The BARE-1 retrotransposon is transcribed in barley from an LTR promoter active in transient assays

Plant Molecular Biology

Volumn 31, Issue 2, 1996, Pages 295-306

  Suoniemi, Anu ^a   Narvanto, Annemari ^a   Schulman, Alan H ^a  

^a UNIVERSITY OF HELSINKI   (Finland)

Author keywords

Barley; gene expression; Hordeum vulgare; promoter; retrotransposon; transcription

Indexed keywords

HORDEUM; HORDEUM VULGARE SUBSP. VULGARE;

EID: 0030152180     PISSN: 01674412     EISSN: None     Source Type: Journal    
DOI: 10.1007/BF00021791     Document Type: Article

References (61)

1. Allan AC, Trewavas AJ: Abscisic acid and gibberellin perception: inside or out? Plant Physiol 104: 1107-1108 (1994).
2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol 215: 403-410 (1990).
3. Ausubel FM, Brent R, Kingston RE, Moore DD, Seidman JG, Smith JA, Struhl K, Albright LM, Coen DM, Varki A, Janssen K: Current Protocols in Molecular Biology, pp. 4.7.1-4.7.8. John Wiley, New York (1995).
4. Beato M: Gene regulation by steroid hormones. Cell 56: 335-344 (1989).
5. Boeke JD, Corces VG: Transcription and reverse transcription of retrotransposons. Annu Rev Microbiol 43: 403-434 (1989).
6. Casacuberta JM, Grandbastien M-A: Characterization of LTR sequences involved in the protoplast specific expression of the tobacco Tnt1 retrotransposon. Nucl Acids Res 21: 2087-2093 (1993).
7. Chen G, Müller M, Potrykus I, Hohn T, Fütterer J: Rice tungro bacilliform virus: transcription and translation in protoplasts. Virology 204: 91-100 (1994).
8. Conklin KF: Activation of an endogenous retrovirus enhancer by insertion into a heterologous context. J Virol 65: 2525-2532 (1991).
9. Cullen BR, Greene WC: Regulatory pathways governing HIV-1 replication. Cell 58: 423-426 (1989).
10. Dinesh-Kumar SP, Miller WA: Control of start codon choice on a plant viral RNA encoding overlapping genes. Plant Cell 5: 679-692 (1993).
11. Donzé O, Damay P, Spahr P-F: The first and third uORFs in RSV leader RNA are efficiently translated: Implications for translational regulation and viral RNA packaging. Nucl Acids Res 23: 861-868 (1995).
12. Flavell AJ, Smith DR, Kumar A: Extreme heterogeneity of Ty1-copia group retrotransposons in plants. Mol Gen Genet 231: 233-242(1992).
13. Hirochika H: Activation of tobacco retrotransposons during tissue culture. EMBO J 12: 2521-2528 (1993).
14. Hirochika H, Fukuchi A, Kikuchi F: Retrotransposon families in rice. Mol Gen Genet 233: 209-216 (1992).
15. Huang N, Sutliff TD, Litts JC, Rodriguez RL: Classification and characterization of the rice α-amylase mutigene family. Plant Mol Biol 14: 655-668 (1990).
16. Hurst HC, Parker MG: Rat prostatic steroid binding protein: DNA sequence and transcript maps of the two C3 genes. EMBO J 2: 769-774 (1983).
17. Huttly AK, Phillips AL, Tregear JW: Localization of cis elements in the promoter of a wheat α-Amy2 gene. Plant Mol Biol 19: 903-911 (1992).
18. Jin Y-K, Bennetzen JL: Structure and coding properties of Bs1, a maize retrovirus-like retrotransposon. Proc Natl Acad Sci USA 86: 6235-6239 (1989).
19. Joshi CP: An inspection of the domain between putative TATA box and translation start site in 79 plant genes. Nucl Acids Res 15: 6643-6653 (1987).
20. Joshi CP, Nguyen HT: 5′ untranslated leader sequences of eukaryotic mRNAs encoding heat shock induced proteins. Nucl Acids Res 23: 541-549 (1995).
21. Katz RA, Skalka AM: Generation of diversity in retroviruses. Annu Rev Genet 24: 409- 445 (1990).
22. Keller B, Sauer N, Lamb CJ: Glycine-rich cell wall proteins in bean: gene structure and association of the protein with the vascular system. EMBO J 7: 3625-3633 (1988).
23. Kim J-K, Cao J, Wu R: Regulation and Interaction of multiple protein factors with the proximal promoter regions of a rice high pI α-amylase gene. Mol Gen Genet 232: 383-393 (1992).
24. Klaver B, Berkhout B: Comparison of 5′ and 3′ long terminal repeat promoter function in human immunodeficiency virus. J Virol 68: 3830-3840 (1994).
25. Konieczny A, Voytas DF, Cummings MP, Ausubel FM: A superfamily of Arabidopsis thaliana retrotransposons. Genetics 127: 801-809 (1991).
26. Kozak M: Structural features in eukaryotic mRNAs that modulate the initiation of translation. J Biol Chem 266: 19867-19870 (1991).
27. Lanahan MB, Ho T-HD, Rogers SW, Rogers JC: A gibberellin response complex in cereal α-amylase gene promoters. Plant Cell 4: 203-211 (1992).
28. Lee D, Ellis THN, Turner L, Hellens RP, Cleary WG: A copia-like element in Pisum demonstrates the use of dispersed repeated sequences in genetic analysis. Plant Mol Biol 15: 707-722 (1990).
29. Lucas H, Feuerbach F, Kunert K, Grandbastien M-A, Caboche M: RNA-mediated transposition of the tobacco retrotransposon Tnt1 in Arabidopsis thaliana. EMBO J 14: 2364-2373 (1995).
30. Luehrsen KR, de Wet JR, Walbot V: Transient expression analysis in plants using firefly luciferase reporter gene. Meth Enzymol 216: 397-414 (1992).
31. Manninen I, Schulman AH: BARE-1, a copia-like retroelement in barley (Hordeum vulgare L.). Plant Mol Biol 22: 829-846 (1993).
32. Melton DA, Krieg PA, Rebagliati MR, Maniatis T, Zinn K, Green MR: Efficient in vitro synthesis of biologically active RNA and RNA hybridization probes from plasmids containing a bacteriophage SP6 promoter. Nucl Acids Res 12: 7035-7056 (1984).
33. Moore G, Lucas H, Batty N, Flavell R: A family of retrotransposons and associated genomic variation in wheat. Genomics 10: 461-468 (1991).
34. Mundy J, Yamaguchi-Shinozaki K, Chua N-H: Nuclear proteins bind conserved elements in the abscisic acid-responsive promoter of a rice rab gene. Proc Natl Acad Sci USA 87: 1406-1410 (1990).
35. Oeda K, Salinas J, Chua N-H: A tobacco bZip transcription activator (TAF-1) binds to a G-box-like motif in plant genes. EMBO J 10: 1793-1802 (1991).
36. O'Neal JK, Pokalsky AR, Kiehne KL, Shewmaker CK: Isolation of tobacco SSU genes: Characterization of a transcriptionally active pseudogene. Nucl Acids Res 15: 8661-8677 (1987).
37. Pauls PK, Kunert K, Huttner E, Grandbastien M-A: Expression of the tobacco Tnt1 retrotransposon in heterologous species. Plant Mol Biol 26: 393-402 (1994).
38. Pouteau S, Huttner E, Grandbastien M-A, Caboche M: Specific expression of the tobacco Tnt1 retrotransposon in protoplasts. EMBO J 10: 1911-1918 (1991).
39. Renne R, Mergia A, Renshaw-Gegg LW, Neumann-Haefelin D, Luciw PA: Regulatory elements in the long terminal repeat (LTR) of Simian Foamy Virus Type 3 (SFV-3). Virology 192: 365-369 (1993).
40. Ritala A, Mannonen L, Aspegren K, Salmenkallio-Marttila M, Kurtén U, Hannus R, Mendez Lozano J, Teeri TH, Kauppinen V: Stable transformation of barley tissue culture by particle bombardment. Plant Cell Rep 12: 435-440 (1993).
41. Rogers JC, Lanahan MB, Rogers SW: The cis-acting gibberellin response complex in high-pI α-amylase gene promoters. Plant Physiol 105: 151-158 (1994).
42. Runeberg-Roos P, Kervinen J, Kovaleva V, Raikhel N, Gal S: The aspartic proteinase of barley is a vacuolar enzyme that processes probarley lectin in vitro. Plant Physiol 105: 321-329 (1994).
43. Rushton PJ, Hooley R, Lazarus CM: Aleurone nuclear proteins bind to similar elements in the promoter regions of two gibberellin-regulated α-amylase genes. Plant Mol Biol 19: 891-901 (1992).
44. Salmenkallio-Marttila M, Kauppinen V: Efficient regeneration of fertile plants from protoplasts isolated from microspore cultures of barley (Hordeum vulgare L.). Plant Cell Rep 14: 253-256 (1995).
45. Sambrook J, Fritsch EF, Maniatis T: Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY (1989).
46. Sandal NN, Bojsen K, Marcker K: A small family of nodule specific genes from soybean. Nucl Acids Res 15: 1507-1519 (1987).
47. Schmidt D, Graner A: Genomic organization and sequence diversity of the long terminal repeat (LTR) of the BARE-1 retrotransposon family in barley. Barley Genet Newsl 24: 24-27 (1994).
48. Shen Q, Ho T-HD: Functional dissection of an abscisic acid (ABA)-inducible gene reveals two independent ABA-responsive complexes each containing a G-box and a novel cis-acting element. Plant Cell 7: 295-307 (1995).
49. Skriver K, Olsen FL, Rogers JC, Mundy J: Cis-acting DNA elements responsive to gibberellin and its antagonist abscisic acid. Proc Natl Acad Sci USA 88: 7266-7270 (1991).
50. Smyth DR, Kalitsis P, Joseph JL, Sentry JW: Plant retrotansposon from Lilium henryi is related to Ty3 of yeast and the gypsy group of Drosophila. Proc Natl Acad Sci USA 86: 5015-5019 (1989).
51. Sparger EE, Shacklett BL, Renshaw-Gegg L, Barry PA, Pedersen NC, Elder JH, Luciw PA: Regulation of gene expression directed by the long terminal repeat of the feline immunodeficiency virus. Virology 187: 165-177 (1992).
52. Suoniemi A, Anamthawat-Jonsson K, Arna T, Schulman AH: Retrotransposon BARE-1 Is a major, dispersed component of the barley (Hordeum vulgare L.) genome. Plant Mol Biol (in press).
53. Sutliff TD, Lanahan MB, Ho T-HD: Gibberellin treatment stimulates nuclear factor binding to the gibberellin response complex in a barley α-amylase promoter. Plant Cell 5: 1681-1692 (1993).
54. Tada Y, Sakamoto M, Fujimura T: Efficient gene introduction into rice by electroporation and analysis of transgenic plants: use of electroporation buffer lacking chloride ions. Theor Appl Genet 80: 475-480 (1990).
55. VanderWiel PL, Voytas DF, Wendel JF: Copia-like retrotransposable element evolution in diploid and polyploid cotton (Gossypium L.). J Mol Evol 36: 429-447 (1993).
56. Varmus HE: Retroviruses. In: Shapiro JA (ed) Mobile Genetic Elements, pp. 411-503. Academic Press, New York, (1983).
57. Voytas DF, Cummings MP, Konieczny AK, Ausubel FM, Rodermel SR: Copia-like retrotransposons are ubiquitous among plants. Proc Natl Acad Sci USA 89: 7124-7128 (1992).
58. Watanabe-Nagasu N, Itoh Y, Tani T, Okano K, Koga N, Okada N, Ohshima Y: Structural analysis of gene loci for Rat U1 small nuclear RNA. Nucl Acids Res 11: 1791-1801 (1983).
59. White SE, Habera LF, Wessler SR: Retrotransposons in the flanking regions of normal plant genes: A role for copia-like elements in the evolution of gene structure and expression. Proc Natl Acad Sci USA 91: 11792-11796 (1994).
60. Whittier RF, Dean DA, Rogers JC: Nucleotide sequence of alpha-amylase and thiole protease genes that are hormonally regulated in barley aleurone cells. Nucl Acids Res 15: 2515-2535 (1987).
61. Yamaguchi-Shinozaki K, Mundy J, Chua N-H: Four tightly linked rab genes are differentially expressed in rice. Plant Mol Biol 14: 29-39 (1989).