LINEs mobilize SINEs in the eel through a shared 3′ sequence

Cell

Volumn 111, Issue 3, 2002, Pages 433-444

  Kajikawa, Masaki ^a   Okada, Norihiro ^a  

^a TOKYO INSTITUTE OF TECHNOLOGY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

RNA DIRECTED DNA POLYMERASE; TELOMERASE;

AMINO ACID SEQUENCE; ARTICLE; ASSAY; CONTROLLED STUDY; EEL; ENZYME ACTIVITY; HELA CELL; HUMAN; HUMAN CELL; LONG INTERSPERSED REPEAT; MULTIGENE FAMILY; MUTATION; OPEN READING FRAME; PRIORITY JOURNAL; PROMOTER REGION; SHORT INTERSPERSED REPEAT;

ANGUILLIFORMES;

EID: 0036849412     PISSN: 00928674     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0092-8674(02)01041-3     Document Type: Article

References (54)

1. Barat C., Lullien V., Schatz O., Keith G., Nugeyre M.T., Gruninger-Leitch F., Barre-Sinoussi F., LeGrice S.F., Darlix J.L. HIV-1 reverse transcriptase specifically interacts with the anticodon domain of its cognate primer tRNA. EMBO J. 8:1989;3279-3285.
2. Boeke J.D. LINEs and Alus - the polyA connection. Nat. Genet. 16:1997;6-7.
3. Boeke J.D., Devine S.E. Yeast retrotransposons. finding a nice quiet neighborhood Cell. 93:1998;1087-1089.
4. Britten R.J., Baron W.F., Stout D.B., Davidson E.H. Sources and evolution of human Alu repeated sequences. Proc. Natl. Acad. Sci. USA. 85:1988;4770-4774.
5. Bryan T.M., Cech T.R. Telomerase and the maintenance of chromosome ends. Curr. Opin. Cell Biol. 11:1999;318-324.
6. Chaboissier M.C., Finnegan D., Bucheton A. Retrotransposition of the I factor, a non-long terminal repeat retrotransposon of Drosophila, generates tandem repeats at the 3′ end. Nucleic Acids Res. 28:2000;2467-2472.
7. Deininger P.L., Batzer M.A. Evolution of retroposons. Evol. Biol. 27:1993;157-196.
8. Eickbush T.H. Transposing without ends. the non-LTR retrotransposable elements New Biol. 4:1992;430-440.
9. Eickbush T.H. Telomerase and retrotransposons. which came first? Science. 277:1997;911-912.
10. Endoh H., Okada N. Total DNA transcription in vitro. a procedure to detect highly repetitive and transcribable sequences with tRNA-like structures Proc. Natl. Acad. Sci. USA. 83:1986;251-255.
11. Esnault C., Maestre J., Heidmann T. Human LINE retrotransposons generate processed pseudogenes. Nat. Genet. 24:2000;363-367.
12. Feng Q., Moran J.V., Kazazian H.H. Jr., Boeke J.D. Human L1 retrotransposon encodes a conserved endonuclease required for retrotransposition. Cell. 87:1996;905-916.
13. Freeman J.D., Goodchild N.L., Mager D.L. A modified indicator gene for selection of retrotransposition events in mammalian cells. Biotechniques. 17:1994;46-52.
14. Gilbert N., Labuda D. Core-sines. eukaryotic short interspersed retroposing elements with common sequence motifs Proc. Natl. Acad. Sci. USA. 96:1999;2869-2874.
15. Goodier J.L., Ostertag E.M., Kazazian H.H. Jr. Transduction of 3′-flanking sequences is common in L1 retrotransposition. Hum. Mol. Genet. 9:2000;653-657.
16. Hattori M., Kuhara S., Takenaka O., Sakaki Y. L1 family of repetitive DNA sequences in primates may be derived from a sequence encoding a reverse transcriptase-related protein. Nature. 321:1986;625-628.
17. Hohjoh H., Singer M.F. Sequence-specific single-strand RNA binding protein encoded by the human LINE-1 retrotransposon. EMBO J. 16:1997;6034-6043.
18. International human genome sequencing consortium Initial sequencing and analysis of the human genome. Nature. 409:2001;860-921.
19. Jurka J. Sequence patterns indicate an enzymatic involvement in integration of mammalian retroposons. Proc. Natl. Acad. Sci. USA. 94:1997;1872-1877.
20. Kajikawa M., Ohshima K., Okada N. Determination of the entire sequence of turtle CR1. the first open reading frame of the turtle CR1 element encodes a protein with a novel zinc finger motif Mol. Biol. Evol. 14:1997;1206-1217.
21. Kazazian H.H. Jr. L1 retrotransposons shape the mammalian genome. Science. 289:2000;1152-1153.
22. Liu X., Gorovsky M.A. Mapping the 5′ and 3′ ends of Tetrahymena thermophila mRNAs using RNA ligase mediated amplification of cDNA ends (RLM-RACE). Nucleic Acids Res. 21:1993;4954-4960.
23. Lovsin N., Gubensek F., Kordis D. Evolutionary dynamics in a novel L2 clade of non-LTR retrotransposons in Deuterostomia. Mol. Biol. Evol. 18:2001;2213-2224.
24. Luan D.D., Eickbush T.H. RNA template requirements for target DNA-primed reverse transcription by the R2 retrotransposable element. Mol. Cell. Biol. 15:1995;3882-3891.
25. Luan D.D., Korman M.H., Jakubczak J.L., Eickbush T.H. Reverse transcription of R2Bm RNA is primed by a nick at the chromosomal target site. a mechanism for non-LTR retrotransposition Cell. 72:1993;595-605.
26. Malik H.S., Burke W.D., Eickbush T.H. The age and evolution of non-LTR retrotransposable elements. Mol. Biol. Evol. 16:1999;793-805.
27. Mathews D.H., Banerjee A.R., Luan D.D., Eickbush T.H., Turner D.H. Secondary structure model of the RNA recognized by the reverse transcriptase from the R2 retrotransposable element. RNA. 3:1997;1-16.
28. Mathews D.H., Sabina J., Zuker M., Turner D.H. Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure. J. Mol. Biol. 288:1999;911-940.
29. McEachern M.J., Krauskopf A., Blackburn E.H. Telomeres and their control. Annu. Rev. Genet. 34:2000;331-358.
30. Moran J.V., Holmes S.E., Naas T.P., DeBerardinis R.J., Boeke J.D., Kazazian H.H. Jr. High frequency retrotransposition in cultured mammalian cells. Cell. 87:1996;917-927.
31. Moran J.V., DeBerardinis R.J., Kazazian H.H. Jr. Exon shuffling by L1 retrotransposition. Science. 283:1999;1530-1534.
32. Nakamura T.M., Cech T.R. Reversing time. origin of telomerase Cell. 92:1998;587-590.
33. Ogiwara I., Miya M., Ohshima K., Okada N. Retropositional parasitism of SINEs on LINEs. identification of SINEs and LINEs in elasmobranchs Mol. Biol. Evol. 16:1999;1238-1250.
34. Ogiwara I., Miya M., Ohshima K., Okada N. V-sines. A new superfamily of vertebrate sines that are widespread in vertebrate genomes and retain a strongly conserved segment within each repetitive unit Genome Res. 12:2002;316-324.
35. Ohshima K., Hamada M., Terai Y., Okada N. The 3′ ends of tRNA-derived short interspersed repetitive elements are derived from the 3′ ends of long interspersed repetitive elements. Mol. Cell. Biol. 16:1996;3756-3764.
36. Okada N. Sines. short interspersed repeated elements of the eukaryotic genome Trends. Ecol. Evol. 6:1991;358-361.
37. Okada N., Ohshima K. Evolution of tRNA-derived SINEs. Maraia R.J. The impact of short interspersed elements (SINEs) on the host genome. 1995;R.G. Landes Company, Austin. 61-79.pp.
38. Okada N., Hamada M. The 3′ ends of tRNA-derived SINEs originated from the 3′ ends of LINEs. a new example from the bovine genome J. Mol. Evol. 44:1997;S52-S56.
39. Okada N., Hamada M., Ogiwara I., Ohshima K. SINEs and LINEs share common 3′ sequences. a review Gene. 205:1997;229-243.
40. Ostertag E.M., Kazazian H.H. Jr. Biology of mammalian L1 retrotransposons. Annu. Rev. Genet. 35:2001;501-538.
41. Peng Y., Mian I.S., Lue N.F. Analysis of telomerase processivity. mechanistic similarity to HIV-1 reverse transcriptase and role in telomere maintenance Mol. Cell. 7:2001;1201-1211.
42. Pickeral O.K., Makalowski W., Boguski M.S., Boeke J.D. Frequent human genomic DNA transduction driven by LINE-1 retrotransposition. Genome Res. 10:2000;411-415.
43. Sassaman D.M., Dombroski B.A., Moran J.V., Kimberland M.L., Naas T.P., DeBerardinis R.J., Gabriel A., Swergold G.D., Kazazian H.H. Jr. Many human L1 elements are capable of retrotransposition. Nat. Genet. 16:1997;37-43.
44. Schmid C., Maraia R. Transcriptional regulation and transpositional selection of active SINE sequences. Curr. Opin. Genet. Dev. 2:1992;874-882.
45. Shedlock A.M., Okada N. SINE insertions. powerful tools for molecular systematics Bioessays. 22:2000;148-160.
46. Smit A.F.A. The origin of interspersed repeats in the human genome. Curr. Opin. Genet. Dev. 6:1996;743-748.
47. Terai Y., Takahashi K., Okada N. SINE cousins. the 3′-end tails of two oldest and distantly related families of SINEs are descended from the 3′ ends of LINEs with the same genealogical origin Mol. Biol. Evol. 15:1998;1460-1471.
48. Yu G.L., Blackburn E.H. Developmentally programmed healing of chromosomes by telomerase in Tetrahymena. Cell. 67:1991;823-832.
49. Viguera E., Canceill D., Ehrlich S.D. Replication slippage involves DNA polymerase pausing and dissociation. EMBO J. 20:2001;2587-2595.
50. Wei W., Gilbert N., Ooi S.L., Lawler J.F., Ostertag E.M., Kazazian H.H. Jr., Boeke J.D., Moran J.V. Human L1 retrotransposition. cis preference versus trans complementation Mol. Cell. Biol. 21:2001;1429-1439.
51. Weiner A.M. Do all SINEs lead to LINEs? Nat. Genet. 24:2000;332-333.
52. Weiner A.M., Deininger P.L., Efstratiadis A. Nonviral retroposons. genes, pseudogenes, and transposable elements generated by the reverse flow of genetic information Annu. Rev. Biochem. 55:1986;631-661.
53. Xiong Y., Eickbush T.H. Origin and evolution of retroelements based upon their reverse transcriptase sequences. EMBO J. 9:1990;3353-3362.
54. Zuker, M., Mathews, D.H., and Turner, D.H. (1999). Algorithms and thermodynamics for RNA secondary structure prediction: A practical guide. In RNA Biochemistry and Biotechnology, J. Barciszewski and B.F.C. Clark, eds. (Kluwer Academic Publishers), pp. 11-43.