Whole organism approaches to chemical genomics: The promising role of zebrafish (Danio rerio)

Expert Opinion on Drug Discovery

Volumn 2, Issue 10, 2007, Pages 1389-1401

  Lan, Chuan Ching ^a   Laurenson, Sophie ^a,b   Copp, Brent R ^c   Cattin, Peter M ^a   Love, Donald R ^a,d  

^a UNIVERSITY OF AUCKLAND   (New Zealand)

^b MEDICAL RESEARCH COUNCIL   (United Kingdom)

^c UNIVERSITY OF AUCKLAND   (New Zealand)

^d AUCKLAND CITY HOSPITAL   (New Zealand)

Author keywords

Combinatorial libraries; High throughput; Microtitre trays; Natural products; Whole organisms

Indexed keywords

1 (2 AMINOETHYL) 3 PHENYL 2 THIOUREA; 1 BENZYL 3 PHENYL 2 THIOUREA; 5 (4 CHLOROPHENYL) 1 (4 METHOXYPHENYL) 3 TRIFLUOROMETHYL 1H PYRAZOLE; ANTIBIOTIC AGENT; ANTINEOPLASTIC AGENT; BIBU 1361; BIBU 1476; BIBX 1382; BMS 192364; BMS 195270; CELECOXIB; DIPEPTIDYL CARBOXYPEPTIDASE INHIBITOR; EPIDERMAL GROWTH FACTOR RECEPTOR KINASE INHIBITOR; GLYCERYL TRIERUCATE; HYDROXYMETHYLGLUTARYL COENZYME A REDUCTASE INHIBITOR; IMMUNOSUPPRESSIVE AGENT; INDOMETACIN; N (2 CYCLOHEXYLOXY 4 NITROPHENYL)METHANESULFONAMIDE; NATURAL PRODUCT; PHENYLTHIOUREA; SPASMOLYTIC AGENT; THIOUREA DERIVATIVE; UNCLASSIFIED DRUG;

CAENORHABDITIS ELEGANS; CELL CULTURE; CELL LINE; CELL MEMBRANE PERMEABILITY; CHEMICAL GENOMICS; CHEMICAL STRUCTURE; DROSOPHILA MELANOGASTER; DRUG RESEARCH; DRUG SYNTHESIS; GENETIC SCREENING; GENOMICS; HIGH THROUGHPUT SCREENING; NONHUMAN; PHENOTYPIC VARIATION; PRIORITY JOURNAL; PROTEIN TARGETING; REVIEW; TOXICITY TESTING; XENOPUS LAEVIS; ZEBRA FISH;

EID: 35348889086     PISSN: 17460441     EISSN: None     Source Type: Journal    
DOI: 10.1517/17460441.2.10.1389     Document Type: Review

References (59)

1. WEBB TR. Current directions in the evolution of compound libraries. Curr. Opin. Drug Discov. Devel. (2005) 8(3):303-308.
2. BURKE MD, SCHREIBER SL: A planning strategy for diversity - oriented synthesis. Angew. Chem. Int. Ed. (2004) 43(1):46-58.
3. LOKEY RS: Forward chemical genetics: progress and obstacles on the path to a new pharmacopeia. Curr. Opin. Chem. Biol. (2003) 7(1):91-96.
4. SHANG S, TAN DS: Advancing chemistry and biology through diversity - oriented synthesis of natural product-like libraries. Curr. Opin. Chem. Biol. (2005) 9(3):248-258.
5. KOEHN FE, CARTER GT: The evolving role of natural products in drug discovery. Nat. Rev. Drug Discov. (2005) 4:206-220.
6. BUTLER MS, BUSS AD: Natural products - the future scaffolds for novel antibiotics? Biochem. Pharmacol. (2006) 71:919-929.
7. STOCKWELL BR: Chemical generic screening approaches to neurobiology. Neuron (2002) 36:559-562.
8. VIDAN S, SNYDER M: Making drug addicts out of yeast. Nat. Biotechnol. (2001) 19(11):1022-1023.
9. PANNUNZ10 VG, BURGOS HI, ALONSO M et al.: A simple chemical method for rendering wild-type yeast permeable to brefeldin A that does not require the presence of an erg6 mutation. J. Biomed. Biotechnol. (2004) 3:150-155.
10. PETERSON JR, MITCHISON TJ: Small molecules, big impact: a history of chemical inhibitors and the cytoskeleton. Chem. Biol. (2002) 9(12):1275-1285.
11. DEN HERTOG J: Chemical genetics: drug screens in zebrafish. Biosci. Rep. (2005) 25(5):289-297.
12. PARNG C, SENG WL, SEMINO C, MCGRATH P: Zebrafish: a preclinical model for drug screening. Assay Drug Dev. Technol. (2002) 1:41-48.
13. MURPHEY RD, ZON LI: Small molecule screening in the zebrafish. Methods (2006) 39(3):255-261.
14. MACRAE CA, PETERSON RT: Zebrafish-based small molecule discovery. Chem. Biol. (2003) 10(10):901-908.
15. DE ANGELIS MH, FLASWINKEL H, FUCHS H et al.: Genome-wide, large-scale production of mutant mice by ENU mutagenesis. Nat. Genet. (2000) 25(4):444-447.
16. NOLAN PM, PETERS J, VIZOR L et al.: Implementation of a large-scale ENU mutagenesis program: towards increasing the mouse mutant resource. Mamm. Genome (2000) 11(7):500-506.
17. NOSSLEIN-VOLHARD C, WIESCHAUS E, KLUDING H: Mutations affecting die pattern of the larval cuticle in Drosophila melanagwer. Dev. Genes Evol. (1984) 193(5):267-282.
18. JÜRGENS G, WIESCHAUS E, NCSSLEIN-VOLHARD C, KLUDING H: Mutations affecting the pattern of the larval cuticle in Drosophila melanogaster. Dev. Genes Evol. (1984) 193(5):283-295.
19. WIESCHAUS E, NÜSSLEIN-VOLHARD C, JÜRGENS G: Mutations affecting the pattern of the larval cuticle in Drosaphila melanagaster. Dev. Genes Evol. (1984) 193(5):296-307.
20. ANDERSON P: Caenorhabditis elegans: modern biological analysis of an organism. Methods Cell Biol. (1995) 48:31-58.
21. JANSEN G, HAZENDONK E, THIJSSEN KL, PLASTERK RHA: Reverse genetics by chemical mucagenesis in Caenorhabditis elegans. Nat. Genet. (1997) 17(1):119-121.
22. MULLINS MC, HAMMERSCHMIDT M, HAFFTER P, NUSSLEIN-VOLHARD C: Large-scale mutagenesis in the zebrafish: in search of genes controlling development in a vertebrate. Curr. Biol. (1994) 4(3):189-202.
23. HAFFTER P, GRANATO M, BRAND M et al.: The identification of genes with unique and essential functions in the development of the zebrafish, Dania rerio. Development (1996) 123(1):1-36.
24. DRIEVER W, SOLNICA-KREZEL L, SCHIER AF et al.: A genetic screen for mutations affecting embryogenesis in zebrafish. Development (1996) 123(1):37-46.
25. PADDISON PJ, SILVA JM, CONKLIN DS et al.: A resource for large-scale RNA-interference-based screens in mammals. Nature (2004) 428(6981):427-431.
26. MOFFAT J, GRUENEBERG DA, YANG X et al.: A lentiviral RNAi library for human and mouse genes applied to an arrayed viral high-content screen. Cell(2006) 124(6):1283-1298.
27. NYBAKKEN K, VOKES SA, LIN T-Y, MCMAHON AP, PERRIMON N: A genome-wide RNA interference screen in Drosophila melanogaster cells for new components of the Hh signaling pathway. Nat. Genet. (2005) 37(12):1323-1332.
28. GWACK Y, SHARMA S, NARDONE J et al.: A genome-wide Drosophila RNAi screen identifies DYRK-family kinases as regulators of NFAT. Nature (2006) 441(7093):646-650.
29. ASHRAFI K, CHANG FY, WATTS JL et al.: Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes. Nature (2003) 421(6920):268-272.
30. POTHOF J, VAN HAAFTEN G, THIJSSEN K et al.: Identification of genes that protect the C. elegans genome against mutations by genome-wide RNAi. Genes Dev. (2003) 17(4):443-448.
31. REITER IT, POTOCKI L, CHIEN S, GRIBSKOV M, BIER E: A systematic analysis of human disease-associated gene sequences in Drosophila melanogaster. Genome Res. (2001) 11(6):1114-1125.
32. MANEV H, DIMITRIJEVIC N, DZITOYEVA S: Techniques: fruit flies as models for neuropharmacological research. Trends Pharmacol. Sci. (2003) 24(1):41-43.
33. MIN KT, BENZER S: Preventing neurodegeneration in the Drosophila mutant bubblegum. Science (1999) 284(5422):1985-1988.
34. KANG HL, BENZER S, MIN KT: Life extension in Drosapbila by feeding a drug. Proc. Natl. Acad. Sci. USA (2002) 99(2):838-843.
35. HERTWECK M, BAUMEISTER R: Automated assays to study longevity in C. elegans. Mech. Ageing Dev. (2005) 126(1):139-145.
36. NASS R, MILLER DM, BLAKELY RD: C. elegans- a novel pharmacogenetic model to study Parkinson!s disease. Parkinsonism Relat. Disord. (2001) 7(3):185-191.
37. SÉGALAT L: Drug discovery: here comes die worm. ACS Chem. Biol. (2006) 1(5):277-278.
38. DENGG M, VAN MEEL JC: Caenorbabditis elegans as model system for rapid toxicity assessment of pharmaceutical compounds. J. Pharmacol. Toxicol. Metbods (2004) 50(3):209-214.
39. FITZGERALD K, TERTYSHNIKOVA S, MOORE L et al.: Chemical genetics reveals an RGS/G-protein role in the action of a compound. PLoS Genet. (2006) 2(4):E57.
40. KWOK TC, RICKER N, FRASER R et al.: A small-molecule screen in C. elegans yields a new calcium channel antagonist. Nature (2006) 441(7089):91-95.
41. MIN J, KYUNG KIM Y, CIPRIANI PG et al.: Forward chemical genetic approach identifies new role for GAPDH in insulin signalling. Nat. Chem. Biol. (2006) 3(1):55-59.
42. LIU J, WU Y, MITCHELL B et al.: A small-molecule agonist of the Writ signaling pathway. Angew. Chem. Int. Ed. Engl. (2005) 44(13):1987-1990.
43. TOMLINSON ML, FIELD RA, WHEELER GN: Xenopus as a model organism in developmental chemical genetic screens. Mol. Biosyst. (2005) 1(3):223-228.
44. RUBINSTEIN AL: Zebrafish: from disease modeling to drug discovery. Curr. Opin. Drug Discov. Devel. (2003) 6(2):218-223.
45. HILL AJ, TERAOKA H, HEIDEMAN W, PETERSON RE: Zebrafish as a model vertebrate for investigating chemical toxicity. Toxicol. Sci. (2005) 86(1):6-19.
46. LOVE DR, PICHLER FB, DODD A, COPP BR, GREENWOOD DR. Technology for high-throughput screens: the present and future using zebrafish. Curr. Opin. Biotechnol. (2004) 15(6):564-571.
47. PETERSON RT, LINK BA, DOWLING JE, SCHREIBER SL: Small molecule developmental screens reveal the logic and timing of vertebrate development. Proc. Natl. Acad. Sci. USA (2000) 97(24):12965-12969.
48. PETERSON RT, SHAW SY, PETERSON TA et al.: Chemical suppression of a genetic mutation in a zebrafish model of aortic coarccation. Nat. Biotechnol. (2004) 22(5):595-599.
49. STERN HM, MURPHEY RD, SHEPARD JL et al.: Small molecules that delay S phase suppress a zebrafish bmyb mutant. Nat. Chem. Biol. (2005) 1(7):366-370.
50. CHAN J, BAYLISS PE, WOOD JM, ROBERTS TM: Dissection of angiogenic signaling in zebrafish using a chemical genetic approach. Cancer Cell (2002) 1(3):257-267.
51. BAYLISS PE, BELLAVANCE KL, WHITEHEAD GG et al.: Chemical modulation of receptor signalling inhibits regenerative angiogenesis in adult zebrafish Nat. Chem. Biol (2006) 2(5):265-273.
52. BURNS CG, MILAN DJ, GRANDE EJ et al.: High-throughput assay for small molecules that modulate zebrafish embryonic heart rate. Nat. Chem. Biol. (2005) 1(5):263-264.
53. MURPHEY RD, STERN HM, STRAUB CT, ZON LI: A chemical genetic screen for cell cycle inhibitors in zebrafish embryos. Chem. Biol. Drug Des. (2006) 68(4):213-219.
54. NORTH TE, GOESSLING W, VALKLEY CR et al.: Prostaglandin E2 regulates vertebrate haematopoietic stem cell homeostasis. Nature (2007) 447:1007-1011.
55. KHERSONSKY SM, JUNG D-W, KANG T-W et al.: Facilitated forward chemical genetics using a ragged triazine library and zebrafish embryo screening. J. Am. Chem. Soc. (2003) 125:11804-11805.
56. PIGGOTT AM, KARUSO P: Quality, not quantity: the role of natural products and chemical proteomics in drug discovery. Comb. Chem. Higb Throughput Screen. (2004) 7:607-630.
57. BORDELEAU ME, MATTHEWS J, WOJNAR JM et al.: Stimulation of mammalian translation initiation factor eIF4A activity by a small molecule inhibitor of eukaryotic translation. Proc. Natl. Acad. Sci. USA (2005) 102(30):10460-10465.
58. LOVE DR, LAN C-C, DODD A, SHELLING AS, MCNABB WC FERGUSON LR: modeling inflammatory bowel disease: the zebrafish as a way forward. Evpert Rev. Mol. Diagn. (2007) 7:177-193.
59. ELLIOTT JL, YIN JCP: Towards individualized medicine: flies lead the way. Future Neurol. (2007) 2:389-396.