Use of phage Phic31 integrase as a tool for zebrafish genome manipulation

Methods in Cell Biology

Volumn 104, Issue , 2011, Pages 195-208

  Lister, James A ^a  

^a VIRGINIA COMMONWEALTH UNIVERSITY   (United States)

Author keywords

PhiC31; Recombinase; Technology; Transgene excision; Zebrafish

Indexed keywords

EID: 80052819224     PISSN: 0091679X     EISSN: None     Source Type: Book Series    
DOI: 10.1016/B978-0-12-374814-0.00011-2     Document Type: Chapter

References (61)

1. Allen B.G., Weeks D.L. Transgenic Xenopus Laevis embryos can be generated using phiC31 integrase. Nat. Methods 2005, 2:975-979.
2. Amatruda J.F., Shepard J.L., Stern H.M., Zon L.I. Zebrafish as a cancer model system. Cancer Cell 2002, 3:229-231.
3. Andreas S., Schwenk F., Kuter-Luks B., Faust N., Kuhn R. Enhanced efficiency through nuclear localization signal fusion on phage PhiC31-integrase: activity comparison with Cre and FLPe recombinase in mammalian cells. Nucleic Acids Res. 2002, 30:2299-2306.
4. Bateman J.R., Lee A.M., Wu C.T. Site-specific transformation of Drosophila via phiC31 integrase-mediated cassette exchange. Genetics 2006, 173:769-777.
5. Belteki G., Gertsenstein M., Ow D.W., Nagy A. Site-specific cassette exchange and germline transmission with mouse ES cells expressing phiC31 integrase. Nat. Biotechnol. 2003, 21:321-324.
6. Bischof J., Basler K. Recombinases and their use in gene activation, gene inactivation, and transgenesis. Methods Mol. Biol. 2008, 420:175-195.
7. Bischof J., Maeda R.K., Hediger M., Karch F., Basler K. An optimized transgenesis system for Drosophila using germ-line-specific phiC31 integrases. Proc. Natl. Acad. Sci. U. S. A. 2007, 140:3312-3317.
8. Boniface E.J., Lu J., Victoroff T., Zhu M., Chen W. FlEx-based transgenic reporter lines for visualization of Cre and Flp activity in live zebrafish. Genesis 2009, 47:484-491.
9. Boy A.L., Zhai Z., Habring-Muller A., Kussler-Schneider Y., Kaspar P., Lohmann I. Vectors for efficient and high-throughput construction of fluorescent Drosophila reporters using the PhiC31 site-specific integration system. Genesis 2010, 48:452-456.
10. Branda C.S., Dymecki S.M. Talking about a revolution: the impact of site-specific recombinases on genetic analyses in mice. Dev. Cell. 2004, 6:7-28.
11. Briggs J. The zebrafish: a new model organism for integrative physiology. Am. J. Physiol. Regul. Integr. Comp. Physiol. 2002, 282:R3-R9.
12. Chen J.Z., Ji C.N., Xu G.L., Pang R.Y., Yao J.H., Zhu H.Z., Xue J.L., Jia W. DAXX interacts with phage PhiC31 integrase and inhibits recombination. Nucleic Acids Res. 2006, 34:6298-6304.
13. Chen W., Burgess S., Golling G., Amsterdam A., Hopkins N. High-throughput selection of retrovirus producer cell lines leads to markedly improved efficiency of germ line-transmissible insertions in zebra fish. J. Virol. 2002, 76:2192-2198.
14. Collins R.T., Linker C., Lewis J. MAZe: a tool for mosaic analysis of gene function in zebrafish. Nat. Methods 2010, 7:219-223.
15. Davidson A.E., Balciunas D., Mohn D., Shaffer J., Hermanson S., Sivasubbu S., Cliff M.P., Hackett P.B., Ekker S.C. Efficient gene delivery and gene expression in zebrafish using the Sleeping Beauty transposon. Dev. Biol. 2003, 263:191-202.
16. Davis J., Clay H., Lewis J., Ghori N., Herbomel P., Ramakrishnan L. Real-time visualization of mycobacterium-macrophage interactions leading to initiation of granuloma formation in zebrafish embryos. Immunity 2002, 17:693-702.
17. Dong J., Stuart G.W. Transgene manipulation in zebrafish by using recombinases. Methods Cell Biol. 2004, 77:363-379.
18. Driever W., Solnica-Krezel L., Schier A.F., Neuhauss S.C., Malicki J., Stemple D.L., Stainier D.Y., Zwartkruis F., Abdelilah S., Rangini Z., Belak J., Boggs C. A genetic screen for mutations affecting embryogenesis in zebrafish. Development 1996, 123:37-46.
19. Fan L., Crodian J., Collodi P. Production of zebrafish germline chimeras by using cultured embryonic stem (ES) cells. Methods Cell Biol. 2004, 77:113-119.
20. Fan L., Moon J., Crodian J., Collodi P. Homologous recombination in zebrafish ES cells. Transgenic Res. 2006, 15:21-30.
21. Feng H., Langenau D.M., Madge J.A., Quinkertz A., Gutierrez A., Neuberg D.S., Kanki J.P., Look A.T. Heat-shock induction of T-Cell lymphoma/leukaemia in conditional Cre/lox-regulated transgenic zebrafish. Br. J. Haematol. 2007, 138:169-175.
22. Fetcho J.R., Liu K.S. Zebrafish as a model system for studying neuronal circuits and behavior. Ann. N. Y. Acad. Sci. 1998, 860:333-345.
23. Fish M.P., Groth A.C., Calos M.P., Nusse R. Creating transgenic Drosophila by microinjecting the site-specific phiC31 integrase mRNA and a transgene-containing donor plasmid. Nat. Protoc. 2007, 2:2325-2331.
24. Grabher C., Joly J.S., Wittbrodt J. Highly efficient zebrafish transgenesis mediated by the meganuclease I-SceI. Methods Cell Biol. 2004, 77:381-401.
25. Grabher C., Wittbrodt J. Recent advances in meganuclease-and transposon-mediated transgenesis of Medaka and zebrafish. Methods Mol. Biol. 2008, 461:521-539.
26. Groth A.C., Fish M., Nusse R., Calos M.P. Construction of transgenic Drosophila by using the site-specific integrase from phage phiC31. Genetics 2004, 166:1775-1782.
27. Groth A.C., Olivares E.C., Thyagarajan B., Calos M.P. A phage integrase directs efficient site-specific integration in human cells. Proc. Natl. Acad. Sci. U. S. A. 2000, 97:5995-6000.
28. Haffter P., Granato M., Brand M., Mullins M.C., Hammerschmidt M., Kane D.A., Odenthal J., van Eeden F.J., Jiang Y.J., Heisenberg C.P., Kelsh R.N., Furutani-Seiki M., Vogelsang E., Beuchle D., Schach U., Fabian C., Nusslein-Volhard C. The identification of genes with unique and essential functions in the development of the zebrafish, Danio Rerio. Development 1996, 123:1-36.
29. Hans S., Kaslin J., Freudenreich D., Brand M. Temporally-controlled site-specific recombination in zebrafish. PLoS ONE 2009, 4:e4640.
30. Hesselson D., Anderson R.M., Beinat M., Stainier D.Y. Distinct populations of quiescent and proliferative pancreatic beta-cells identified by HOTcre mediated labeling. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:14896-14901.
31. Huang J., Zhou W., Dong W., Watson A.M., Hong Y. From the cover: directed, efficient, and versatile modifications of the Drosophila genome by genomic engineering. Proc. Natl. Acad. Sci. U. S. A. 2009, 106:8284-8289.
32. Jopling C., Sleep E., Raya M., Marti M., Raya A., Belmonte J.C. Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation. Nature 2010, 464:606-609.
33. Kawakami K., Takeda H., Kawakami N., Kobayashi M., Matsuda N., Mishina M. A transposon-mediated gene trap approach identifies developmentally regulated genes in zebrafish. Dev. Cell. 2004, 7:133-144.
34. Keravala A., Lee S., Thyagarajan B., Olivares E.C., Gabrovsky V.E., Woodard L.E., Calos M.P. Mutational derivatives of PhiC31 integrase with increased efficiency and specificity. Mol. Ther. 2009, 17:112-120.
35. Khan M.S., Khalid A.M., Malik K.A. Phage phiC31 integrase: a new tool in plastid genome engineering. Trends Plant Sci. 2005, 10:1-3.
36. Kikuchi K., Holdway J.E., Werdich A.A., Anderson R.M., Fang Y., Egnaczyk G.F., Evans T., Macrae C.A., Stainier D.Y., Poss K.D. Primary contribution to zebrafish heart regeneration by gata4(+) cardiomyocytes. Nature 2010, 464:601-605.
37. Kishi S., Uchiyama J., Baughman A.M., Goto T., Lin M.C., Tsai S.B. The zebrafish as a vertebrate model of functional aging and very gradual senescence. Exp. Gerontol. 2003, 38:777-786.
38. Kwan K.M., Fujimoto E., Grabher C., Mangum B.D., Hardy M.E., Campbell D.S., Parant J.M., Yost H.J., Kanki J.P., Chien C.B. The Tol2kit: a multisite gateway-based construction kit for Tol2 transposon transgenesis constructs. Dev. Dyn. 2007, 236:3088-3099.
39. Langenau D.M., Feng H., Berghmans S., Kanki J.P., Kutok J.L., Look A.T. Cre/lox-regulated transgenic zebrafish model with conditional Myc-induced T cell acute lymphoblastic leukemia. Proc. Natl. Acad. Sci. U. S. A. 2005, 102:6068-6073.
40. Lister J.A. Transgene excision in zebrafish using the phiC31 integrase. Genesis 2010, 48:137-143.
41. Lister J.A., Close J., Raible D.W. Duplicate Mitf genes in zebrafish: complementary expression and conservation of melanogenic potential. Dev. Biol. 2001, 237:333-344.
42. Liu J., Skjorringe T., Gjetting T., Jensen T.G. PhiC31 integrase induces a DNA damage response and chromosomal rearrangements in human adult fibroblasts. BMC Biotechnol. 2009, 9:31.
43. Liu W.Y., Wang Y., Qin Y., Wang Y.P., Zhu Z.Y. Site-directed gene integration in transgenic zebrafish mediated by Cre recombinase using a combination of mutant Lox sites. Mar. Biotechnol. (NY) 2007, 9:420-428.
44. Loonstra A., Vooijs M., Beverloo H.B., Allak B.A., van Drunen E., Kanaar R., Berns A., Jonkers J. Growth inhibition and DNA damage induced by Cre recombinase in mammalian cells. Proc. Natl. Acad. Sci. U. S. A. 2001, 98:9209-9214.
45. Lu J., Maddison L.A., Chen W. PhiC31 integrase induces efficient site-specific excision in zebrafish. Transgenic Res. 2010, 20:183-189.
46. Lutz K.A., Corneille S., Azhagiri A.K., Svab Z., Maliga P. A novel approach to plastid transformation utilizes the phiC31 phage integrase. Plant J. 2004, 37:906-913.
47. Nasevicius A., Ekker S. Effective targeted gene 'Knockdown' in zebrafish. Nat. Genet. 2000, 216-220.
48. Pan X., Wan H., Chia W., Tong Y., Gong Z. Demonstration of site-directed recombination in transgenic zebrafish using the Cre/loxP system. Transgenic Res. 2005, 14:217-223.
49. Raymond C.S., Soriano P. High-efficiency FLP and PhiC31 site-specific recombination in mammalian cells. PLoS ONE 2007, 2:e162.
50. Rubtsova M., Kempe K., Gils A., Ismagul A., Weyen J., Gils M. Expression of active streptomyces phage phiC31 integrase in transgenic wheat plants. Plant Cell Rep. 2008, 27:1821-1831.
51. Schmidt E.E., Taylor D.S., Prigge J.R., Barnett S., Capecchi M.R. Illegitimate Cre-dependent chromosome rearrangements in transgenic mouse spermatids. Proc. Natl. Acad. Sci. U. S. A. 2000, 97:13702-13707.
52. Seok S.H., Na Y.R., Han J.H., Kim T.H., Jung H., Lee B.H., Emelyanov A., Parinov S., Park J.H. Cre/loxP-regulated transgenic zebrafish model for neural progenitor-specific oncogenic Kras expression. Cancer. Sci. 2010, 101:149-154.
53. Sharma N., Moldt B., Dalsgaard T., Jensen T.G., Mikkelsen J.G. Regulated gene insertion by steroid-induced PhiC31 integrase. Nucleic Acids Res. 2008, 36:e67.
54. Smith M.C., Brown W.R., McEwan A.R., Rowley P.A. Site-specific recombination by phiC31 integrase and other large serine recombinases. Biochem. Soc. Trans. 2010, 38:388-394.
55. Thomson J.G., Chan R., Thilmony R., Yau Y.Y., Ow D.W. PhiC31 recombination system demonstrates heritable germinal transmission of site-specific excision from the Arabidopsis genome. BMC Biotechnol. 2010, 10:17.
56. Thorpe H.M., Smith M.C. In vitro site-specific integration of bacteriophage DNA catalyzed by a recombinase of the resolvase/invertase family. Proc. Natl. Acad. Sci. U. S. A. 1998, 95:5505-5510.
57. Thummel R., Burket C.T., Brewer J.L., Sarras M.P., Li L., Perry M., McDermott J.P., Sauer B., Hyde D.R., Godwin A.R. Cre-mediated site-specific recombination in zebrafish embryos. Dev. Dyn. 2005, 233:1366-1377.
58. Thyagarajan B., Olivares E.C., Hollis R.P., Ginsburg D.S., Calos M.P. Site-specific genomic integration in mammalian cells mediated by phage phiC31 integrase. Mol. Cell. Biol. 2001, 21:3926-3934.
59. Wang B.Y., Xu G.L., Zhou C.H., Tian L., Xue J.L., Chen J.Z., Jia W. PhiC31 integrase interacts with TTRAP and inhibits NFkappaB activation. Mol. Biol. Rep. 2010, 37:2809-2816.
60. Wang L., Zhang Y., Zhou T., Fu Y.F., Du T.T., Jin Y., Chen Y., Ren C.G., Peng X.L., Deng M., Liu T.X. Functional characterization of Lmo2-Cre transgenic zebrafish. Dev. Dyn. 2008, 237:2139-2146.
61. Yoshikawa S., Kawakami K., Zhao X.C. G2R Cre reporter transgenic zebrafish. Dev. Dyn. 2008, 237:2460-2465.