The silence of genes in transgenic plants

Annals of Botany

Volumn 79, Issue 1, 1997, Pages 3-12

  Stam, Maike ^a   Mol, Joseph N M ^a   Kooter, Jan M ^a  

^a VU UNIVERSITY AMSTERDAM   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

RNA VIRUSES;

EID: 0030967197     PISSN: 03057364     EISSN: None     Source Type: Journal    
DOI: 10.1006/anbo.1996.0295     Document Type: Review

References (90)

1. Angenent GC, Franken J, Busscher M, Van Dijken A, Van Went JL, Dons HJM, Van Tunen AJ. 1995. A novel class of MADS box genes is involved in ovule development in petunia. Plant Cell 7: 1569-1582.
2. Assaad FF, Tucker KL, Signer ER. 1993. Epigenetic Repeat-Induced Gene Silencing (RIGS) in Arabidopsis. Plant Molecular Biology 22: 1067-1085.
3. Barry C, Faugeron G, Rossignol JL. 1993. Methylation induced premeiotically in Ascobolus-Coextension with DNA repeat lengths and effect on transcript elongation. Proceedings of The National Academy of Sciences of the United States of America 90: 4557-4561.
4. Baulcombe D. 1994. Novel strategies for engineering virus resistance in plants. Current Opinion in Biotechnology 5: 117-124.
5. Baulcombe DC, English JJ. 1996. Ectopic pairing of homologous DNA and post-transcriptional silencing in transgenic plants. Current Opinion in Biotechnology 7: 173-180.
6. Bird A. 1992. The essentials of DNA methylation. Cell 70: 5-8.
7. Brandle JE, McHugh SG, James L, Labbé H, Miki BL. 1995. Instability of transgene expression in field grown tobacco carrying the csr1-1 gene for sulfonylurea herbicide resistance. Bio/ Technology 13: 994-998.
8. Brink RA. 1973. Paramutation. Annual Review of Genetics 7: 129-152.
9. Brusslan JA, Tobin EM. 1995. Isolation of new promoter-mediated co-suppressed lines in Arabidopsis thaliana. Plant Molecular Biology 27: 809-813.
10. Brusslan JA, Karlinneumann GA, Huang L, Tobin EM. 1993. An Arabidopsis mutant with a reduced level of cab140 RNA is a result of cosuppression. Plant Cell 5: 667-677.
11. Das OP, Messing J. 1994. Variegated phenotype and developmental methylation changes of a maize allele originating from epimutation. Genetics 136: 1121-1141.
12. De Carvalho F, Gheysen G, Kushnir S, Van montagu M, Inzé D, Castresana C. 1992. Suppression of β-1,3-glucanase transgene expression in homozygous plants. EMBO Journal 11: 2595-2602.
13. De Carvalho Niebel F, Frendo P, Van Montagu M, Cornelissen M. 1995. Post-transcriptional cosuppression of β-1,3-glucanase genes does not affect accumulation of transgenes nuclear mRNA. Plant Cell 7: 347-358.
14. De Haan P, Gielen JJL, Prins M, Wijkamp IG, Van Schepen A, Peters D, Van Grinsven MQJM, Goldbach R. 1992. Characterization of RNA-mediated resistance to Tomato Spotted Wilt Virus in transgenic tobacco plants. Bio/Technology 10: 1133-1137.
15. Dehio C, Schell J. 1994. Identification of plant genetic loci involved in a posttranscriptional mechanism for meiotically reversible transgene silencing. Proceedings of the National Academy of Sciences of the United States of America 91: 5538-5542.
16. Doerfler W. 1995. Uptake of foreign DNA by mammalian cells via the gastrointestinal tract in mice: methylation of foreign DNA-A cellular defense mechanism. In: Meyer P, ed. Gene silencing in higher plants and related phenomena in other eukaryotes. Berlin: Springer-Verlag, 209-224.
17. Dorer DR, Henikoff S. 1994. Expansions of transgene repeats cause heterochromatin formation and gene silencing in Drosophila. Cell 77: 993-1002.
18. Dorlhac de Borne FD, Vincentz M, Chupeau Y, Vaucheret H. 1994. Cosuppression of nitrate reductase host genes and transgenes in transgenic tobacco plants. Molecular & General Genetics 243: 613-621.
19. Dougherty WG, Parks TD. 1995. Transgenes and gene suppression: Telling us something new? Current Opinion in Cell Biology 7: 399-405.
20. Elmayan T, Vaucheret H. 1996. A strongly-expressed 35S-driven transgene undergoes post-transcriptional silencing in all tobacco transformants irrespective of the copy number. Plant Journal 9: 787-797.
21. Elomaa P, Helariutta Y, Griesbach RJ, Kotilainen M, Seppanen P, Teeri TH. 1995. Transgene inactivation in Petunia hybrida is influenced by the properties of the foreign gene. Molecular & General Genetics 248: 649-656.
22. English JJ, Mueller E, Baulcombe DC. 1996. Suppression of virus accumulation in transgenic plants exhibiting silencing of nuclear genes. Plant Cell 8: 179-188.
23. Finnegan J, McElroy D. 1994. Transgene inactivation: plants fight back! Bio/Technology 12: 883-888.
24. Flavell RB. 1994. Inactivation of gene expression in plants as a consequence of novel sequence duplications. Proceedings of the National Academy of Sciences of the United States of America 91: 3490-3496.
25. Goodwin J, Chapman K, Swaney S, Parks TD, Wernsman EA, Dougherty WG. 1996. Genetic and biochemical dissection of transgenic RNA-mediated virus resistance. Plant Cell 8: 95-105.
26. Grierson D, Lycett GW, Tucker GA, 1996. Mechanisms and applications of gene silencing. Nottingham: Nottingham University Press.
27. Hageman R. 1993. Studies towards a genetic and molecular analysis of paramutation at the sulfurea locus of Lycopersicon esculentum Mill. In: Yoder JI, ed. Molecular biology of tomato. Lancaster-Basel: Technomic Publishers Co, Inc., 75-82.
28. Harders J, Lukaca N, Robert-Nicoud M, Jovin TM, Riesner D. 1989. Imaging of viroids in nuclei from tomato leaf tissue by in situ hybridization and confocal laser scanning microscopy. EMBO Journal 8: 3941-3949.
29. Hart CM, Fischer B, Neuhaus JM, Meins F. 1992. Regulated inactivation of homologous gene expression in transgenic Nicotiana sylvestris plants containing a defense-related tobacco chitinase gene. Molecular & General Genetics 235: 179-188.
30. Herman L, Jacobs A, Van Montagu M, Depicker A. 1990. Plant chromosome/marker gene fusion assay for study of normal and truncated T-DNA integration events. Molecular & General Genetics 224: 248-256.
31. Hobbs SLA, Kpodar P, Delong CMO. 1990. The effect of T-DNA copy number, position and methylation on reporter gene expression in tobacco transformants. Plant Molecular Biology 15: 851-864.
32. Hobbs SLA, Warkentin TD, Delong CMO. 1993. Transgene copy number can be positively or negatively associated with transgene expression. Plant Molecular Biology 21: 17-26.
33. Hollick JB, Patterson GI, Coe J, E.H., Cone KC, Chandler VL. 1995. Allelic interactions heritably alter the activity of a metastable maize pl allele. Genetics 141: 709-719.
34. Howie W, Lee K, Joe L, Baden C, McGugin C, Bedbrook J, Dunsmuir P. 1996. Suppression of ACC synthase. Commercialization of ripening-impaired fresh market tomatoes. In: Grierson D, Lycett GW, Tucker GA, eds. Mechanisms and applications of gene silencing. Nottingham: Nottingham University Press, 119-126.
35. Ingelbrecht I, Van Houdt H, Van Montagu M, Depicker A. 1994. Posttranscriptional silencing of reporter transgenes in tobacco correlates with DNA methylation. Proceedings of the National Academy of Sciences of the United States of America 91: 10502-10506.
36. Jones JDG, Gilbert DE, Grady KL, Jorgensen RA. 1987. T-DNA structure and gene expression in petunia plants transformed by Agrobacterium C58 derivatives. Molecular & General Genetics 207: 478-485.
37. Jorgensen R. 1992. Silencing of plant genes by homologous transgenes. Agbiotech News and Info 4: 265-273.
38. Jorgensen RA. 1995. Cosuppression, flower color patterns, and metastable gene expression states. Science 268: 686-691.
39. Jorgensen R, Snyder C, Jones JDG. 1987. T-DNA is organized predominantly in inverted repeat structures in plants transformed with Agrobacterium tumefaciens C58 derivates. Molecular and General Genetics 207: 471-477.
40. Jorgensen R, Cluster P, Que Q, English J, Napoli C. 1996. Chalcone synthase cosuppression phenotypes in petunia flowers: comparison of sense vs. antisense constructs and single copy vs. complex T-DNA sequences. Plant Molecular Biology 31: 957-973.
41. Kertbundit S, Degreve H, Deboeck F, Van Montagu M, Hernalsteens JP. 1991. In vivo random beta-glucuronidase gene fusions in Arabidopsis thaliana. Proceedings of the National Academy of Sciences of the United States of America 88: 5212-5216.
42. Kilby NJ, Leyser HMO, Furner IJ. 1992. Promoter methylation and progressive transgene inactivation in Arabidopsis. Plant Molecular Biology 20: 103-112.
43. Koncz C, Martini N, Mayerhofer R, Koncz KZ, Körber H, Redei GP, Schell J. 1989. High-frequency T-DNA-mediated gene tagging in plants. Proceedings of the National Academy of Sciences of the United States of America 86: 8467-8471.
44. Kunz C, Schöb H, Stam M, Kooter JM, Meins F. 1996. Developmentally regulated silencing and reactivation of tobacco chitinase transgene expression. Plant Journal 10: 437-450.
45. Laayoun A, Smith SS. 1995. Methylation of slipped duplexes, snapbacks and cruciforms by human DNA(cytosine-5)methyltransferase. Nucleic Acids Research 23: 1584-1589.
46. Lindbo JA, Silva-Rosales L, Proebsting WM, Dougherty WG. 1993. Induction of a highly specific antiviral state in transgenic plants: implications for regulation of gene expression and virus resistance. Plant Cell 5: 1749-1759.
47. Linn F, Heidmann I, Saedler H, Meyer P. 1990. Epigenetic changes in the expression of the maize A1 gene in Petunia hybrida: role of numbers of integrated gene copies and state of methylation. Molecular & General Genetics 222: 329-336.
48. Martienssen RA, Richards EJ. 1995. DNA methylation in eukaryotes. Current Opinion in Genetics and Development 5: 234-242.
49. Matassi G, Montero LM, Salinas J, Bernardi G. 1989. The isochore organization and the compositional distribution of homologous coding sequences in the nuclear genome of plants. Nucleic Acids Research 17: 5273-5290.
50. Matzke MA, Matzke AJM. 1991. Differential inactivation and methylation of a transgene in plants by 2 suppressor loci containing homologous sequences. Plant Molecular Biology 16: 821-830.
51. Matzke MA, Matzke AJM. 1993. Genomic imprinting in plants: Parental effects and trans-inactivation phenomena. Annual Review of Plant Physiology 44: 53-76.
52. Matzke MA, Matzke AJM. 1995. How and why do plants inactivate homologous (trans)genes? Plant Physiology 107: 679-685.
53. Matzke MA, Primig M, Trnovsky J, Matzke AJM. 1989. Reversible methylation and inactivation of marker genes in sequentially transformed tobacco plants. EMBO Journal 8: 643-649.
54. Matzke AJM, Neuhuber F, Park YD, Ambros PF, Matzke MA. 1994. Homology-dependent gene silencing in transgenic plants: epistatic silencing loci contain multiple copies of methylated transgenes. Molecular & General Genetics 244: 219-229.
55. Metzlaff M, O'Dell M, Flavell RB. 1996. Suppression of chalcone synthase A activities in Petunia by the addition of a transgene encoding chalcone synthase A. In: Grierson D, Lycett GW, Tucker GA, eds. Mechanisms and applications of gene silencing. Nottingham: Nottingham University Press, 21-32.
56. Meyer P, 1995. Gene silencing in higher plants and related phenomena in other eukaryotes. Berlin: Springer-Verlag.
57. Meyer P. 1996. Repeat-induced gene silencing: Common mechanisms in plants and fungi. Biological Chemistry Hoppe-Seyler 377: 87-95.
58. Meyer P, Heidmann I. 1994. Epigenetic variants of a transgenic petunia line show hypermethylation in transgene DNA: an indication for specific recognition of foreign DNA in transgenic plants. Molecular & General Genetics 243: 390-399.
59. Meyer P, Heidmann I, Niedenhof I. 1993. Differences in DNA-methylation are associated with a paramutation phenomenon in transgenic petunia. Plant Journal 4: 89-100.
60. Meyer P, Niedenhof I, Ten Lohuis M. 1994. Evidence for cytosine methylation of non-symmetrical sequences in transgenic Petunia hybrida. EMBO Journal 13: 2084-2088.
61. Mlynarova L, Jansen RC, Conner AJ, Stiekema WJ, Nap JP. 1995. The MAR-mediated reduction in position effect can be uncoupled from copy number-dependent expression in transgenic plants. Plant Cell 7: 599-609.
62. Mlynarova L, Loonen A, Heldens J, Jansen RC, Keizer P, Stiekema WJ, Nap JP. 1994. Reduced position effect in mature transgenic plants conferred by the chicken lysozyme matrix-associated region. Plant Cell 6: 417-426.
63. Mueller E, Gilbert J, Davenport G, Brigneti G, Baulcombe DC. 1995. Homology-dependent resistance: transgenic virus resistance in plants related to homology-dependent gene silencing. Plant Journal 7: 1001-1013.
64. Napoli C, Lemieux C, Jorgensen R. 1990. Introduction of a chimeric chalcone synthase gene into petunia results in reversible cosuppression of homologous genes in trans. Plant Cell 2: 279-289.
65. Neuhuber F, Park YD, Matzke AJM, Matzke MA. 1994. Susceptibility of transgene loci to homology-dependent gene silencing. Molecular & General Genetics 244: 230-241.
66. Pang SZ, Slightom JL, Gonsalves D. 1993. Different mechanisms protect transgenic tobacco against tomato spotted wilt and impatiens necrotic spot tospoviruses. Bio/Technology 11: 819-824.
67. Park Y-D, Papp I, Moscone EA, Iglesias VA, Vaucheret H, Matzke AJM, Matzke MA. 1996. Gene silencing mediated by promoter homology occurs at the level of transcription and results in meiotically heritable alterations in methylation and gene activity. Plant Journal 9: 183-194.
68. Paszkowski J, 1994. Homologous recombination and gene silencing in plants. Dordrecht, The Netherlands: Kluwer Academic Publishers.
69. Patterson GI, Chandler VL. 1995. Paramutation in maize and related allelic interactions. In: Meyer P, ed. Gene silencing in higher plants and related phenomena in other eukarvotes. Berlin: Springer-Verlag, 121-142.
70. Patterson GI, Kubo KM, Shroyer T, Chandler VL. 1995. Sequences required for paramutation of the maize b gene map to a region containing the promoter and upstream sequences. Genetics 140: 1389-1406.
71. Pröls F, Meyer P. 1992. The methylation patterns of chromosomal integration regions influence gene activity of transferred DNA in Petunia hybrida. Plant Journal 2: 465-475.
72. Rhounim L, Rossignol J-L, Faugeron G. 1992. Epimutation of repeated genes in Ascobolus immer sus. EMBO Journal 11: 4451-4457.
73. Ronchi A, Petroni K, Tonelli C. 1995. The reduced expression of endogenous duplications (REED) in the maize R gene family is mediated by DNA methylation. EMBO Journal 14: 5318-5328.
74. Rossignol JL, Faugeron G. 1995. MIP: An epigenetic gene silencing process in Ascobolus immersus. In: Meyer P, ed. Gene silencing in higher plants and related phenomena in other eukaryotes. Berlin: Springer-Verlag, 179-191.
75. Salinas J, Matassi G, Montero LM, Bernardi G. 1988. Compositional compartmentalization and compositional patterns in the nuclear genomes of plants. Nucleic Acids Research 16: 4269-4285.
76. Schiebel W, Haas B, Marinkovíc S, Klanner A, Sänger HL. 1993a. RNA-directed RNA polymerase from tomato leaves. I Purification and physical properties. Journal of Biological Chemistry 268: 11851-11857.
77. Schiebel W, Haas B, Marinkovíc S, Klanner A, Sänger HL. 1993b. RNA-directed RNA polymerase from tomato leaves. II Catalytic in vitro properties. Journal of Biological Chemistry 268: 11858-11867.
78. Selker EU, Garrett PW. 1988. DNA sequence duplications trigger gene inactivation in Neurospora crassa. Proceedings of the National Academy of Sciences of the United States of America 85: 6870-6774.
79. Singer MJ, Selker EU. 1995. Genetic and epigenetic inactivation of repetitive sequences in Neurospora crassa: RIP, DNA methylation, and quelling. In: Meyer P, ed. Gene silencing in higher plants and related phenomena in other eukarvotes. Berlin: Springer-Verlag, 165-178.
80. Singer MJ, Marcotte BA, Selker EU. 1995. DNA methylation associated with repeat-induced point mutation in Neurospora crassa. Molecular and Cellular Biology 15: 5586-5597.
81. Smith CJS, Watson CF, Bird CR, Ray J, Schuch W, Grierson D. 1990. Expression of a truncated tomato polygalacturonase gene inhibits expression of the endogenous gene in plants. Molecular & General Genetics 224: 477-481.
82. Smith HA, Swaney SL, Parks TD, Wernsman EA, Dougherty WG. 1994. Transgenic plant virus resistance mediated by untranslatable sense RNAs: expression, regulation, and fate of nonessential RNAs. Plant Cell 6: 1441-1453.
83. Spiker S, Thompson WF. 1996. Nuclear matrix attachment regions and transgene expression in plants. Plant Physiology 110: 15-21.
84. Van Blokland R, Van der Geest N, Mol JNM, Kooter JM. 1994. Transgene-mediated suppression of chalcone synthase expression in Petunia hybrida results from an increase in RNA turnover. Plant Journal 6: 861-877.
85. Van Blokland R, Van der Geest N, De Lange P, Stam M, Mol JNM, Kooter JM. 1996. Post-transcriptional suppression of chalcone synthase genes in Petunia hybrida and the accumulation of unspliced pre-mRNAs. In: Grierson D, Lycett GW, Tucker GA, eds. Mechanisms and applications of gene silencing. Nottingham: Nottingham University Press, 57-69.
86. Van der Krol AR, Mur LA, Beld M, Mol JNM, Stuitje AR. 1990. Flavonoid genes in petunia: Addition of a limited number of gene copies may lead to a suppression of gene expression. Plant Cell 2: 291-299.
87. Vaucheret H. 1993. Identification of a general silencer for 19S and 35S promoters in a transgenic tobacco plant: 90 bp of homology in the promoter sequence are sufficient for trans-inactivation. Comptes Rendus de L'Academie Des Sciences Serie III-Sciences de La Vie-Life Sciences 316: 1471-1483.
88. Vaucheret H. 1994. Promoter-dependent trans-inactivation in transgenic tobacco plants - kinetic aspects of gene silencing and gene reactivation. Comptes Rendus de L'Academie Des Sciences Serie III-Sciences de La Vie-Life Sciences 317: 310-323.
89. Vaucheret H, Palauqui J-C, Elmayan T, Moffatt B. 1995. Molecular and genetic analysis of nitrite reductase co-suppression in transgenic tobacco plants. Molecular & General Genetics 248: 311-317.
90. Wassenegger M, Heimes S, Riedel L, Sanger HL. 1994. RNA-directed de novo methylation of genomic sequences in plants. Cell 76: 567-576.