Target-based discovery of novel herbicides

Current Opinion in Plant Biology

Volumn 7, Issue 2, 2004, Pages 219-225

  Lein, Wolfgang ^a   Börnke, Frederik ^b   Reindl, Andreas ^c   Ehrhardt, Thomas ^c   Stitt, Mark ^a   Sonnewald, Uwe ^b  

^a MAX PLANCK INSTITUTE OF MOLECULAR PLANT PHYSIOLOGY   (Germany)

^b LEIBNIZ INSTITUTE OF PLANT GENETICS AND CROP PLANT RESEARCH IPK   (Germany)

^c BASF SE   (Germany)

Author keywords

RNA interference; RNAi; VIGS; Virus induced genes silencing

Indexed keywords

AGRICULTURAL CHEMICAL; HERBICIDE; VEGETABLE PROTEIN;

BIOSYNTHESIS; CHEMISTRY; CROP; GENE TARGETING; GENETICS; GENOMICS; ISOLATION AND PURIFICATION; METHODOLOGY; REVIEW;

AGROCHEMICALS; CROPS, AGRICULTURAL; GENE TARGETING; GENOMICS; HERBICIDES; PLANT PROTEINS;

EID: 1542351243     PISSN: 13695266     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.pbi.2004.01.001     Document Type: Review

References (47)

1. Ward E., Bernasconi P. Target-based discovery of crop protection chemicals. Nat Biotechnol. 17:1999;618-619.
2. Squire G.R., Brooks D.R., Bohan D.A., Champion G.T., Daniels R.E., Haughton A.J., Hawes C., Heard M.S., Hill M.O., May M.J.et al. On the rationale and interpretation of the farm-scale evaluations on a genetically modified herbicide-tolerant crop. Philos Trans R Soc Lond B Biol Sci. 358:2003;1779-1799.
3. Champion G.T., May M.J., Bennett S., Brooks D.R., Clark S.J., Daniels R.E., Firbank L.G., Haughton A.J., Hawes C., Heard M.S.et al. Crop management and agronomic context of the farm scale evaluations of genetically modified herbicide-tolerant crops. Philos Trans R Soc Lond B Biol Sci. 358:2003;1801-1818.
4. Heard M.S., Hawes C., Champion G.T., Clark S.J., Firbank L.G., Haughton A.J., Parish A.M., Perry J.N., Rothery P., Scott R.J.et al. Weeds in fields with contrasting conventional and genetically modified herbicide-tolerant crops. I. Effects on abundance and diversity. Philos Trans R Soc Lond B Biol Sci. 358:2003;1819-1832.
5. Heard M.S., Hawes C., Champion G.T., Clark S.J., Firbank L.G., Haughton A.J., Parish A.M., Perry J.N., Rothery P., Roy D.B.et al. Weeds in fields with contrasting conventional and genetically modified herbicide-tolerant crops. II. Effects on individual species. Philos Trans R Soc Lond B Biol Sci. 358:2003;1833-1846.
6. Brooks D.R., Bohan D.A., Champion G.T., Haughton A.J., Hawes C., Heard M.S., Clark S.J., Dewar A.M., Firbank L.G., Perry J.N.et al. Invertebrates responses to the management of genetically modified herbicide-tolerant and conventional spring crops. I. Soil-surface-active invertebrates. Philos Trans R Soc Lond B Biol Sci. 358:2003;1847-1862.
7. Haughton A.J., Champion G.T., Hawes C., Heard M.S., Brooks D.R., Bohan D.A., Clark S.J., Dewar A.M., Firbank L.G., Osborne J.L.et al. Invertebrates responses to the management of genetically modified herbicide-tolerant and conventional spring crops. II. Within-field epigeal and aerial arthropods. Philos Trans R Soc Lond B Biol Sci. 358:2003;1863-1877.
8. Roy D.B., Bohan D.A., Haughton A.J., Hill M.O., Osborne J.L., Clark S.J., Perry J.N., Rothery P., Scott R.J., Brooks D.R.et al. Invertebrates and vegetation of field margins adjacent to crops subject to contrasting herbicide regimes in the farm scale evaluations of a genetically modified herbicide-tolerant crop. Philos Trans R Soc Lond B Biol Sci. 358:2003;1879-1898.
9. Hawes C., Haughton A.J., Osborne J.L., Roy D.B., Clark S.J., Perry J.N., Rothery P., Bohan D.A., Brooks D.R., Champion G.T.et al. Responses of plants and invertebrate trophic groups to contrasting herbicide regimes in the farm scale evaluations of a genetically modified herbicide-tolerant crop. Philos Trans R Soc Lond B Biol Sci. 358:2003;1779-1799.
10. Ott K.-H., Aranibar N., Singh B., Stockton G.W. Metabolomics classifies pathways affected by bioactive compounds. Artificial neural network classification of NMR spectra of plant extracts. Phytochemistry. 62:2003;971-985.
11. Ridley S.M., Elliott A.C., Yeung M., Youle D. High-throughput screening as a tool for agrochemical discovery: automated synthesis, compound input, assay design and process management. Pestic Sci. 54:1998;327-337.
12. Steinrücken HCM, Hermann D: Speeding the search for crop chemicals. Chem Indust 2000: 246-249.
13. Arabidopsis Genome Initiative: Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 2000, 408:796-815.
14. Goff S.A., Ricke D., Lan T.H., Presting G., Wang R., Dunn M., Glazebrook J., Sessions A., Oeller P., Varma H.et al. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science. 296:2002;92-100.
15. Abell L.M. Biochemical approaches to herbicide discovery: advances in enzyme target identification and inhibitor design. Weed Sci. 44:1996;734-742.
16. Stitt M., Sonnewald U. Regulation of metabolism in transgenic plants. Annu Rev Plant Physiol Plant Mol Biol. 46:1995;341-368.
17. Stitt M: The first will be last and the last will be first: non-regulated enzymes call the tune? In Plant Carbohydrate Biochemistry. Edited by Burrell JA, Bryant MM, Kruger NJ. Oxford: BIOS Scientific Publishing; 1999:1-16.
18. Henkes S., Flachmann R., Sonnewald U., Stitt M. A small decrease of plastid transketolase expression in antisense tobacco transformants has dramatic effects on photosynthesis and phenylpropanoid metabolism. Plant Cell. 13:2001;535-551.
19. Jun J.H., Kim C.S., Cho D.S., Kwak J.M., Ha C.M., Park Y.S., Cho B.H., Patton D.A., Nam H.G. Random antisense cDNA mutagenesis as an efficient functional genomic approach in higher plants. Planta. 214:2002;668-674.
20. Palatnik J.F., Tognetti V.B., Poli H.O., Rodriguez R.E., Blanco N., Gattuso M., Hajirezaei M., Sonnewald U., Valle E.M., Carrello N. Transgenic tobacco plants expressing antisense ferredoxin-NADP(H) reductase transcripts display increased susceptibility to photooxidative damage. Plant J. 35:2003;332-341.
21. Li Y., Rosso M.G., Strizhov N., Viehoever P., Weisshaar B. GABI-Kat SimpleSearch: a flanking sequence tag (FST) database for the identification of T-DNA insertion mutants in Arabidopsis thaliana. Bioinformatics. 19:2003;1441-1442.
22. AGRIKOLA: Systematic RNAi knockouts in Arabidopsis. http://www.agrikola. org/.
23. Angell S.M., Baulcombe D.C. Potato virus amplicon-mediated silencing of nuclear genes. Plant J. 20:1999;357-362.
24. Ratcliff F., Martin-Hernandez A.M., Baulcombe D.C. Tobacco rattle virus as a vector for analysis of gene function by silencing. Plant J. 25:2001;237-245.
25. Gossele V., Fache I., Meulewaeter F., Cornelissen M., Metzlaff M. SVISS - a novel transient gene silencing system for gene function discovery and validation in tobacco plants. Plant J. 32:2002;859-866.
26. Holzberg S., Brosio P., Gross C., Pogue G.P. Barley stripe mosaic virus-induced gene silencing in a monocot plant. Plant J. 30:2002;315-327.
27. De Backer M.D., Nelissen B., Logghe M., Viaene J., Loonen I., Vandonick S., de Hoogt R., Dewaele S., Simons F.A., Verhasselt P.et al. An antisense-based functional genomics approach for the identification of genes critical for growth of Candida albicans. Nat Biotechnol. 19:2001;235-241.
28. Spann T.P., Brock D.A., Lindsey D.F., Wood S.A., Gomer R.H. Mutagenesis and gene identification in Dictyostelium by shotgun antisense. Proc Natl Acad Sci USA. 93:1996;5003-5007.
29. Fraser A.G., Kamath R.S., Zipperlen P., Martinez-Campos M., Sohrman M., Ahringer J. Functional genomic analysis of C. elegans chromosome I by systematic RNA interference. Nature. 408:2000;325-330.
30. Kamath R.S., Fraser A.G., Dong Y., Poulin G., Durbin R., Gotta M., Kanapin A., Le Bot N., Moreno S., Sohrmann M.et al. Systematic functional analysis of the Caenorhabditis elegans genome using RNAi. Nature. 421:2003;231-237.
31. Schmid M.B. Structural proteomics: the potential of high-throughput structure determination. Trends Microbiol. 10:2002;S27-S31.
32. Hosfield D., Palan J., Hilgers M., Scheibe D., McRee D.E., Stevens R.C. A fully integrated protein crystallization platform for small-molecule drug discovery. J Struct Biol. 142:2003;207-217.
33. Buchanan S.G. Structural genomics: bridging functional genomics and structure-based drug design. Curr Opin Drug Discov Devel. 5:2002;367-381.
34. Buckhout T.J., Thimm O. Insights into metabolism obtained from microarray analysis. Curr Opin Plant Biol. 6:2003;288-296.
35. Zhu T. Global analysis of gene expression using GeneChip microarrays. Curr Opin Plant Biol. 6:2003;418-425.
36. Fiehn O., Kopka J., Dormann P., Altmann T., Trethewey R.N., Willmitzer L. Metabolite profiling for plant functional genomics. Nat Biotechnol. 18:2000;1157-1167.
37. Tolstikov V.V., Fiehn O. Analysis of highly polar compounds of plant origin: combination of hydrophilic interaction chromatography and electrospray ion trap mass spectrometry. Anal Biochem. 301:2002;298-307.
38. Sumner L.W., Mendes P., Dixon R.A. Plant metabolomics: large-scale phytochemistry in the functional genomics era. Phytochemistry. 62:2003;817-836.
39. Chen S., Hofius D., Sonnewald U., Boernke F. Temporal and spatial control of gene silencing in transgenetic plants by inducible expression of double-stranded RNA. Plant J. 36:2003;731-740.
40. Guo H.S., Fei J.F., Xie Q., Chua N.H. A chemical-regulated inducible RNAi system in plants. Plant J. 34:2003;383-392.
41. Lange B.M., Raymond E.B., Ketchum E.B., Croteau R.B. Isoprenoid biosynthesis. Metabolite profiling of peppermint oil gland secretory cells and application to herbicide target analysis. Plant Physiol. 127:2001;305-314.
42. Thimm O, Bläsing O, Gibon Y, Nagel A, Meyer S, Krüger P, Selbig J, Müller LA, Rhee SY, Stitt M: MapMan: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes. Plant J 2004, in press.
43. Hishigaki H., Nakai Kono T., Tanigami A., Takagi T. Assessment of prediction accuracy of protein function from protein-protein interaction data. Yeast. 18:2001;523-531.
44. Vazquez A., Flammini A., Maritan A., Vespignani A. Global protein function prediction from protein-protein interaction networks. Nat Biotechnol. 21:2003;697-700.
45. Fang Y., Macool D.J., Xue Z., Heppard E.P., Hainey C.F., Tingey S.V., Miao G.H. Development of a high-throughput yeast two-hybrid screening system to study protein-protein interactions in plants. Mol Genet Genomics. 267:2002;142-153.
46. Serebriiskii I.G., Mitina O., Pugacheva E.N., Benevolenskaya E., Kotova E., Toby G.G., Khazak V., Kaelin W.G., Chernoff J., Golemis E.A. Detection of peptides, proteins, and drugs that selectively interact with protein targets. Genome Res. 12:2002;1785-1791.
47. Huang J., Schreiber S.L. A yeast genetic system for selecting small molecule inhibitors of protein-protein interactions in nanodroplets. Proc Natl Acad Sci USA. 94:1997;13396-13401.