Proteins are shared among RNA-protein complexes that form in the 5′ untranslated regions of spinach chloroplast mRNAs

Current Genetics

Volumn 41, Issue 1, 2002, Pages 53-62

  Robida, Mark D ^a,b   Merhige, Patricia M ^a   Hollingsworth, Margaret J ^a  

^a UNIVERSITY AT BUFFALO   (United States)

^b UNIVERSITY OF COLORADO   (United States)

Author keywords

5 UTR; Chloroplast; Gene expression; RNA protein complexes

Indexed keywords

CHLOROPLAST RNA; CYTOCHROME; MESSENGER RNA; PROTON TRANSPORTING ADENOSINE TRIPHOSPHATE SYNTHASE; REDUCED NICOTINAMIDE ADENINE DINUCLEOTIDE DEHYDROGENASE; RNA BINDING PROTEIN;

5' UNTRANSLATED REGION; ARTICLE; BINDING ASSAY; CHLOROPLAST; COMPLEX FORMATION; CONTROLLED STUDY; ENZYME SUBUNIT; EXTRACT; GENE EXPRESSION REGULATION; GENE FUNCTION; NONHUMAN; PHOTOSYNTHESIS; PRIORITY JOURNAL; PROTEIN PROCESSING; PROTEIN RNA BINDING; RIBOSOME SUBUNIT; SPINACH; STRUCTURE ANALYSIS;

5' UNTRANSLATED REGIONS; CHLOROPLAST PROTON-TRANSLOCATING ATPASES; CHLOROPLASTS; DNA-BINDING PROTEINS; GENE EXPRESSION REGULATION, PLANT; PLANT PROTEINS; RNA, MESSENGER; RNA, PLANT; SPINACIA OLERACEA;

EUKARYOTA; SPINACIA OLERACEA;

EID: 0036944709     PISSN: 01728083     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00294-002-0283-1     Document Type: Article

References (60)

1. Alexander C, Faber N, Klaff P (1998) Characterization of protein-binding to the spinach chloroplast psbA mRNA 5′ untranslated region. Nucleic Acids Res 26:2265-2272
2. Anthonisen IL, Salvador ML, Klein U (2001) Specific sequence elements in the 5′ untranslated regions of rbcL and atpB gene mRNAs stabilize transcripts in the chloroplast of Chlamydomonas reinhardtii. RNA 7:1024-1033
3. Barkan A, Goldschmidt-Clermont M (2000) Participation of nuclear genes in chloroplast gene expression. Biochimie 82:559-572
4. Bogorad L (1981) Chloroplasts. J Cell Biol 91:256s-270s
5. Chen X, Simpson CL, Kindle KL, Stern DB (1997) A dominant mutation in the Chlamydomonas reinhardtii nuclear gene SIM30 suppresses translational defects caused by initiation codon mutations in chloroplast genes. Genetics 145:935-943
6. Chun L, Kawakami A, Christopher DA (2001) Phytochrome A mediates blue light and UV-A-dependent chloroplast gene transcription in green leaves. Plant Physiol 125:1957-1966
7. Dubell AN, Mullet JE (1995) Differential transcription of pea chloroplast genes during light-induced leaf development: continuous far-red light activates chloroplast transcription. Plant Physiol 109:105-112
8. Edelman M, Reisfeld A (1980) Synthesis, processing and functional probing of P-32000, the major membrane protein translated within the chloroplast. In: Leaver CJ (ed) Genome organization and expression in plants. Plenum, New York, pp 353-361
9. Eibl C, Zou ZR, Beck A, Kim M, Mullet J, Koop HU (1999) In vivo analysis of plastid psbA, rbcL and rpl32 UTR elements by chloroplast transformation: tobacco plastid gene expression is controlled by modulation of transcript levels and translation efficiency. Plant J 19:333-345
10. Fargo DC, Zhang M, Gillham NW, Boynton JE (1998) Shine-Dalgarno-like sequences are not required for translation of chloroplast mRNAs in Chlamydomonas reinhardtii chloroplasts or in Escherichia coli. Mol Gen Genet 257:271-282
11. Fong CL, Lentz A, Mayfield SP (2000) Disulfide bond formation between RNA binding domains is used to regulate mRNA binding activity of the chloroplast poly(A)-binding protein. J Biol Chem 275:8275-8278
12. Green CD, Hollingsworth MJ (1992) Expression of the large ATP synthase gene cluster in spinach plastids during light-induced development. Plant Physiol 100:1164-1170
13. Gruissem W, Tonkyn JC (1993) Control mechanisms of plastid gene expression. Crit Rev Plant Sci 12:19-55
14. Hallick RB (1992) Chloroplasts. Curr Opin Genet Dev 2:926-930
15. Hallick RB, Bottomley W (1983) Proposals for the naming of chloroplast genes. Plant Mol Biol Rep 1:38-43
16. Harris EH, Boynton JE, Gillham NW (1994) Chloroplast ribosomes and protein synthesis. Microbiol Rev 58: 700-754
17. Hauser CR, Gillham NW, Boynton JE (1996) Translational regulation of chloroplast genes: proteins binding to the 5′-untranslated regions of chloroplast mRNAs in Chlamydomonas reinhardtii. J Biol Chem 271:1486-1497
18. Higgs DC, Shapiro RS, Kindle KL, Stern DB (1999) Small cis-acting sequences that specify secondary structures in a chloroplast mRNA are essential for RNA stability and translation. Mol Cell Biol 19:8479-8491
19. Hirose T, Sugiura M (1996) Cis-acting elements and trans-acting factors for accurate translation of chloroplast psbA mRNAs: development of an in vitro translation system from tobacco chloroplasts. EMBO J 15:1687-1695
20. Hirose T, Kusumegi T, Sugiura M (1998) Translation of tobacco chloroplast rpsl4 mRNA depends on a Shine-Dalgarno-like sequence in the 5′-untranslated region but not on internal RNA editing in the coding region. FEBS Lett 430:257-260
21. Hong S, Spreitzer RJ (1998) Nuclear-gene mutations suppress a defect in the expression of the chloroplast-encoded large subunit of ribulose-1,5-bisphosphate carboxylase/oxygenase. Plant Physiol 116:1387-1392
22. Hotchkiss TL, Hollingsworth MJ (1995) Factors in a chloroplast extract specifically bind to the 5′ untranslated regions of chloroplast mRNAs. Nucleic Acids Symp Ser 33:207-208
23. Hotchkiss T, Hollingsworth MJ (1997) RNA processing alters open reading frame stoichiometry from the large ATP synthase gene cluster of spinach chloroplasts. Plant Mol Biol 33:635-640
24. Hotchkiss TL, Hollingsworth MJ (1999) RNA-protein interactions at chloroplast 5′ untranslated regions. Curr Genet 35:512-520
25. Hudson GS, Mason JG (1988) The chloroplast genes encoding subunits of the H + ATP synthase. Photosynth Res 18:205-222
26. Kapoor S, Sugiura M (1998) Expression and regulation of plastid genes. In: Raghavendra AS (ed) Photosynthesis, a comprehensive treatise. Cambridge University Press, Cambridge, pp 72-86
27. Kim J, Mayfield Stephen P (1997) Protein disulfide isomerase as a regulator of chloroplast translational activation. Science 278:1954-1957
28. Kim J, Mullet JE (1994) Ribosome-binding sites on chloroplast rbcL and psbA mRNAs and light-induced initiation of D1 translation. Plant Mol Biol 25:437-448
29. Klaff P, Gruissem W (1995) A 43 kD light-regulated chloroplast RNA-binding protein interacts with the psbA 5′ non-translated leader RNA. Photosynth Res 46:235-248
30. Klaff P, Mundt SM, Steger G (1997) Complex formation of the spinach chloroplast psbA mRNA 5′ untranslated region with proteins is dependent on the RNA structure. RNA 3:1468-1479
31. Klein RR, Mullet JE (1990) Light-induced transcription of chloroplast genes. psbA transcription is differentially enhanced in illuminated barley. J Biol Chem 265:1895-1902
32. Komine Y, Kwong L, Anguera-Montserrat C, Schuster G, Stern DB (2000) Polyadenylation of three classes of chloroplast RNA in Chlamydomonas reinhardtii. RNA 6:598-607
33. Kyle DJ, Ohad I, Arntzen CJ (1984) Membrane protein damage and repair: selective loss of a quinone-protein function in chloroplast membranes. Proc Natl Acad Sci USA 81:4070-4074
34. Leon P, Arroyo A, Mackenzie S (1998) Nuclear control of plastid and mitochondrial development in higher plants. Annu Rev Plant Physiol Plant Mol Biol 49:453-480
35. Maniatis T, Fritsch EF, Sambrook J (1982) Molecular cloning, a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
36. Mathews DH, Andre TC, Kim J, Turner DH, Zuker M (1998) An updated recursive algorithm for RNA secondary structure prediction with improved free energy parameters. In: Leontis NB, Santa Lucia Jr J (eds) Molecular modeling of nucleic acids. American Chemical Society, New York, pp 246-257
37. Mayfield SP (1990) Chloroplast gene regulation: interaction of the nuclear and chloroplast genomes in the expression of photosynthetic proteins. Curr Opin Cell Biol 2:509-513
38. Mayfield SP, Yohn CB, Cohen A, Dano A (1995) Regulation of chloroplast gene expression. Annu Rev Plant Physiol Plant Mol Biol 46:147-166
39. McCormac DJ, Barkan A (1999) A nuclear gene in maize required for the translation of the chloroplast atpB/E mRNA. Plant Cell 11:1709-1716
40. Miyagi T, Kapoor S, Sugita M, Sugiura M (1998) Transcript analysis of the tobacco plastid operon rps2/atpI/H/F/A reveals the existence of a non-consensus Type II (NCII) promoter upstream of the atpI coding sequence. Mol Gen Genet 257:299-307
41. Monde R-A, Greene JC, Stern DB (2000) The sequence and secondary structure of the 3′-UTR affects 3′-end maturation, RNA accumulation, and translation in tobacco chloroplasts. Plant Mol Biol 44:529-542
42. Peltier J-B, Friso G, Kalume EE, Roepstorff P, Nilsson F, Adamska I, Wijk KJ van (2000) Proteomics of the chloroplast: systematic identification and targeting analysis of lumenal and peripheral thylakoid proteins. Plant Cell 12:319-341
43. Rochaix J-D (1996) Post-transcriptional regulation of chloroplast gene expression in Chlamydomonas reinhardtii. Plant Molec Biol 32:327-341
44. Schuster G, Lisitsky I, Klaff P (1999) Polyadenylation and degradation of mRNA in the chloroplast. Plant Physiol 120:937-944
45. Shen Y, Danon A, Christopher DA (2001) RNA binding proteins interact specifically with the Arabidopsis chloroplast psbA mRNA 5′untranslated region in a redox-dependent manner. Plant Cell Physiol 42:1071-1078
46. Smith HB (1999) Inter-organellar communication and the onus of being eukaryotic. Plant Cell 11:1605-1607
47. Somanchi A, Mayfield SP (1999) Nuclear-chloroplast signalling. Curr Opin Plant Biol 2:404-409
48. Stampacchia O, Girard Bascou J, Zanasco JL, Zerges W, Bernoun P, Rochaix JD (1997) A nuclear-encoded function essential for translation of the chloroplast psaB mRNA in Chlamydomonas. Plant Cell 9:773-782
49. Stollar NE, Hollingsworth MJ (1994) Expression of the large ATP synthase gene cluster from spinach chloroplasts. J Plant Physiol 144:141-149
50. Sugita M, Sugiura M (1996) Regulation of gene expression in chloroplasts of higher plants. Plant Mol Biol 32:312-326
51. Sugiura M (1989) The chloroplast chromosomes in land plants. Annu Rev Cell Biol 5:51-70
52. Sugiura M, Hirose T, Sugita M (1998) Evolution and mechanism of translation in chloroplasts. Annu Rev Genet 32:437-459
53. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
54. Wakasugi T, Sugita M, Tsudzuki T, Sugiura M (1998) Updated gene map of tobacco chloroplast DNA. Plant Mol Biol Rep 16:231-241
55. Wu HY, Kuchka MR (1995) A nuclear suppressor overcomes defects in the synthesis of the chloroplast psbD gene product caused by mutations in two distinct nuclear genes of Chlamydomonas. Curr Genet 27:263-269
56. Yohn CB, Cohen A, Danon A, Mayfield SP (1998a) A polyA binding protein functions in the chloroplast as a message-specific translation factor. Proc Natl Acad Sci USA 95:2238-2243
57. Yohn CB, Cohen A, Rosch C, Kuchka MR, Mayfield SP (1998b) Translation of the chloroplast psbA mRNA requires the nuclear-encoded polyA-binding protein, Rb47. J Cell Biol 142:435-442
58. Zerges W (2000) Translation in chloroplasts. Biochimie 82:583-601
59. Zerges W, Rochaix JD (1994) The 5′ leader of a chloroplast mRNA mediates the translational requirements for two nucleus-encoded functions in Chlamydomonas reinhardtii. Mol Cell Biol 14:5268-5277
60. Zerges W, Girard-Bascou J, Rochaix J-D (1997) Translation of the chloroplast psbC mRNA is controlled by interactions between its 5′ leader and the nuclear loci TBC1 and TBC3 in Chlamydomonas reinhardtii. Mol Cell Biol 17:3440-3448