Fish transposons and their potential use in aquaculture

Journal of Biotechnology

Volumn 123, Issue 4, 2006, Pages 397-412

  Tafalla, C ^a   Estepa, A ^b   Coll, J M ^a  

^a INIA   (Spain)

^b MIGUEL HERNÁNDEZ UNIVERSITY   (Spain)

Author keywords

Aquaculture; DNA vaccination; Fish transposons; Repetitive DNA; Sleeping beauty

Indexed keywords

CELLS; DNA; FISHERIES; GENES; GENETIC ENGINEERING; GROWTH KINETICS; VACCINES;

DNA VACCINATION; FISH TRANSPOSONS; REPETITIVE DNA; SLEEPING BEAUTY; TRANSPOSON ELEMENTS (TES);

AQUACULTURE;

REPETITIVE DNA; RNA;

AQUACULTURE; DNA TRANSPOSITION; FISH; GENE; GENE IDENTIFICATION; GENOME; IMMUNIZATION; LONG INTERSPERSED REPEAT; NONHUMAN; NUCLEOTIDE SEQUENCE; ORYZIAS; PRIORITY JOURNAL; RETROPOSON; REVIEW; SHORT INTERSPERSED REPEAT; TRANSGENIC ANIMAL; TRANSPOSON; VACCINATION;

ANIMALS; ANIMALS, GENETICALLY MODIFIED; AQUACULTURE; DNA TRANSPOSABLE ELEMENTS; DNA-BINDING PROTEINS; GENE DOSAGE; GENE EXPRESSION REGULATION; LONG INTERSPERSED NUCLEOTIDE ELEMENTS; SHORT INTERSPERSED NUCLEOTIDE ELEMENTS; SPECIES SPECIFICITY; TRANSPOSASES;

FISHES; GENETIC ENGINEERING; GROWTH RATE; NUCLEIC ACIDS;

ANIMALIA; MAMMALIA; ORYZIAS; PISCES; SALMONIDAE; VERTEBRATA;

EID: 33646672661     PISSN: 01681656     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2005.12.019     Document Type: Review

References (101)

1. Balciunas D., Davidson A.E., Sivasubbu S., Hermanson S.B., Welle Z., and Ekker S.C. Enhancer trapping in zebrafish using the sleeping beauty transposon. BMC Genomics 5 (2004) 62-63
2. Britten R.J., and Kohne D.E. Repeated sequences in DNA. Science 161 (1968) 529-540
3. Capriglione T., Odierna G., Caputo V., Canapa A., and Olmo E. Characterization of a Tc1-like transposon in the Antartic ice-fish, Chionodraco hamatus. Gene 295 (2002) 193-198
4. Clark K.J., Geurts A.M., Bell J.B., and Hackett P. Transposon vectors for gene-trap insertional mutagenesis in vertebrates. Genesis 39 (2004) 225-233
5. Coll J.M. El transposon SB de salmonidos como vector para transferencia de genes en vertebrados. Investigaciones Agrarias 16 (2001) 237-244
6. Collier L.S., Carlson C.M., Ravimohan S., Dupuy A.J., and Largaespada D.A. Cancer gene discovery in solid tumours using transposon-based somatic mutagenesis in the mouse. Nature 436 (2005) 272-276
7. Collier L.S., Carlson C.M., Ravimohan S., Dupuy A.J., and Largaespada D.A. Mammalian mutagenesis using a highly mobile somatic Sleeping Beauty transposon system. Nature 436 (2005) 221-226
8. Cui Z., Geurts A.M., Liu G., Kaufman D., and Hackett P.B. Structure-function analysis of the inverted terminal repeats of the sleeping beauty transposon. J. Mol. Biol. 318 (2002) 1221-1235
9. Davidson A.E., Balciunas D., Mohn D., Shaffer J., Hermanson S., Sivasubbu S., Cliff M.P., Hackett P.B., and Ekker C. Efficient gene delivery and gene expression in zebrafish using the sleeping beauty transposon. Dev. Biol. 263 (2003) 191-202
10. Dupuy A.J., Akagi K., Largaespada D.A., Copeland N.G., and Jenkins N.A. Cancer biology: Sleeping Beauty awakens. Nature 436 (2005) 184-186
11. Dupuy A.J., Clark K., Carlson C.M., Fritz S., Davidson A.E., Markley K.M., Finley K., Fletcher C.F., Ekker S.C., Hackett P.B., Hom S., and Largaespeda D.A. Mammalian germ-line transgenesis by transposition. Proc. Natl. Acad. Sci. U.S.A. 99 (2002) 4495-4499
12. Essner J.J., McIvor R.S., and Hackett P.B. Awakening gene therapy with sleeping beauty transposons. Curr. Opin. Pharmacol. 5 (2005) 513-519
13. Essner J.J., McIvor R.S., and Hackett P.B. Cancer gene discovery in solid tumours using transposon-based somatic mutagenesis in the mouse. Curr. Opin. Pharmacol. 436 (2005) 272-276
14. Fernandez-Alonso M., Rocha A., and Coll J.M. DNA vaccination by immersion and ultrasound to trout viral haemorrhagic septicaemia virus. Vaccine 19 (2001) 3067-3075
15. Feschotte C. Merlin, a new superfamily of DNA transposons identified in deiverse animal genomes and related to bacterial IS1016 insertion sequences. Mol. Biol. Evol. 21 (2004) 1769-1780
16. Fischer S.E., Wienholds E., and Plasterk R.H. Regulated transposition of a fish transposon in the mouse germ line. Proc. Natl. Acad. Sci. U.S.A. 98 (2001) 6759-6764
17. Garver, K.A., Conway, C.M., Elliot, D.G., Kurath, G., 2005. Analysis of DNA-vaccinated fish reveals viral antigen in muscle, kidney and thymus and transient histopathological changes, Mar. Biotechnol.
18. Geurts A.M., Yang Y., Clark K.J., Liu G., Cui Z., Dupuy A.J., Bell J.B., Largaespada D.A., and Hackett P.B. Gene transfer into genomes of human cells by the sleeping beauty transposon system. Mol. Ther. 8 (2003) 108-117
19. Gollin G., Amsteam A., Sun Z., Antonelly A., Nissen R.M., and Hopkins N. Insertional mutagenesis in zebrafish rapidly identifies genes essential for early vertebrate development. Nat. Genet. 31 (2002) 135-140
20. Goodier J.L., and Davidson S.D. Tc1 transposon-like sequences are widely distributed in salmonids. J. Mol. Biol. 241 (1994) 26-34
21. Gottgens B., Barton L.M., Grafham D., Vaudin M., and Green A.R. Tdr2, anew zebrafish transposon of the Tc1 family. Gene 239 (1999) 373-379
22. Grabher C., Henrich T., Sasado T., Arenz A., Wittbrodt J., and Furutani-Seiki M. Transposon-mediated enhancer trapping in medaka. Gene 322 (2003) 57-66
23. Hackett, P.B., Alvarez, M.C., 2000. The molecular genetics of transgenic fish. Recent advances in Marine Biotechnology. In: Fingerman, M., Nagabhushanam, R. (Eds.), Aquaculture. Part B Fishes 4, pp. 77-145.
24. Hammer S.E., Strehl S., and Hageman S. Homologs of Drosophila P transposons were mobile in zebrafish but have been domesticated in a common ancestor of chicken and human. Mol. Biol. Evol. 22 (2005) 833-844
25. Heierhorst J., Lederis K., and Richter D. Presence of a member of the Tc1-like transposon family from nematodes and Drosophila within the vasotocin gene of a primitive vertebrate, the Pacific hagfish Eptatretis stouti. Proc. Natl. Acad. Sci. U.S.A. 89 (1992) 6798-6802
26. Henikoff J. Detection of Caenorhabditis transposon homologs in diverse organisms. N. Biol. 4 (1992) 382-388
27. Horie K., Yusa K., Yae K., Odajima J., Fisher S.E., Keng V.W., Hayakawa T., Mizuno A., Kondoh G., Ijiri T., Matsuda Y., Plasterk R.H., and Takeda J. Characterization of sleeping beauty transposition and its application to genetic screening in mice. Mol. Cell Biol. 23 (2003) 9189-9207
28. Hronek B.W., Meagher A., Rovnak J., and Quackenbush S.L. Identification and characterization of cis-acting elements residing in the Walleye dermal sarcoma virus promoter. J. Virol. 78 (2004) 7590-7601
29. Iida A., Tachibana A., Hamada S., Hori H., and Koga A. Low transpsotion frequency of the medaka fish Tol2 element may be due to extranuclear localization of its transposase. Genes Genet. Syst. 79 (2004) 119-124
30. Ivics Z., and Izsvak Z. Transposable elements for transgenesis and insertional mutagenesis in vertebrates. A contemporary review of experimental strategies. Meth. Mol. Biol. 260 (2002) 255-276
31. Ivics Z., Izsvak Z., and Hackett P.B. Repeated sequence elements in zebrafish and their use in molecular genetic studies. Zebrafish Sci. Monitor 3 (1996). http:www//zfin.org/zfinfo/monitor/vol3.6/3.html http:www//zfin.org/zfinfo/monitor/vol3.6/3.html
32. Ivics Z., Izsvak Z., and Hackett P.B. Molecular reconstruction of sleeping beauty, a Tc1-like transposon system from fish and its transposition in human cells. Cell 91 (1997) 501-510
33. Ivics Z., Izsvak Z., Minter A., and Hackett P.B. Identification of functional domains and evolution of Tc1-like transposable elements. Proc. Natl. Acad. Sci. U.S.A. 93 (1996) 5008-5013
34. Ivics Z., Kaufman C.D., Zayed H., Miskey C., Wallsko O., and Izsvak Z. The sleeping beauty transposable element: evolution, regulation and genetic applications. Curr. Issues Mol. Biol. 6 (2004) 43-56
35. Izsvak Z., and Ivics Z. Sleeping beauty transposition: biology and applications for molecular therapy. Mol. Ther. 9 (2003) 147-156
36. Izsvak Z., Ivics Z., and Hackett P.B. Characterization of a Tc1-like transposable element in zebrafish (Danio rerio). Mol. Gen. Genet. 247 (1995) 312-322
37. Izsvak Z., Ivics Z., and Plasterk R.H. Sleeping beauty, a wide host-range transposon vector for genetic transformation in vertebrates. J. Mol. Biol. 302 (2000) 93-102
38. Izsvak Z., Ivics Z., Shimoda N., Mohn D., Okamoto H., and Hackett P.B. Short inverted-repeat transposable elements in teleost fish and implications for a mechanism of their amplification. J. Mol. Evol. 48 (1999) 13-21
39. Izsvak Z., Khare D., Behlke J., Heinemann U., Plasterk R.H., and Ivics Z. Involvement of a bifunctional, paired like DNA-binding domain and a transpositional enhancer in sleeping beauty transposition. J. Biol. Chem. 277 (2002) 34581-34588
40. Izsvak Z., Stuwe E.E., Fuiedler D., Katzer A., Jeggo P.A., and Ivics Z. Healing the wounds inflicted by sleeping beauty transposition by double-strand break repair in mammalian somatic cells. Mol. Cell 13 (2004) 279-290
41. Kapitonov V.V., and Jurka J. Herbinger transposons and an ancient HARB11 gene derived from a transposase. DNA Cell Biol. 23 (2004) 311-324
42. Karsi A., Moav B., Hackett P., and Liu Z. Effects of insert size on transposition efficiency of the sleeping beauty transposon in mouse cells. Mar. Biotechnol. (NY) 3 (2001) 241-245
43. Kawakami K., Imanaka K., Itoh M., and Taira M. Excision of the Tol2 transposable element of the medaka fish Oryzias latipes in Xenopus laevis and Xenopus tropiclis. Gene 338 (2004) 93-98
44. Kawakami K., and Noda T. Transposition of the Tol2 elelment, an Ac-like element from the Japanese medaka fish Oryzias latipes, in mouse embryonic stem cells. Genetics 166 (2004) 895-899
45. Kawakami K., Shima A., and Kawakami N. Identification of a functional transposase of the Tol2 element, an Ac-like element from the Japanese medaka fish, and its transposition in the zebrafish germ lineage. Proc. Natl. Acad. Sci. U.S.A. 97 (2000) 11403-11408
46. Kawakami K., Takeda H., Kawakami N., Kobayasi M., Matsuda N., and Mishina M. A transposon-mediated gene trap approach identifies developmental regulated genes in zebrafish. Dev. Cell 7 (2004) 133-144
47. Kazazian Jr. H.H. Mobile elements: drivers of genome evolution. Science 303 (2004) 1626-1632
48. Keng V.W., Yae K., Hayakawa T., Mizuno S., Uno Y., Yusa K., Kokubu C., Kinoshita T., Akagi K., Jenkins N.A., Copeland N.G., Horie K., and Takeda J. Region-specific saturation germline mutagenesis in mice using the Sleeping Beauty transposon system. Nat. Meth. 2 (2005) 763-769
49. Kido Y., Aono M., Yamaki T., Matsumoto K., Murata S., Saneyoshi M., and Okada N. Shaping and reshaping of salmonid genomes by amplification of tRNA-derived retroposons during evolution. Proc. Natl. Acad. Sci. U.S.A. 88 (1991) 2326-2330
50. Kido Y., Himberg M., Takasaki N., and Okada N. Amplification of distinct subfamilies of short interdispersed elements during evolution of the salmonidae. J. Mol. Biol. 241 (1994) 633-644
51. Koga A. Transposition mechanisms and biotechnology applications of the medaka fish Tol2 transposable element. Adv. Biophys. 38 (2004) 161-180
52. Koga A., and Hori H. Homogeneity in the structure of the medaka fish transposable element Tol2. Genet. Res. 73 (1999) 7-14
53. Koga A., and Hori H. Detection of de novo insertion of the medaka fish transposable element Tol2. Genetics 156 (2000) 1243-1247
54. Koga A., Suzuki M., Inagaki H., Bessho Y., and Hori H. Transposable element in fish. Nature 383 (1996) 30
55. Lam W.L., Lee T.S., and Gilbert W. Active transposition in zebrafish. Proc. Natl. Acad. Sci. U.S.A. 93 (1996) 10870-10875
56. Lampe D.J., Churchill M.E.A., and Robertson H.M. A purified mariner transposase is sufficient to mediate transposition in vitro. EMBO J. 15 (1996) 5470-5479
57. Leaver M.J. A family of Tc1-like transposons from the genomes of fishes and frogs: evidence for horizontal transmission. Gene 271 (2001) 203-214
58. Linney E., Hardison N.L., Lonze B.E., Lyons S., and DiNapoli L. Transgene expression in zebrafish: a comparison of retroviral vector and DNA injection approaches. Dev. Biol. 213 (1999) 207-216
59. Liu G., Aronovich E.L., Cui Z., Whitley C.B., and Hackett P.B. Excision of sleeping beauty transposons: parameters and applications to gene therapy. J. Gene Med. 6 (2004) 574-583
60. Lorenzen N., and LaPatra S.E. DNA vaccines for aquacultured fish. Rev. Sci. Technol. Office Int. Epizooties 24 (2005) 201-213
61. Lorenzen N., Lorenzen E., Eoner-jensen K., Heppell J., Wu T., and Davis H. Protective immunity to VHS in rainbow trout (Oncorhynchus mykiss, Walbaum) following DNA vaccination. Fish Shellfish Immunol. 8 (1998) 261-270
62. Masuda K., Yamamoto S., Endoh M., and Kaneda Y. Transposon-independent increase of transcription by the sleeping beauty transposase. Biochem. Biophys. Res. Commun. 317 (2004) 796-800
63. Matsumoto K., Murakami K., and Okada N. Pseudouridylic modification of a 6S RNA transcribed in vitro from highly repetitive and transcribable (Hirt) sequences of salmon total DNA. Biochem. Biophys. Res. Commun. 124 (1984) 514-522
64. Matsumoto K., Murakami K., and Okada N. Gene for lysine tRNA1 may be a progenitor of the highly repetitive and transcribable sequences present in the salmon genome. Proc. Natl. Acad. Sci. U.S.A. 83 (1986) 3156-3160
65. Mikkelsen J.G., Yant S.R., Meuse L., Huang Z., Xu H., and Kay M.A. Helpar-independent sleeping beauty transposon-transposase vectors for efficient nonviral gene delivery and persistent gene expression in vivo. Mol. Ther. 8 (2003) 654-665
66. Miskey C., Izsvak Z., Kawakami K., and Ivics Z. DNA transposons invertebrate functional genomics. Cell Mol. Life Sci. 62 (2005) 629-641
67. Miskey C., Izsvak Z., Plasterk R.H., and Ivics Z. The frog prince: a reconstructed transposon from Rana pipiens with high transpositional activity in vertebrate cells. Nucl. Acids Res. 31 (2003) 6873
68. Ohshima K., and Okada N. SINEs and LINEs: symbionts of eukaryotic genomes with a common tail. Cytogenet. Genome Res. 110 (2005) 475-490
69. Plasterk R.H.A., Izsvak Z., and Ivics Z. Resident Alliens. The Tc1/mariner superfamily of transposable elements. TIG 15 (1999) 326-332
70. Poulet F.M., Bowser P.R., and Casey J.W. Retroviruses of fish, reptiles and molluscs. In: Levy J.A. (Ed). The Retroviridae vol. 3 (1994), Plenum Press, NY 1-38
71. Purcell M.K., Kurath G., Garver K.A., Herwig R.P., and Winton J.R. Quantitative expression profiling of imune response genes in rainbow trout following infectious haematopoietic necrosis virus (IHNV) infection or DNA vaccination. Fish Shellfish Immunol. 17 (2004) 447-462
72. Radice A.D., Bugaj B., Fitch D.H., and Emmons S.W. Widespread occurrence of the Tc1 transposon family: Tc1-like transposons from teleost fish. Mol. Gen. Genet. 244 (1994) 606-612
73. Raz E., vanLuenen H.G.A.M., Schaerringer B., Plasterk R.H.A., and Driever W. Transposition of the nematode Caenorhabditis elegans Tc3 element in the zebrafish Danio rerio. Curr. Biol. 8 (1997) 82-88
74. Reed K.M. Tc1-like transposable elements in the genome of lake trout (Salvelinus namaycush). Mar. Biotechnol. 1 (1999) 60-67
75. Rocha A., Ruiz S., and Coll J.M. Improvement of transfection efficiency of epithelioma papulosum cyprini carp cells by modification of their cell cycle and using an optimal promoter. Mar. Biotechnol. 6 (2005) 401-410
76. Rocha A., Ruiz S., Estepa A., and Coll J.M. Fish as biofactories: inducible genetic systems and gene targeting. Spanish J. Agric. Res. 1 (2003) 3-11
77. Rocha A., Ruiz S., Estepa A., and Coll J.M. Application of inducible and targeted gene-strategies to produce transgenic fish: a review. Mar. Biotechnol. 6 (2004) 118-127
78. Sarkar A., Sim C., Hong Y.S., Hogan J.R., Fraser M.J., Robertson H.M., and Collins F.H. Molecular evolutionary analysis of the widespread piggyBac transposon family and related "domesticated" sequences. Mol. Genet. Genomics 270 (2003) 173-180
79. Shen C.H., and Steiner L.A. Genome structure and thymic expression of an endogenous retrovirus in zebrafish. J. Virol. 78 (2004) 899-911
80. Sherratt D.J. Mobile Genetic Elements vol. 1 (1995), IRL Press, Oxford University Press, Oxford, United Kingdom pp. 1-179
81. Shimoda N., Chevrette M., Ekker M., Kikuchi Y., Hotta Y., and Okamoto H. Mermaid: a family of short interdispersed repetitive elements widespread in vertebrates. Biochem. Biophys. Res. Commun. 220 (1996) 226-232
82. Smit A.F.A., and Riggs A.D. MIRs are classic, tRNA-derived SINEs that amplified before the mammalian radiation. Nucl. Acids Res. 23 (1995) 98-102
83. Stuart G.W., Vielkind J.R., McMurray J.V., and Westerfield M. Stable lines of transgenic zebrafish exhibit reproducible patterns of transgene expression. Development 109 (1990) 577-584
84. Tafalla, C., Estepa, A., Coll, J.M. Development and possible applications to aquaculture of Sleeping Beauty, the first active vertebrate transposon obtained from fish. Aquaculture, submitted for publication.
85. Takahashi K., Terai Y., Nishida M., and Okada N. A novel family of short interspersed repetitive elements (SINEs) from cichlids: the patterns of inserttion of SINEs at orthologous loci support the proposed monophyly of four major groups of cichlid fishes in lake Tanganyika. Mol. Biol. Evol. 15 (1998) 391-407
86. Takano T., Iwahori A., Hirono I., and Aoki T. Development of a DNA vaccine against hirame rhabdovirus and analysis of the expression of immune-related genes after vaccination. Fish Shellfish Immunol. 17 (2004) 367-374
87. Terai Y., Takahashi K., and Okada N. SINE cousins: the 3′-end tails of the two oldest and distantly related families of SINEs are descendent from the 3′ ends of LINEs with the same genealogical origin. Mol. Biol. Evol. 15 (1998) 1460-1471
88. Thermes V., Grabher C., Ristoratore F., Bourrat F., Choulika A., Wittbrodt J., and Joly J.S. I-SceI meganuclease mediates highly efficient transgenesis in fish. Mech. Dev. 118 (2002) 91-98
89. Traxler G.S., Anderson E., LaPatra S.E., Richard J., Shewmaker B., and Kurath G. Naked DNA vaccination of Atlantic salmon Salmosalar against IHNV. Dis. Aquatic Organ. 38 (1999) 183-190
90. Tsutsumi M., Koga A., and Hori H. Long and short mRNAs transcribed from the medaka fish transposon Tol2 respectively exert positive and negative effects on excision. Genet. Res. Camb. 82 (2003) 33-40
91. Wadman S.A., Clark K.J., and Hackett P.B. Fishing for answers with transposons. Mar. Biotechnol. 7 (2005) 135-141
92. Westerfield M., Wegner J., Jegalian B.G., DeRobertis E.M., and Puschel A.W. Specific activation of mammalian Hox promoters in mosaic transgenic zebrafish. Genes Dev. 6 (1992) 591-598
93. Winkfein R.J., Moir R.D., Krawetz S.A., Blanco J., States J.C., and Dixon G.H. A new family of repetitive retroposon-like sequences in the genomes of the rainbow trout. Eur. J. Biochem. 176 (1988) 255-264
94. Yant S.R., and Kay M.A. Nonhomologous-end-joining factors regulate DNA repair fidelity during sleeping beauty element transposition in mammalian cells. Mol. Cell. Biol. 23 (2003) 8505-8518
95. Yant S.R., Meuse L., Chiu W., Ivics Z., Izsvak Z., and Kay M.A. Somatic integration and longterm transgene expression in normal and haemophilic mice using a DNA transposon system. Nat. Genet. 25 (2000) 35-41
96. Yant S.R., Park J., Huang Y., Mikkelsen J.G., and Kay M.A. Mutational analysis of the N-terminal DNA-binding domain of sleeping beauty transposase: critical residues for DNA binding and hyperactivity in mammalian cells. Mol. Cell Biol. 24 (2004) 9239-9247
97. Yoshida M., Yagi T., Furuta Y., Takayanagi K., Kominami R., Takeda N., Tokunaga T., Chiba J., Ikawa Y., and Aizawa S. A new strategy of gene trapping in ES cells using RACE. Transgenic Res. 4 (1995) 277-287
98. Yusa K., Takeda J., and Horie K. Enhancement of sleeping beauty transposition by CpG methylation: possible role of heterochromatin formation. Mol. Cell Biol. 24 (2004) 4004-4018
99. Zambrowicz B.P., Friedrich G.A., Buxton E.C., Lilleberg S.L., Person C., and Sands A.T. Disruption and sequence identification of 2000 genes in mouse embryonic cells. Nature 392 (1998) 608-611
100. Zayed H., Izsvak Z., Khare D., Heinemann U., and Ivics Z. The DNA-bending protein HMGB1 is a cellular cofactor of sleeping beauty transposition. Nucl. Acids Res. 31 (2003) 2313-2322
101. Zayed H., Izsvak Z., Walisko O., and Ivics Z. Development of hyperactive sleeping beauty transposon vectors by mutational analysis. Mol. Ther. 9 (2004) 292-304