Molecular evolution of the second ancient human mariner transposon, Hsmar2, illustrates patterns of neutral evolution in the human genome lineage

Gene

Volumn 205, Issue 1-2, 1997, Pages 219-228

  Robertson, Hugh M ^a   Martos, Rebecca ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

Consensus sequence; D,D35E motif; DNA sequence analysis; mariner transposase; Phylogenetic analysis; Star phylogeny

Indexed keywords

TRANSPOSASE;

CONFERENCE PAPER; CONSENSUS SEQUENCE; CPG ISLAND; EVOLUTION; GENE DELETION; GENE INSERTION; GENE MUTATION; GENE NUMBER; HUMAN; HUMAN GENETICS; NONHUMAN; PRIORITY JOURNAL; SEQUENCE HOMOLOGY; TRANSPOSON;

AMINO ACID SEQUENCE; BASE SEQUENCE; DNA TRANSPOSABLE ELEMENTS; DNA, COMPLEMENTARY; EVOLUTION, MOLECULAR; GENOME, HUMAN; HUMANS; MOLECULAR SEQUENCE DATA; MUTAGENESIS, INSERTIONAL; PHYLOGENY; SEQUENCE DELETION;

EID: 0031593239     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(97)00471-X     Document Type: Conference Paper

References (37)

1. Altschul, S.F., Gish, W., Miller, W., Myers, E.W., Lipman, D.J., 1990. Basic local alignment search tool. J. Mol. Biol. 215, 403-410.
2. Auge-Gouillou, C., Bigot, Y., Pollet, N., Hamelin, M.-H., Meunier-Rotival, M., Periquet, G., 1995. Human and other mammalian genomes contain transposons of the mariner family. FEBS Lett. 368, 541-546.
3. Britten, R.J., 1994. Evidence that most human Alu sequences were inserted in a process that ceased about 30 million years ago. Proc. Natl. Acad. Sci. USA 91, 6148-6150.
4. Britten, R.J., Baron, W.F., Stout, D.B., Davidson, E.H., 1988. Sources and evolution of human Alu repeated sequences. Proc. Natl. Acad. Sci. USA 85, 4770-4774.
5. Doak, T.G., Doerder, F.P., Jahn, C.L., Herrick, G., 1994. A proposed superfamily of transposase-related genes: new members in transposon-like elements of ciliated protozoa and a common 'D35E' motif. Proc. Natl. Acad. Sci. USA 91, 942-946.
6. Gloor, G.B., Nassif, N.A., Johnson-Schlitz, D.M., Preston, C.R., Engels, W.R., 1991. Targeted gene replacement in Drosophila via P element-induced gap repair. Science 253, 1110-1117.
7. Graur, D., Shuali, Y., Li, W.-H., 1989. Deletions in processed pseudogenes accumulate faster in rodents than in humans. J. Mol. Evol. 28, 279-285.
8. Hartl, D.L., 1989. Transposable element mariner in Drosophila species. In: Berg, D.E., Howe, M.M. (Eds.), Mobile DNA. American Society for Microbiology, Washington, DC, pp. 5531-5536.
9. Hartl, D.L., Lozovskaya, E.R., Nurminsky, D.I., Lohe, A.R., 1997. What restricts the activity of mariner-like transposable elements? Trends Genet. 13, 197-201.
10. Hillier, L., Lennon, G., Becker, M., Bonaldo, M.F., Chiapelli, B., Chissoe, S. et al., 1996. Generation and analysis of 280 000 human expressed sequence tags. Genome Res. 6, 807-828.
11. Kapitonov, V., Jurka, J., 1996. The age of Alu subfamilies. J. Mol. Evol. 42, 59-65.
12. Kiyosawa, H., Chance, P.F., 1996. Primate origin of the CMT1A-REP repeat and analysis of a putative transposon-associated recombinational hotspot. Hum. Mol. Genet. 5, 745-753.
13. Kumar, S., Tamura, K., Nei, M., 1993. MEGA: Molecular Evolutionary Genetics Analysis, v1.0. The Pennsylvania State University, University Park, PA 16802.
14. Lampe, D.J., Churchill, M.E.A., Robertson, H.M., 1996. A purified mariner transposase is sufficient to mediate transposition in vitro. EMBO J. 15, 5470-5479.
15. Lohe, A.R., Moriyama, E.N., Lidholm, D.-A., Hartl, D.L., 1994. Horizontal transmission, vertical degeneration, and stochastic loss of mariner-like transposable elements. Mol. Biol. Evol. 12, 62-72.
16. Maddison, W.P., Maddison, D.R., 1993. MacClade, Analysis of Phylogeny and Character Evolution, Version 3. Sinauer Associates, Sunderland, MA.
17. Martin, R.D., 1993. Primate origins: plugging the gaps. Nature 363, 223-234.
18. Morgan, G.T., 1995. Identification in the human genome of mobile elements spread by DNA-mediated transposition. J. Mol. Biol. 254, 1-5.
19. Nei, M., Gojobori, T., 1986. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3, 418-426.
20. Oosumi, T., Belknap, W.R., Garlick, B., 1995. Mariner transposons in humans. Nature 378, 672
21. Petrov, D.A., Hartl, D.L., 1997. Trash DNA is what gets thrown away: high rate of DNA loss in Drosophila. Gene 205, 279-289.
22. Petrov, D.A., Lozovskaya, E.R., Hartl, D.L., 1996. High intrinsic rate of DNA loss in Drosophila. Nature 384, 346-349.
23. Reiter, L.T., Murakami, T., Koeuth, T., Pentao, L., Muzny, D.M., Gibbs, R.A., Lupski, J.R., 1996. A recombination hotspot responsible for two inherited peripheral neuropathies is located near a mariner transposon-like element. Nature Genet. 12, 288-297.
24. Robertson, H.M., 1993. The mariner transposable element is widespread in insects. Nature 362, 241-245.
25. Robertson, H.M., 1995. The Tc1-mariner superfamily of transposons in animals. J. Insect Physiol. 41, 99-105.
26. Robertson, H.M., 1996. Members of the pogo superfamily of DNA-mediated transposons in the human genome. Mol. Gen. Genet. 252, 761-766.
27. Robertson, H.M., 1997. Multiple mariner transposons in flatworms and hydras are related to those of insects. J. Hered. 88, 195-201.
28. Robertson, H.M., Asplund, M.L., 1996. Bmmar1: a basal lineage of the mariner family of transposable elements in the silkworm moth Bombyx mori. Insect Biochem. Mol. Biol. 26, 945-954.
29. Robertson, H.M., Lampe, D.J., 1995. Recent horizontal transfer of a mariner transposable element between Diptera and Neuroptera. Mol. Biol. Evol. 12, 850-862.
30. Robertson, H.M., MacLeod, E.G., 1993. Five major subfamilies of mariner transposable elements in insects, including the Mediterranean fruit fly, and related arthropods. Insect Mol. Biol. 2, 125-139.
31. Robertson, H.M., Soto-Adames, F.N., Walden, K.K.O., Avancini, R.M.P., Lampe, D.J., 1997. The mariner transposons of animals: horizontally jumping genes. In: Syvanen, M., Kado, C. (Eds.), Horizontal Gene Transfer. Chapman and Hall, London, in press.
32. Robertson, H.M., Zumpano, K.L., 1997. Molecular evolution of an ancient mariner transposon, Hsmarl, in the human genome. Gene 205, 203-217.
33. Robertson, H.M., Zumpano, K.L., Lohe, A.R., Hartl, D.L., 1996. Reconstructing the ancient mariners of humans. Nature Genet. 12, 360-361.
34. Saitou, N., Ueda, S., 1994. Evolutionary rates of insertion and deletion in noncoding nucleotide sequences of primates. Mol. Biol. Evol. 11, 504-512.
35. Smit, A.F.A., 1996. The origin of interspersed repeats in the human genome. Cur. Opin. Genet. Dev. 6, 743-748.
36. Smit, A.F.A., Riggs, A.D., 1996. Tiggers and other DNA transposon fossils in the human genome. Proc. Natl. Acad. Sci. USA 93, 1443-1448.
37. Swofford, D.L., 1993. PAUP: Phylogenetic Analysis Using Parsimony, Version 3.1.1. Smithsonian Institution, Washington, DC.