1995) Reevaluation of the growth-permissive substrate properties of goldfish optic nerve myelin and myelin proteins. J. Neurosci., 15, 7500-7508.
13. Diekmann,H., Klinger,M., Oertle,T., Heinz,D., Pogoda,H.M., Schwab,M.E. and Stuermer,C.A. (2005) Analysis of the reticulon gene family demonstrates the absence of the neurite growth inhibitor Nogo-A in fish. Mol. Biol. Evol., 22, 1635-1648.
14. Brosamle,C. and Halpern,M.E. (2009) Nogo-Nogo receptor signalling in PNS axon outgrowth and pathfinding. Mol. Cell. Neurosci., 40, 401-409.
15. Oertle,T., Huber,C., van der Putten,H. and Schwab,M.E. (2003) Genomic structure and functional characterisation of the promoters of human and mouse nogo/rtn4. J. Mol. Biol., 325, 299-323.
16. Westerfield,M. (1995) The Zebrafish Book. University of Oregon Press, Eugene, OR, USA.
17. Kawakami,K., Takeda,H., Kawakami,N., Kobayashi,M., Matsuda,N. and Mishina,M. (2004) A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish. Dev. Cell., 7, 133-144.
18. Schung,J. and Overton,G.C. (1997), TESS: Transcription Element Search Software on the WWW, Technical Report CBIL-TR-1997-1001-v0.0, Computational Biology and Informatics Laboratory, School of Medicine, University of Pennsylvania.
19. Chou,C.M., Chen,Y.C., Lee,M.T., Chen,G.D., Lu,I.C., Chen,S.T. and Huang,C.J. (2006) Expression and characterization of a brain-specific protein kinase BSK146 from zebrafish. Biochem. Biophys. Res. Commun., 340, 767-775.
20. Kawakami,K. (2005) Transposon tools and methods in zebrafish. Dev. Dyn., 234, 244-254.
21. Kawakami,K. (2004) Transgenesis and gene trap methods in zebrafish by using the Tol2 transposable element. Methods Cell. Biol., 77, 201-222.
22. Higashijima,S., Okamoto,H., Ueno,N., Hotta,Y. and Eguchi,G. (1997) High-frequency generation of transgenic zebrafish which reliably express GFP in whole muscles or the whole body by using promoters of zebrafish origin. Dev. Biol., 192, 289-299.
23. Chen,Y.C., Cheng,C.H., Chen,G.D., Hung,C.C., Yang,C.H., Hwang,S.P., Kawakami,K., Wu,B.K. and Huang,C.J. (2009) Recapitulation of zebrafish sncga expression pattern and labeling the habenular complex in transgenic zebrafish using green fluorescent protein reporter gene. Dev. Dyn., 238, 746-754.
24. Groves,J.A., Hammond,C.L. and Hughes,S.M. (2005) Fgf8 drives myogenic progression of a novel lateral fast muscle fibre population in zebrafish. Development, 132, 4211-4222.
25. Hammond,C.L., Hinits,Y., Osborn,D.P., Minchin,J.E., Tettamanti,G. and Hughes,S.M. (2007) Signals and myogenic regulatory factors restrict pax3 and pax7 expression to dermomyotome-like tissue in zebrafish. Dev. Biol., 302, 504-521.
26. Hinits,Y., Osborn,D.P. and Hughes,S.M. (2009) Differential requirements for myogenic regulatory factors distinguish medial and lateral somitic, cranial and fin muscle fibre populations. Development, 136, 403-414.
27. Lin,C.Y., Chen,W.T., Lee,H.C., Yang,P.H., Yang,H.J. and Tsai,H.J. (2009) The transcription factor Six1a plays an essential role in the craniofacial myogenesis of zebrafish. Dev. Biol., 331, 152-166.
28. Schnapp,E., Pistocchi,A.S., Karampetsou,E., Foglia,E., Lamia,C.L., Cotelli,F. and Cossu,G. (2009) Induced early expression of mrf4 but not myog rescues myogenesis in the myod/myf5 double-morphant zebrafish embryo. J. Cell. Sci., 122, 481-488.
29. Chen,M.S., Huber,A.B., van der Haar,M.E., Frank,M., Schnell,L., Spillmann,A.A., Christ,F. and Schwab,M.E. (2000) Nogo-A is a myelin-associated neurite outgrowth inhibitor and an antigen for monoclonal antibody IN-1. Nature, 403, 434-439.
30. Apone,S. and Hauschka,S.D. (1995) Muscle gene E-box control elements. Evidence for quantitatively different transcriptional activities and the binding of distinct regulatory factors. J. Biol. Chem., 270, 21420-21427.
31. Amacher,S.L., Buskin,J.N. and Hauschka,S.D. (1993) Multiple regulatory elements contribute differentially to muscle creatine kinase enhancer activity in skeletal and cardiac muscle. Mol. Cell. Biol., 13, 2753-2764.
32. Rao,M.V., Donoghue,M.J., Merlie,J.P. and Sanes,J.R. (1996) Distinct regulatory elements control muscle-specific, fiber-type-selective, and axially graded expression of a myosin light-chain gene in transgenic mice. Mol. Cell. Biol., 16, 3909-3922.
33. McKinsey,T.A., Zhang,C.L. and Olson,E.N. (2002) MEF2: a calcium-dependent regulator of cell division, differentiation and death. Trends Biochem. Sci., 27, 40-47.
34. Black,B.L. and Olson,E.N. (1998) Transcriptional control of muscle development by myocyte enhancer factor-2 (MEF2) proteins. Annu. Rev. Cell. Dev. Biol., 14, 167-196.
35. Ticho,B.S., Stainier,D.Y., Fishman,M.C. and Breitbart,R.E. (1996) Three zebrafish MEF2 genes delineate somitic and cardiac muscle development in wild-type and mutant embryos. Mech. Dev., 59, 205-218.
36. Hu,F., Liu,B.P., Budel,S., Liao,J., Chin,J., Fournier,A. and Strittmatter,S.M. (2005) Nogo-A interacts with the Nogo-66 receptor through multiple sites to create an isoform-selective subnanomolar agonist. J. Neurosci., 25, 5298-5304.
37. Klinger,M., Taylor,J.S., Oertle,T., Schwab,M.E., Stuermer,C.A. and Diekmann,H. (2004) Identification of Nogo-66 receptor (NgR) and homologous genes in fish. Mol. Biol. Evol., 21, 76-85.
38. Pare,J.F., Roy,S., Galarneau,L. and Belanger,L. (2001) The mouse fetoprotein transcription factor (FTF) gene promoter is regulated by three GATA elements with tandem E box and Nkx motifs, and FTF in turn activates the Hnf3beta, Hnf4alpha, and Hnf1alpha gene promoters. J. Biol. Chem., 276, 13136-13144.
39. Kato,T., Katabami,K., Takatsuki,H., Han,S.A., Takeuchi,K., Irimura,T. and Tsuji,T. (2002) Characterization of the promoter for the mouse alpha 3 integrin gene. Eur. J. Biochem., 269, 4524-4532.
40. Holtzinger,A. and Evans,T. (2005) Gata4 regulates the formation of multiple organs. Development, 132, 4005-4014.
41. Reiter,J.F., Alexander,J., Rodaway,A., Yelon,D., Patient,R., Holder,N. and Stainier,D.Y. (1999) Gata5 is required for the development of the heart and endoderm in zebrafish. Genes Dev., 13, 2983-2995.
42. Reiter,J.F., Kikuchi,Y. and Stainier,D.Y. (2001) Multiple roles for Gata5 in zebrafish endoderm formation. Development, 128, 125-135.
43. Zhao,R., Watt,A.J., Li,J., Luebke-Wheeler,J., Morrisey,E.E. and Duncan,S.A. (2005) GATA6 is essential for embryonic development of the liver but dispensable for early heart formation. Mol. Cell. Biol., 25, 2622-2631.
44. Josephson,A., Trifunovski,A., Widmer,H.R., Widenfalk,J., Olson,L. and Spenger,C. (2002) Nogo-receptor gene activity: cellular localization and developmental regulation of mRNA in mice and humans. J. Comp. Neurol., 453, 292-304.
45. Her,G.M., Chiang,C.C., Chen,W.Y. and Wu,J.L. (2003) In vivo studies of liver-type fatty acid binding protein (L-FABP) gene expression in liver of transgenic zebrafish. FEBS Lett., 538, 125-133.
46. Her,G.M., Chiang,C.C. and Wu,J.L. (2004) Zebrafish intestinal fatty acid binding protein (I-FABP) gene promoter drives gut-specific expression in stable transgenic fish. Genesis, 38, 26-31.
47. Morrisey,E.E., Tang,Z., Sigrist,K., Lu,M.M., Jiang,F., Ip,H.S. and Parmacek,M.S. (1998) GATA6 regulates HNF4 and is required for differentiation of visceral endoderm in the mouse embryo. Genes Dev., 12, 3579-3590.
48. Andre,M., Ando,S., Ballagny,C., Durliat,M., Poupard,G., Briancon,C. and Babin,P.J. (2000) Intestinal fatty acid binding protein gene expression reveals the cephalocaudal patterning during zebrafish gut morphogenesis. Int. J. Dev. Biol., 44, 249-252.
49. Denovan-Wright,E.M., Pierce,M., Sharma,M.K. and Wright,J.M. (2000) cDNA sequence and tissue-specific expression of a basic liver-type fatty acid binding protein in adult zebrafish. Biochim. Biophys. Acta., 1492, 227-232.
50. Liu,R.Z., Denovan-Wright,E.M., Degrave,A., Thisse,C., Thisse,B. and Wright,J.M. (2004) Differential expression of duplicated genes for brain-type fatty acid-binding proteins (fabp7a and fabp7b) during early development of the CNS in zebrafish. Gene Expr. Patterns, 4, 379-387.
51. Liu,R.Z., Denovan-Wright,E.M. and Wright,J.M. (2003) Structure, linkage mapping and expression of the heart-type fatty acid-binding protein gene (fabp3) from zebrafish. Eur. J. Biochem., 270, 3223-3234.
52. Pierce,M., Wang,Y., Denovan-Wright,E.M. and Wright,J.M. (2000) Nucleotide sequence of a cDNA clone coding for an intestinal-type fatty acid binding protein and its tissue-specific expression in zebrafish. Biochim. Biophys. Acta., 1490, 175-183.