Crop improvement using small RNAs: applications and predictive ecological risk assessments

Trends in Biotechnology

Volumn 27, Issue 11, 2009, Pages 644-651

  Auer, Carol ^a   Frederick, Robert ^b  

^a UNIVERSITY OF CONNECTICUT   (United States)

^b U S ENVIRONMENTAL PROTECTION AGENCY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CROP IMPROVEMENT; CROP QUALITY; ECOLOGICAL RISK ASSESSMENT; GENETIC MUTATIONS; NON-TARGET EFFECTS; POTENTIAL EXPOSURE; RNA INTERFERENCE; SMALL RNA;

GENE EXPRESSION; NUCLEIC ACIDS; RISK ASSESSMENT; RISK MANAGEMENT; RNA;

CROPS;

SMALL INTERFERING RNA;

ARABIDOPSIS; CROP IMPROVEMENT; ECOLOGY; ENZYME LINKED IMMUNOSORBENT ASSAY; EXPOSURE; FOOD QUALITY; GENE EXPRESSION; GENE MUTATION; GENETIC ENGINEERING; GENETIC POLYMORPHISM; HEALTH HAZARD; NONHUMAN; PEST RESISTANCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REVIEW; RISK ASSESSMENT; RNA INTERFERENCE; TOXICITY TESTING; TRANSGENIC CROP;

ANIMALS; CROPS, AGRICULTURAL; ECOSYSTEM; HUMANS; PLANTS, GENETICALLY MODIFIED; RISK ASSESSMENT; RNA, SMALL INTERFERING;

HEXAPODA; NEMATODA;

EID: 70349798565     PISSN: 01677799     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tibtech.2009.08.005     Document Type: Review

References (71)

1. Fire A., et al. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 39 (1998) 806-811
2. Waterhouse P.M., et al. Virus resistance and gene silencing in plants can be induced by simultaneous expression of sense and antisense RNA. Proc. Natl. Acad. Sci. U. S. A. 95 (1998) 13959-13964
3. Dunoyer P., and Voinnet O. Mixing and matching: the essence of plant systemic silencing?. Trends Genet. 24 (2008) 151-154
4. Eamens A., et al. RNA silencing in plants: yesterday, today, and tomorrow. Plant Physiol. 147 (2008) 456-468
5. Small I. RNAi for revealing and engineering plant gene functions. Curr. Opin. Biotechnol. 18 (2007) 148-153
6. Vaucheret H. Post-transcriptional small RNA pathways in plants: mechanisms and regulations. Genes Dev. 20 (2006) 759-771
7. Baulcombe D. RNA silencing in plants. Nature 431 (2004) 356-363
8. Kusaba M. RNA interference in plants. Curr. Opin. Biotechnol. 15 (2004) 139-143
9. Ghildiyal M., and Zamore P.D. Small silencing RNAs: an expanding universe. Nat. Rev. Genet. 10 (2009) 94-108
10. Hebert C.G., et al. Beyond silencing - engineering applications of RNA interference and antisense technology for altering cellular phenotypes. Curr. Opin. Biotechnol. 19 (2008) 500-505
11. Lindbo J.A., and Dougherty W.D. Plant pathology and RNAi: A brief history. Annu. Rev. Phytopathol. 43 (2005) 191-204
12. Sanders R., and Hiatt W. Tomato transgene structure and silencing. Nat. Biotechnol. 23 (2005) 287-289
13. Chiang C., et al. Comparative reactions of recombinant papaya ringspot viruses with chimeric coat protein (CP) genes and wild-type viruses on CP-transgenic papaya. J. Genet. Virol. 82 (2001) 2827-2836
14. Martino-Catt S., and Sachs E.S. Editors Choice Series: The next generation of biotech crops. Plant Physiol. 147 (2008) 3-5
15. Newell-McGloughlin M. Nutritionally improved agricultural crops. Plant Physiol. 147 (2008) 939-953
16. Sunilkumar G., et al. Engineering cottonseed for use in human nutrition by tissue-specific reduction of toxic gossypol. Proc. Natl. Acad. Sci. U. S. A. 103 (2006) 18054-18059
17. Kang B.-C., et al. Genetics of plant virus resistance. Annu. Rev. Phytopathol. 43 (2005) 581-591
18. Soosaar J.L.M., et al. Mechanisms of resistance to viruses. Nat. Rev. Microbiol. 3 (2005) 789-798
19. Tepfer M. Risk assessment of virus-resistant transgenic plants. Annu. Rev. Phytopathol. 40 (2002) 467-491
20. Shepherd D.N., et al. Transgenic strategies for developing crops resistant to geminiviruses. Plant Sci. 176 (2009) 1-11
21. Lucioli A., et al. A cautionary note on pathogen-derived sequences. Nat. Biotechnol. 26 (2008) 617-619
22. Gatehouse J.A. Biotechnological prospects for engineering insect-resistant plants. Plant Physiol. 146 (2008) 881-887
23. Price D.R., and Gatehouse J.A. RNAi-mediated crop protection against insects. Trends Biotechnol. 26 (2008) 393-400
24. Gordon K.H.J., and Waterhouse P.M. RNAi for insect-proof plants. Nat. Biotechnol. 25 (2007) 1231-1232
25. Baum J.A., et al. Control of coleopteran insect pests through RNA interference. Nat. Biotechnol. 25 (2007) 1322-1326
26. Mao Y.-B., et al. Silencing a cotton bollworm P450 monoxygenase gene by plant-mediated RNAi impairs larval tolerance of gossypol. Nat. Biotechnol. 25 (2007) 1307-1313
27. Fuller V.L., et al. Nematode resistance. New Phytol. 180 (2008) 27-44
28. Gheysen G., and Vanholme G. RNAi from plants to nematodes. Trends Biotechnol. 25 (2007) 89-92
29. Fairbairn D.J., et al. Host-delivered RNAi: an effective strategy to silence genes in plant parasitic nematodes. Planta 226 (2007) 1525-1533
30. Yadav B.C., et al. Host-generated double-stranded RNA induces RNAi in plant-parasitic nematodes and protects the host from infection. Mol. Biochem. Parasitol. 148 (2006) 219-222
31. Huang G., et al. Engineering broad root-knot resistance in transgenic plants by RNAi silencing of a conserved and essential root-knot nematode parasitism gene. Proc. Natl. Acad. Sci. U. S. A. 103 (2006) 14302-14306
32. Oppermana C.H., et al. Sequence and genetic map of Meloidogyne hapla: a compact nematode genome for plant parasitism. Proc. Natl. Acad. Sci. U. S. A. 105 (2008) 14802-21480
33. Jin H. Endogenous small RNAs and antibacterial immunity in plants. FEBS Lett. 582 (2008) 2679-2684
34. Navarro L., et al. Suppression of the microRNA pathway by bacterial effector proteins. Science 321 (2008) 964-967
35. Escobar M.A., et al. RNAi-mediated oncogene silencing confers resistance to crown gall tumorigenesis. Proc. Natl. Acad. Sci. U. S. A. 98 (2001) 13437-13442
36. Craig W., et al. An overview of general features of risk assessments of genetically modified crops. Euphytica 164 (2008) 853-880
37. Auer C. Ecological risk assessment and regulation for genetically-modified ornamental plants. Crit. Rev. Plant Sci. 27 (2008) 255-271
38. Nickson T. Planning environmental risk assessment for genetically modified crops: problem formulation for stress-tolerant crops. Plant Physiol. 147 (2008) 494-502
39. Romeis J., et al. Assessment of risk of insect-resistant transgenic crops to nontarget arthropods. Nat. Biotechnol. 26 (2008) 203-208
40. Raybould A. Ecological versus ecotoxicological methods for assessing the environmental risks of transgenic crops. Plant Sci. 173 (2007) 589-602
41. Andow D.A., and Zwalen C. Assessing environmental risks of transgenic plants. Ecol. Lett. 9 (2006) 196-214
42. Hayes, K.R. (2004) Best practice and current practice in ecological risk assessment for genetically modified organisms, CSIRO Division of Marine Research.(available at http://www.environment.gov.au/settlements/biotechnology/publications/bestpractice.html)
43. Conner A.J., et al. The release of genetically modified crops into the environment. Part II. Overview of ecological risk assessment. Plant J. 33 (2003) 19-46
44. Pollard S.J.T., et al. Characterizing environmental harm: developments in an approach to strategic risk assessment and risk management. Risk Anal. 24 (2004) 1551-1560
45. United States Environmental Protection Agency (1998) Guidelines for ecological risk assessment (Report EPA/630/R-95/002), US EPA Risk Assessment Forum
46. Whangbo J.S., and Hunter C.P. Environmental RNA interference. Trends Genet. 24 (2008) 297-305
47. Leonard E., et al. Engineering microbes with synthetic biology frameworks. Trends Biotechnol. 26 (2008) 674-681
48. Xing S., and Zachgo S. Pollen lethality: a phenomenon in Arabidopsis RNA interference plants. Plant Physiol. 145 (2007) 330-333
49. Vlassov V.V., et al. Extracellular nucleic acids. BioEssays 29 (2007) 654-667
50. Stotzky G. Persistence and biological activity in soil of insecticidal proteins from Baccillus thuringiensis and of bacterial DNA bound on clays and humic soils. J. Environ. Qual. 26 (2000) 691-705
51. Michaud V., et al. Long-term storage at tropical temperature of dried-blood filter papers for detection and genotyping of RNA and DNA viruses by direct PCR. J. Virol. Methods 146 (2007) 257-265
52. Obbard D.J., et al. The evolution of RNAi as a defence against virus and transposable elements. Philos. Trans. R. Soc. Lond. B Biol. Sci. 364 (2009) 99-115
53. Auer C. Tracking genes from seed to supermarket: techniques and trends. Trends Plant Sci. 8 (2003) 591-597
54. Ma B.L., et al. Evaluation of detection methods for genetically modified traits in genotypes resistant to European corn borer and herbicides. J. Environ. Sci. Health B 40 (2005) 633-644
55. Suter G.W. Ecological Risk Assessment. 2nd edn (2007), CRC Press
56. Sanvido O., et al. Ecological impacts of genetically modified crops: ten years of field research and commercial cultivation. Adv. Biochem. Eng. Biotechnol. 107 (2007) 235-278
57. von Krauss M.P.K., et al. Diagnosing and prioritizing uncertainties according to their relevance for policy: the case of transgene silencing. Sci. Total Environ. 390 (2008) 23-34
58. Mahmood-ur-Rahman I.A., et al. RNA interference: the story of gene silencing in plants and humans. Biotechnol. Adv. 26 (2008) 202-209
59. Zhou Y., et al. Transgenic plant-derived siRNAs can suppress propagation of influenza virus in mammalian cells. FEBS Lett. 577 (2004) 345-350
60. Zhang X. The epigenetic landscape of plants. Science 320 (2008) 489-492
61. Lister R., et al. Highly integrated single-base resolution maps of the epigenome in Arabidopsis. Cell 133 (2008) 523-536
62. Aufsatz W., et al. RNA-directed DNA methylation in Arabidopsis. Proc. Natl. Acad. Sci. U. S. A. 99 (2002) 16499-16506
63. Lu C., et al. Elucidation of the small RNA component of the transcriptome. Science 309 (2005) 1567-1569
64. Brodersen P., et al. Widespread translational inhibition by plant miRNAs and siRNAs. Science 320 (2008) 1185-1190
65. Frederick R.J. International biosafety regulations: benefits and costs. In: Ives C.L., and Bedford B.M. (Eds). Agricultural Biotechnology in International Development (1998), CABI 213-228
66. McHughen A., and Smyth S. US regulatory system for genetically modified [genetically modified organism (GMO), rDNA or transgenic] crop cultivars. Plant Biotechnol. J. 6 (2008) 2-12
67. In: McLean M.A., et al. (Ed). A Framework for Biosafety Implementation: Report of a Meeting (2003), International Service for National Agricultural Research
68. Nap J., et al. The release of genetically modified crops into the environment: Part 1. Overview of current status and regulations. Plant J. 33 (2003) 1-18
69. Hokanson, K. et al. (1999) The concept of familiarity and pest resistant plants. In Proceedings of a Workshop on the Ecological Effects of Pest Resistance Genes in Managed Ecosystems.(available at http://www.mackinac.org/features/debate/2001/Home/Articles/proceedings.pdf#page=19)
70. Bravo A., et al. Mode of action of Bacillus thuringiensis Cry and Cyt toxins and their potential for insect control. Toxicon 49 (2007) 423-435
71. Robbens J., et al. Ecotoxicological risk assessment using DNA chips and cellular reporters. Trends Biotechnol. 25 (2007) 460-466