Chemical Screening in Zebrafish for Novel Biological and Therapeutic Discovery

Methods in Cell Biology

Volumn 105, Issue , 2011, Pages 491-516

  Tan, Justin L ^a   Zon, Leonard I ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

Author keywords

Chemical screening; Hit detection; Modulation; Pharmacodynamic; Pharmacokinetic; Phenotype

Indexed keywords

ANIMAL; ANIMAL BEHAVIOR; ANIMAL EMBRYO; ARTICLE; DRUG DEVELOPMENT; DRUG EFFECT; DRUG SCREENING; FACTUAL DATABASE; HIGH THROUGHPUT SCREENING; HUMAN; IMMUNOHISTOCHEMISTRY; LABORATORY AUTOMATION; METHODOLOGY; MOLECULAR LIBRARY; MOLECULARLY TARGETED THERAPY; PHENOTYPE; PHYSIOLOGY; PRENATAL DEVELOPMENT; ZEBRA FISH;

ANIMALS; AUTOMATION, LABORATORY; BEHAVIOR, ANIMAL; DATABASES, FACTUAL; DRUG DISCOVERY; DRUG EVALUATION, PRECLINICAL; EMBRYO, NONMAMMALIAN; HIGH-THROUGHPUT SCREENING ASSAYS; HUMANS; IMMUNOHISTOCHEMISTRY; MOLECULAR TARGETED THERAPY; PHENOTYPE; RESEARCH DESIGN; SMALL MOLECULE LIBRARIES; ZEBRAFISH;

EID: 80053264881     PISSN: 0091679X     EISSN: None     Source Type: Book Series    
DOI: 10.1016/B978-0-12-381320-6.00021-7     Document Type: Chapter

References (53)

1. Almo S.C., Bonanno J.B., Sauder J.M., Emtage S., Dilorenzo T.P., Malashkevich V., Wasserman S.R., Swaminathan S., Eswaramoorthy S., Agarwal R., et al. Structural genomics of protein phosphatases. J. Struct. Funct. Genomics 2007, 8:121-140.
2. Alvarez Y., Astudillo O., Jensen L., Reynolds A.L., Waghorne N., Brazil D.P., Cao Y., O'Connor J.J., Kennedy B.N. Selective inhibition of retinal angiogenesis by targeting PI3 kinase. PLoS ONE 2009, 4:e7867.
3. Brown F. Editorial opinion: Chemoinformatics - a ten year update. Curr. Opin. Drug Discov. Dev. 2005, 8:298-302.
4. Cao Y., Semanchik N., Lee S.H., Somlo S., Barbano P.E., Coifman R., Sun Z. Chemical modifier screen identifies HDAC inhibitors as suppressors of PKD models. Proc. Natl. Acad. Sci. 2009, 106:21819-21824.
5. Clardy J., Walsh C. Lessons from natural molecules. Nature 2004, 432:829-837.
6. Das B.C., McCartin K., Liu T., Peterson R.T., Evans T. A forward chemical screen in zebrafish identifies a retinoic acid derivative with receptor specificity. PLoS ONE 2010, 5:e10004.
7. Fürthauer M., Thisse B., Thisse C. Three different noggin genes antagonize the activity of bone morphogenetic proteins in the zebrafish embryo. Dev. Biol. 1999, 214:181-196.
8. Hendzel M.J., Wei Y., Mancini M.A., Van Hooser A., Ranalli T., Brinkley B.R., Bazett-Jones D.P., Allis C.D. Mitosis-specific phosphorylation of histone H3 initiates primarily within pericentromeric heterochromatin during G2 and spreads in an ordered fashion coincident with mitotic chromosome condensation. Chromosoma 1997, 106:348-360.
9. Hong C.C., Peterson Q.P., Hong J., Peterson R.T. Artery/vein specification is governed by opposing phosphatidylinositol-3 kinase and MAP kinase/ERK signaling. Curr. Biol. 2006, 16:1366-1372.
10. Jeong D.G., Cho Y.H., Yoon T., Kim J.H., Ryu S.E., Kim S.J. Crystal structure of the catalytic domain of human DUSP5, a dual specificity MAP kinase protein phosphatase. Proteins 2007, 66:253-258.
11. Jeong D.G., Yoon T., Kim J.H., Shim M.Y., Jung S., Son J.H., Ryu S.E., Kim S.J. Crystal structure of the catalytic domain of human MAP kinase phosphatase 5: Structural insight into constitutively active phosphatase. J. Mol. Biol. 2006, 360:946-955.
12. Jung D., Williams D., Khersonsky S.M., Kang T., Heidary N., Chang Y., Orlow S.J. Identification of the F1F0 mitochondrial ATPase as a target for modulating skin pigmentation by screening a tagged triazine library in zebrafish. Mol. Biosyst. 2005, 1:85.
13. Khersonsky S.M., Jung D., Kang T., Walsh D.P., Moon H., Jo H., Jacobson E.M., Shetty V., Neubert T.A., Chang Y. Facilitated forward chemical genetics using a tagged triazine library and zebrafish embryo screening. J. Am. Chem. Soc. 2003, 125:11804-11805.
14. Kitambi S.S., McCulloch K.J., Peterson R.T., Malicki J.J. Small molecule screen for compounds that affect vascular development in the zebrafish retina. Mech. Dev. 2009, 126:464-477.
15. Kokel D., Bryan J., Laggner C., White R., Cheung C.Y.J., Mateus R., Healey D., Kim S., Werdich A.A., Haggarty S.J., et al. Rapid behavior-based identification of neuroactive small molecules in the zebrafish. Nat. Chem. Biol. 2010, 6:231-237.
16. Lipinski C.A., Lombardo F., Dominy B.W., Feeney P.J. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings. Adv. Drug Deliv. Rev. 2001, 46:3-26.
17. Mathew L.K., Sengupta S., Kawakami A., Andreasen E.A., Lohr C.V., Loynes C.A., Renshaw S.A., Peterson R.T., Tanguay R.L. Unraveling tissue regeneration pathways using chemical genetics. J. Biol. Chem. 2007, 282:35202-35210.
18. Milan D.J., Peterson T.A., Ruskin J.N., Peterson R.T., MacRae C.A. Drugs that induce repolarization abnormalities cause bradycardia in zebrafish. Circulation 2003, 107:1355-1358.
19. Mintzer K.A., Lee M.A., Runke G., Trout J., Whitman M., Mullins M.C. Lost-a-fin encodes a type I BMP receptor, Alk8, acting maternally and zygotically in dorsoventral pattern formation. Development 2001, 128:859-869.
20. Molina G., Vogt A., Bakan A., Dai W., de Oliveira P.Q., Znosko W., Smithgall T.E., Bahar I., Lazo J.S., Day B.W., et al. Zebrafish chemical screening reveals an inhibitor of Dusp6 that expands cardiac cell lineages. Nat. Chem. Biol. 2009, 5:680-687.
21. Moon H., Jacobson E.M., Khersonsky S.M., Luzung M.R., Walsh D.P., Xiong W., Lee J.W., Parikh P.B., Lam J.C., Kang T., et al. A novel microtubule destabilizing entity from orthogonal synthesis of triazine library and zebrafish embryo screening. J. Am. Chem. Soc. 2002, 124:11608-11609.
22. Mullins M.C., Hammerschmidt M., Kane D.A., Odenthal J., Brand M., van Eeden F.J., Furutani-Seiki M., Granato M., Haffter P., Heisenberg C.P., et al. Genes establishing dorsoventral pattern formation in the zebrafish embryo: The ventral specifying genes. Development 1996, 123:81-93.
23. Murphey R.D., Stern H.M., Straub C.T., Zon L.I. A chemical genetic screen for cell cycle inhibitors in zebrafish embryos. Chem. Biol. Drug Design 2006, 68:213-219.
24. Nguyen V.H., Schmid B., Trout J., Connors S.A., Ekker M., Mullins M.C. Ventral and lateral regions of the zebrafish gastrula, including the neural crest progenitors, are established by a bmp2b/swirl pathway of genes. Dev. Biol. 1998, 199:93-110.
25. North T.E., Goessling W., Walkley C.R., Lengerke C., Kopani K.R., Lord A.M., Weber G.J., Bowman T.V., Jang I., Grosser T., et al. Prostaglandin E2 regulates vertebrate haematopoietic stem cell homeostasis. Nature 2007, 447:1007-1011.
26. Oppedal D., Goldsmith M.I. A chemical screen to identify novel inhibitors of fin regeneration in zebrafish. Zebrafish 2010, 7:53-60.
27. Owens K.N., Santos F., Roberts B., Linbo T., Coffin A.B., Knisely A.J., Simon J.A., Rubel E.W., Raible D.W. Identification of genetic and chemical modulators of zebrafish mechanosensory hair cell death. PLoS Genet. 2008, 4:e1000020.
28. Paik E.J., de Jong J.L.O., Pugach E., Opara P., Zon L.I. A chemical genetic screen in zebrafish for pathways interacting with cdx4 in primitive hematopoiesis. Zebrafish 2010, 7:61-68.
29. Parker C.N., Schreyer S.K. Application of chemoinformatics to high-throughput screening: Practical considerations. Methods Mol. Biol. 2004, 275:85-110.
30. Peterson R.T., Link B.A., Dowling J.E., Schreiber S.L. Small molecule developmental screens reveal the logic and timing of vertebrate development. Proc. Natl. Acad. Sci. USA 2000, 97:12965-12969.
31. Peterson R.T., Shaw S.Y., Peterson T.A., Milan D.J., Zhong T.P., Schreiber S.L., MacRae C.A., Fishman M.C. Chemical suppression of a genetic mutation in a zebrafish model of aortic coarctation. Nat. Biotechnol. 2004, 22:595-599.
32. Rihel J., Prober D.A., Arvanites A., Lam K., Zimmerman S., Jang S., Haggarty S.J., Kokel D., Rubin L.L., Peterson R.T., et al. Zebrafish behavioral profiling links drugs to biological targets and rest/wake regulation. Science 2010, 327:348-351.
33. Sachidanandan C., Yeh J.J., Peterson Q.P., Peterson R.T. Identification of a novel retinoid by small molecule screening with zebrafish embryos. PLoS ONE 2008, 3:e1947.
34. Schreiber S.L. Target-oriented and diversity-oriented organic synthesis in drug discovery. Science 2000, 287:1964-1969.
35. Shafizadeh E., Peterson R.T., Lin S. Induction of reversible hemolytic anemia in living zebrafish using a novel small molecule. Comp. Biochem. Physiol. C Toxicol. Pharmacol. 2004, 138:245-249.
36. Shepard J.L., Amatruda J.F., Stern H.M., Subramanian A., Finkelstein D., Ziai J., Finley K.R., Pfaff K.L., Hersey C., Zhou Y., et al. A zebrafish bmyb mutation causes genome instability and increased cancer susceptibility. Proc. Natl. Acad. Sci. USA 2005, 102:13194-13199.
37. Spring D.R., Krishnan S., Blackwell H.E., Schreiber S.L. Diversity-oriented synthesis of biaryl-containing medium rings using a one bead/one stock solution platform. J. Am. Chem. Soc. 2002, 124:1354-1363.
38. Stern H.M., Murphey R.D., Shepard J.L., Amatruda J.F., Straub C.T., Pfaff K.L., Weber G., Tallarico J.A., King R.W., Zon L.I. Small molecules that delay S phase suppress a zebrafish bmyb mutant. Nat. Chem. Biol. 2005, 1:366-370.
39. Sternson S.M., Louca J.B., Wong J.C., Schreiber S.L. Split-pool synthesis of 1,3-dioxanes leading to arrayed stock solutions of single compounds sufficient for multiple phenotypic and protein-binding assays. J. Am. Chem. Soc. 2001, 123:1740-1747.
40. Stewart A.E., Dowd S., Keyse S.M., McDonald N.Q. Crystal structure of the MAPK phosphatase Pyst1 catalytic domain and implications for regulated activation. Nat. Struct. Biol. 1999, 6:174-181.
41. Thisse B., Thisse C. Functions and regulations of fibroblast growth factor signaling during embryonic development. Dev. Biol. 2005, 287:390-402.
42. Torregroza I., Evans T., Das B.C. A forward chemical screen using zebrafish embryos with novel 2-substituted 2H-chromene derivatives. Chem. Biol. Drug Design 2009, 73:339-345.
43. Tran T.C., Sneed B., Haider J., Blavo D., White A., Aiyejorun T., Baranowski T.C., Rubinstein A.L., Doan T.N., Dingledine R., et al. Automated, quantitative screening assay for antiangiogenic compounds using transgenic zebrafish. Cancer Res. 2007, 67:11386-11392.
44. Trompouki E., Zon L.I. Small molecule screen in zebrafish and HSC expansion. Methods Mol. Biol. 2010, 636:301-316.
45. Tsang M., Dawid I.B. Promotion and attenuation of FGF signaling through the Ras-MAPK pathway. Sci. STKE 2004, 2004:pe17.
46. Wang C., Tao W., Wang Y., Bikow J., Lu B., Keating A., Verma S., Parker T.G., Han R., Wen X. Rosuvastatin, identified from a zebrafish chemical genetic screen for antiangiogenic compounds, suppresses the growth of prostate cancer. Eur. Urol. 2010, 58:418-426.
47. Wheeler G.N., Brändli A.W. Simple vertebrate models for chemical genetics and drug discovery screens: Lessons from zebrafish and Xenopus. Dev. Dyn. 2009, 238:1287-1308.
48. White R.M., Sessa A., Burke C., Bowman T., LeBlanc J., Ceol C., Bourque C., Dovey M., Goessling W., Burns C.E., et al. Transparent adult zebrafish as a tool for in vivo transplantation analysis. Cell Stem Cell 2008, 2:183-189.
49. Wong J.C., Sternson S.M., Louca J.B., Hong R., Schreiber S.L. Modular synthesis and preliminary biological evaluation of stereochemically diverse 1,3-dioxanes. Chem. Biol. 2004, 11:1279-1291.
50. Xu Z., Li Y., Xiang Q., Pei Z., Liu X., Lu B., Chen L., Wang G., Pang J., Lin Y. Design and synthesis of novel xyloketal derivatives and their vasorelaxing activities in rat thoracic aorta and angiogenic activities in zebrafish angiogenesis screen. J. Med. Chem. 2010, 53:4642-4653.
51. Yeh J.J., Munson K.M., Elagib K.E., Goldfarb A.N., Sweetser D.A., Peterson R.T. Discovering chemical modifiers of oncogene-regulated hematopoietic differentiation. Nat. Chem. Biol. 2009, 5:236-243.
52. Yu P.B., Hong C.C., Sachidanandan C., Babitt J.L., Deng D.Y., Hoyng S.A., Lin H.Y., Bloch K.D., Peterson R.T. Dorsomorphin inhibits BMP signals required for embryogenesis and iron metabolism. Nat. Chem. Biol. 2007, 4:33-41.
53. Zon L.I., Peterson R.T. In vivo drug discovery in the zebrafish. Nat. Rev. Drug Discov. 2005, 4:35-44.