Abstract
We have identified a new family of Tc1-like transposons in the zebrafish, Danio rerio. The sequence of a candidate active transposon, deduced from sample Tzf elements, shows limited resemblance to the previously described Tdr1 elements of zebrafish. Both the Tzf and the Tdr elements are extremely abundant in zebrafish. We describe here a general strategy for detecting transposition events in a complex genome and demonstrate its utility by selectively monitoring hundreds of potentially active Tzf copies in the zebrafish genome against a background of other related elements. We have followed members of a zebrafish pedigree, using this two-dimensional transposon display strategy, to identify the first examples of active transposition of such elements in vertebrates.
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- Altschul S. F., Boguski M. S., Gish W., Wootton J. C. Issues in searching molecular sequence databases. Nat Genet. 1994 Feb;6(2):119–129. doi: 10.1038/ng0294-119. [DOI] [PubMed] [Google Scholar]
- Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. Basic local alignment search tool. J Mol Biol. 1990 Oct 5;215(3):403–410. doi: 10.1016/S0022-2836(05)80360-2. [DOI] [PubMed] [Google Scholar]
- Auge-Gouillou C., Bigot Y., Pollet N., Hamelin M. H., Meunier-Rotival M., Periquet G. Human and other mammalian genomes contain transposons of the mariner family. FEBS Lett. 1995 Jul 24;368(3):541–546. doi: 10.1016/0014-5793(95)00735-r. [DOI] [PubMed] [Google Scholar]
- Capy P., David J. R., Hartl D. L. Evolution of the transposable element mariner in the Drosophila melanogaster species group. Genetica. 1992;86(1-3):37–46. doi: 10.1007/BF00133709. [DOI] [PubMed] [Google Scholar]
- Fischer S. G., Lerman L. S. Length-independent separation of DNA restriction fragments in two-dimensional gel electrophoresis. Cell. 1979 Jan;16(1):191–200. doi: 10.1016/0092-8674(79)90200-9. [DOI] [PubMed] [Google Scholar]
- Goodier J. L., Davidson W. S. Tc1 transposon-like sequences are widely distributed in salmonids. J Mol Biol. 1994 Aug 5;241(1):26–34. doi: 10.1006/jmbi.1994.1470. [DOI] [PubMed] [Google Scholar]
- Heierhorst J., Lederis K., 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 Eptatretus stouti. Proc Natl Acad Sci U S A. 1992 Aug 1;89(15):6798–6802. doi: 10.1073/pnas.89.15.6798. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Henikoff S. Detection of Caenorhabditis transposon homologs in diverse organisms. New Biol. 1992 Apr;4(4):382–388. [PubMed] [Google Scholar]
- Higgins D. G., Sharp P. M. CLUSTAL: a package for performing multiple sequence alignment on a microcomputer. Gene. 1988 Dec 15;73(1):237–244. doi: 10.1016/0378-1119(88)90330-7. [DOI] [PubMed] [Google Scholar]
- Ivics Z., Izsvak Z., Minter A., Hackett P. B. Identification of functional domains and evolution of Tc1-like transposable elements. Proc Natl Acad Sci U S A. 1996 May 14;93(10):5008–5013. doi: 10.1073/pnas.93.10.5008. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Izsvák Z., Ivics Z., Hackett P. B. Characterization of a Tc1-like transposable element in zebrafish (Danio rerio). Mol Gen Genet. 1995 May 10;247(3):312–322. doi: 10.1007/BF00293199. [DOI] [PubMed] [Google Scholar]
- Lam W. L., Seo P., Robison K., Virk S., Gilbert W. Discovery of amphibian Tc1-like transposon families. J Mol Biol. 1996 Mar 29;257(2):359–366. doi: 10.1006/jmbi.1996.0168. [DOI] [PubMed] [Google Scholar]
- Morgan G. T. Identification in the human genome of mobile elements spread by DNA-mediated transposition. J Mol Biol. 1995 Nov 17;254(1):1–5. doi: 10.1006/jmbi.1995.0593. [DOI] [PubMed] [Google Scholar]
- Mullins M. C., Hammerschmidt M., Haffter P., Nüsslein-Volhard C. Large-scale mutagenesis in the zebrafish: in search of genes controlling development in a vertebrate. Curr Biol. 1994 Mar 1;4(3):189–202. doi: 10.1016/s0960-9822(00)00048-8. [DOI] [PubMed] [Google Scholar]
- Oosumi T., Belknap W. R., Garlick B. Mariner transposons in humans. Nature. 1995 Dec 14;378(6558):672–672. doi: 10.1038/378672a0. [DOI] [PubMed] [Google Scholar]
- Radice A. D., Bugaj B., Fitch D. H., Emmons S. W. Widespread occurrence of the Tc1 transposon family: Tc1-like transposons from teleost fish. Mol Gen Genet. 1994 Sep 28;244(6):606–612. doi: 10.1007/BF00282750. [DOI] [PubMed] [Google Scholar]
- Reiter L. T., Murakami T., Koeuth T., Pentao L., Muzny D. M., Gibbs R. A., Lupski J. R. A recombination hotspot responsible for two inherited peripheral neuropathies is located near a mariner transposon-like element. Nat Genet. 1996 Mar;12(3):288–297. doi: 10.1038/ng0396-288. [DOI] [PubMed] [Google Scholar]
- Robertson H. M., Lampe D. J. Distribution of transposable elements in arthropods. Annu Rev Entomol. 1995;40:333–357. doi: 10.1146/annurev.en.40.010195.002001. [DOI] [PubMed] [Google Scholar]
- Robertson H. M. The mariner transposable element is widespread in insects. Nature. 1993 Mar 18;362(6417):241–245. doi: 10.1038/362241a0. [DOI] [PubMed] [Google Scholar]
- Robertson H. M., Zumpano K. L., Lohe A. R., Hartl D. L. Reconstructing the ancient mariners of humans. Nat Genet. 1996 Apr;12(4):360–361. doi: 10.1038/ng0496-360. [DOI] [PubMed] [Google Scholar]
- Sidman C. L., Shaffer D. J. Large-scale genomic comparison using two-dimensional DNA gels. Genomics. 1994 Sep 1;23(1):15–22. doi: 10.1006/geno.1994.1453. [DOI] [PubMed] [Google Scholar]
- Smit A. F., Riggs A. D. Tiggers and DNA transposon fossils in the human genome. Proc Natl Acad Sci U S A. 1996 Feb 20;93(4):1443–1448. doi: 10.1073/pnas.93.4.1443. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Smith S. W., Overbeek R., Woese C. R., Gilbert W., Gillevet P. M. The genetic data environment an expandable GUI for multiple sequence analysis. Comput Appl Biosci. 1994 Dec;10(6):671–675. doi: 10.1093/bioinformatics/10.6.671. [DOI] [PubMed] [Google Scholar]
- Uitterlinden A. G., Slagboom P. E., Knook D. L., Vijg J. Two-dimensional DNA fingerprinting of human individuals. Proc Natl Acad Sci U S A. 1989 Apr;86(8):2742–2746. doi: 10.1073/pnas.86.8.2742. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Vos J. C., van Luenen H. G., Plasterk R. H. Characterization of the Caenorhabditis elegans Tc1 transposase in vivo and in vitro. Genes Dev. 1993 Jul;7(7A):1244–1253. doi: 10.1101/gad.7.7a.1244. [DOI] [PubMed] [Google Scholar]
- van Luenen H. G., Colloms S. D., Plasterk R. H. Mobilization of quiet, endogenous Tc3 transposons of Caenorhabditis elegans by forced expression of Tc3 transposase. EMBO J. 1993 Jun;12(6):2513–2520. doi: 10.1002/j.1460-2075.1993.tb05906.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- van Luenen H. G., Colloms S. D., Plasterk R. H. The mechanism of transposition of Tc3 in C. elegans. Cell. 1994 Oct 21;79(2):293–301. doi: 10.1016/0092-8674(94)90198-8. [DOI] [PubMed] [Google Scholar]