Recognition of a weak-context upstream-AUG codon in the AtMHX gene is facilitated by the secondary structure of the 5′ untranslated region

Plant Science

Volumn 172, Issue 2, 2007, Pages 354-362

  David Assael, Ora ^a   Saul, Helen ^a   Mizrahi, Keren ^a   Leviad, Elad ^a   Mizrachy Dagri, Talya ^a   Brook, Emil ^a   Berezin, Irina ^a   Shaul, Orit ^a  

^a BAR ILAN UNIVERSITY   (Israel)

Author keywords

5 Untranslated region; AUG recognition; Leader; Start codon context; Translational regulation; Upstream ORF

Indexed keywords

AMINO ACIDS; GENES; MOLECULAR STRUCTURE; MUTAGENESIS;

AUG RECOGNITION; SECONDARY STRUCTURE; START-CODON CONTEXT; TRANSLATIONAL REGULATION; UNTRANSLATED REGION;

NUCLEIC ACIDS;

AMINO ACIDS; GENES; NUCLEOTIDES;

ARABIDOPSIS;

EID: 33846094478     PISSN: 01689452     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.plantsci.2006.09.010     Document Type: Article

References (44)

1. David-Assael O., Berezin I., Shoshani-Knaani N., Saul H., Mizrachy-Dagri T., Chen J., Brook E., and Shaul O. AtMHX is an auxin and ABA-regulated transporter whose expression pattern suggests a role in ion homeostasis in tissues with photosynthetic potential. Func. Plant Biol. 33 (2006) 661-672
2. + exchanger. EMBO J. 18 (1999) 3973-3980
3. Shaul O. Magnesium transport and function in plants: the tip of the iceberg. Biometals 15 (2002) 307-321
4. David-Assael O., Saul H., Saul V., Mizrachy-Dagri T., Berezin I., Brook E., and Shaul O. Expression of AtMHX, an Arabidopsis vacuolar metal transporter, is repressed by the 5′ untranslated region of its gene. J. Exp. Bot. 56 (2005) 1039-1047
5. Chang K.S., Lee S.H., Hwang S.B., and Park K.Y. Characterization and translational regulation of the arginine decarboxylase gene in carnation (Dianthus caryophyllus L.). Plant J. 24 (2000) 45-56
6. Damiani R.D., and Wessler S.R. An upstream open reading frame represses expression of Lc, a member of the R/B family of maize transcriptional activators. Proc. Natl. Acad. Sci. USA 90 (1993) 8244-8248
7. Hu W.W., Gong H., and Pua E.C. The pivotal roles of the plant S-adenosylmethionine decarboxylase 5′ untranslated leader sequence in regulation of gene expression at the transcriptional and posttranscriptional levels. Plant Physiol. 138 (2005) 276-286
8. Kwak S.-H., and Lee S.H. The regulation of ornithine decarboxylase gene expression by sucrose and small upstream open reading frame in tomato (Lycopersicon esculentum Mill). Plant Cell Physiol. 42 (2001) 314-323
9. Locatelli F., Magnani E., Vighi C., Lanzanova C., and Coraggio I. Inhibitory effect of myb7 uORF on downstream gene expression in homologous (rice) and heterologous (tobacco) systems. Plant Mol. Biol. 48 (2002) 309-318
10. Lukaszewicz M., Jerouville B., and Boutry M. Signs of translational regulation within the transcript leader of a plant plasma membrane H(+)-ATPase gene. Plant J. 14 (1998) 413-423
11. Ng D.W., Chandrasekharan M.B., and Hall T.C. The 5′ UTR negatively regulates quantitative and spatial expression from the ABI3 promoter. Plant Mol. Biol. 54 (2004) 25-38
12. Procissi A., Piazza P., and Tonelli C. A maize r1 gene is regulated post-transcriptionally by differential splicing of its leader. Plant Mol. Biol. 49 (2002) 239-248
13. Wang L., and Wessler S.R. Inefficient reinitiation is responsible for upstream open reading frame-mediated translational repression of the maize R gene. Plant Cell 10 (1998) 1733-1746
14. Kozak M. Pushing the limits of the scanning mechanism for initiation of translation. Gene 299 (2002) 1-34
15. Meijer H.A., and Thomas A.A. Control of eukaryotic protein synthesis by upstream open reading frames in the 5′-untranslated region of an mRNA. Biochem. J. 367 (2002) 1-11
16. Morris D.R., and Geballe A.P. Upstream open reading frames as regulators of mRNA translation. Mol. Cell. Biol. 20 (2000) 8635-8642
17. Vilela C., and McCarthy J.E. Regulation of fungal gene expression via short open reading frames in the mRNA 5′ untranslated region. Mol. Microbiol. 49 (2003) 859-867
18. Cao J., and Geballe A.P. Coding sequence-dependent ribosomal arrest at termination of translation. Mol. Cell Biol. 16 (1996) 603-608
19. Geballe A.P., and Morris D.R. Initiation codons within 5′-leaders of mRNAs as regulators of translation. Trends Biochem. Sci. 19 (1994) 159-164
20. Kozak M. Effects of intercistronic length on the efficiency of reinitiation by eucaryotic ribosomes. Mol. Cell Biol. 7 (1987) 3438-3445
21. Kozak M. Point mutations define a sequence flanking the AUG initiator codon that modulates translation by eukaryotic ribosomes. Cell 44 (1986) 283-292
22. Kozak M. Recognition of AUG and alternative initiator codons is augmented by G in position +4 but is not generally affected by the nucleotides in positions [5+] and +6. EMBO J. 16 (1997) 2482-2492
23. Kozak M. Regulation of translation via mRNA structure in prokaryotes and eukaryotes. Gene 361 (2005) 13-37
24. Kozak M. Context effects and inefficient initiation at non-AUG codons in eucaryotic cell-free translation systems. Mol. Cell Biol. 9 (1989) 5073-5080
25. Dinesh-Kumar S.P., and Miller W.A. Control of start codon choice on a plant viral RNA encoding overlapping genes. Plant Cell 5 (1993) 679-692
26. Gallie D.R., Sleat D.E., Watts J.W., Turner P.C., and Wilson T.M. A comparison of eukaryotic viral 5′-leader sequences as enhancers of mRNA expression in vivo. Nucl. Acids Res. 15 (1987) 8693-8711
27. Johnston J.C., and Rochon D.M. Both codon context and leader length contribute to efficient expression of two overlapping open reading frames of a cucumber necrosis virus bifunctional subgenomic mRNA. Virology 221 (1996) 232-239
28. Lukaszewicz M., Feuermann M., Jerouville B., Stas A., and Boutry M. In vivo evaluation of the context sequence of the translation initiation codon in plants. Plant Sci. 154 (2000) 89-98
29. McElroy D., Blowers A.D., Jenes B., and Wu R. Construction of expression vectors based on the rice actin-1 (Act1) 5′ region for use in monocot transformation. Mol. Gen. Genet. 231 (1991) 150-160
30. Taylor J.L., Jones J.D.G., Sandler S., Mueller G.M., Bedbrook J., and Dunsmuir P. Optimizing the expression of chimeric genes in plant cells. Mol. Gen. Genet. 210 (1987) 572-577
31. Kozak M. Downstream secondary structure facilitates recognition of initiator codons by eukaryotic ribosomes. Proc. Natl. Acad. Sci. USA 87 (1990) 8301-8305
32. Chabregas S.M., Luche D.D., Van Sluys M.A., Menck C.F., and Silva-Filho M.C. Differential usage of two in-frame translational start codons regulates subcellular localization of Arabidopsis thaliana THI1. J. Cell Sci. 116 (2003) 285-291
33. Hwang W.L., and Su T.S. The encapsidation signal of hepatitis B virus facilitates preC AUG recognition resulting in inefficient translation of the downstream genes. J. Gen. Virol. 80 (1999) 1769-1776
34. Riechmann J.L., Ito T., and Meyerowitz E.M. Non-AUG initiation of AGAMOUS mRNA translation in Arabidopsis thaliana. Mol. Cell Biol. 19 (1999) 8505-8512
35. Roy P., Rondeau S.B., Vezina C., and Boileau G. Effect of mRNA secondary structure on the efficiency of translational initiation by eukaryotic ribosomes. Eur. J. Biochem. 191 (1990) 647-652
36. Yang L., Chen J., Chang C.C., Yang X.Y., Wang Z.Z., Chang T.Y., and Li B.L. A stable upstream stem-loop structure enhances selection of the first 5′-ORF-AUG as a main start codon for translation initiation of human ACAT1 mRNA. Acta Biochim. Biophys. Sin. (Shanghai) 36 (2004) 259-268
37. Clyde K., and Harris E. RNA secondary structure in the coding region of dengue virus type 2 directs translation start codon selection and is required for viral replication. J. Virol. 80 (2006) 2170-2182
38. Colasanti J., Tyers M., and Sundaresan V. Isolation and characterization of cDNA clones encoding a functional p34cdc2 homologue from Zea mays. Proc. Natl. Acad. Sci. USA 88 (1991) 3377-3381
39. Sarkar G., and Sommer S.S. The "megaprimer" method of site-directed mutagenesis. Biotechniques 8 (1990) 404-407
40. Zuker M. Mfold web server for nucleic acid folding and hybridization prediction. Nucl. Acids Res. 31 (2003) 3406-3415
41. Kozak M. Circumstances and mechanisms of inhibition of translation by secondary structure in eucaryotic mRNAs. Mol. Cell Biol. 9 (1989) 5134-5142
42. Kozak M. Constraints on reinitiation of translation in mammals. Nucl. Acids Res. 29 (2001) 5226-5232
43. Poyry T.A., Kaminski A., and Jackson R.J. What determines whether mammalian ribosomes resume scanning after translation of a short upstream open reading frame?. Gen. Dev. 18 (2004) 62-75
44. Kolupaeva V.G., Pestova T.V., and Hellen C.U. An enzymatic footprinting analysis of the interaction of 40S ribosomal subunits with the internal ribosomal entry site of hepatitis C virus. J. Virol. 74 (2000) 6242-6250