SLACS Retrotransposon from Trypanosoma Brucei Gambiense is Similar to Mammalian LINEs

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 1990 Feb 25

PMID 2156231

Citations 41

Authors

S Aksoy

S Williams

S Chang

F F Richards

Affiliations

Soon will be listed here.

Abstract

We have characterized a retrotransposon in Trypanosoma brucei gambiense uniquely associated with the spliced-leader (SL) RNA gene cluster (Spliced Leader Associated Conserved Sequence, SLACS). There are nine copies of SLACS and DNA sequence analysis of one shows the hallmarks of Line-1 like elements. SLACS has generated a 49 bp target DNA duplication at its insertion site and its 3'-end is preceded by a poly(A) stretch. Two putative open reading frames (ORFs) span 75% of the element. ORF1 has CysHis motif associated with the retroviral gag polypeptide while ORF2 shows homology with reverse transcriptase sequences. Its 5'-end contains a repeated segment of a 185 bp that varies in copy number in different SLACS insertions. Retrotransposon-like sequences inserted into the SL-RNA genes occur in several hemoflagellates. These elements may represent a related family which has maintained its target site specificity.

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References

BURKE W, Calalang C, Eickbush T . The site-specific ribosomal insertion element type II of Bombyx mori (R2Bm) contains the coding sequence for a reverse transcriptase-like enzyme. Mol Cell Biol. 1987; 7(6):2221-30. PMC: 365346. DOI: 10.1128/mcb.7.6.2221-2230.1987. View

Kimmel B, Ole-Moiyoi O, Young J . Ingi, a 5.2-kb dispersed sequence element from Trypanosoma brucei that carries half of a smaller mobile element at either end and has homology with mammalian LINEs. Mol Cell Biol. 1987; 7(4):1465-75. PMC: 365235. DOI: 10.1128/mcb.7.4.1465-1475.1987. View

Murphy N, Pays A, Tebabi P, Coquelet H, Guyaux M, Steinert M . Trypanosoma brucei repeated element with unusual structural and transcriptional properties. J Mol Biol. 1987; 195(4):855-71. DOI: 10.1016/0022-2836(87)90490-6. View

Pays E, Murphy N . DNA-binding fingers encoded by a trypanosome retroposon. J Mol Biol. 1987; 197(1):147-8. DOI: 10.1016/0022-2836(87)90617-6. View

Scott A, Schmeckpeper B, Abdelrazik M, Comey C, OHara B, Rossiter J . Origin of the human L1 elements: proposed progenitor genes deduced from a consensus DNA sequence. Genomics. 1987; 1(2):113-25. PMC: 7135745. DOI: 10.1016/0888-7543(87)90003-6. View

Xiong Y, Eickbush T . The site-specific ribosomal DNA insertion element R1Bm belongs to a class of non-long-terminal-repeat retrotransposons. Mol Cell Biol. 1988; 8(1):114-23. PMC: 363089. DOI: 10.1128/mcb.8.1.114-123.1988. View

Carrington M, Roditi I, Williams R . The structure and transcription of an element interspersed between tandem arrays of mini-exon donor RNA genes in Trypanosoma brucei. Nucleic Acids Res. 1987; 15(24):10179-98. PMC: 339938. DOI: 10.1093/nar/15.24.10179. View

Aksoy S, Lalor T, Martin J, Van der Ploeg L, Richards F . Multiple copies of a retroposon interrupt spliced leader RNA genes in the African trypanosome, Trypanosoma gambiense. EMBO J. 1987; 6(12):3819-26. PMC: 553854. DOI: 10.1002/j.1460-2075.1987.tb02718.x. View

Mizrokhi L, Georgieva S, Ilyin Y . jockey, a mobile Drosophila element similar to mammalian LINEs, is transcribed from the internal promoter by RNA polymerase II. Cell. 1988; 54(5):685-91. DOI: 10.1016/s0092-8674(88)80013-8. View

10.

Bellofatto V, Cooper R, Cross G . Discontinuous transcription in Leptomonas seymouri: presence of intact and interrupted mini-exon gene families. Nucleic Acids Res. 1988; 16(15):7437-56. PMC: 338419. DOI: 10.1093/nar/16.15.7437. View

11.

Xiong Y, Eickbush T . Functional expression of a sequence-specific endonuclease encoded by the retrotransposon R2Bm. Cell. 1988; 55(2):235-46. DOI: 10.1016/0092-8674(88)90046-3. View

12.

Xiong Y, Eickbush T . Similarity of reverse transcriptase-like sequences of viruses, transposable elements, and mitochondrial introns. Mol Biol Evol. 1988; 5(6):675-90. DOI: 10.1093/oxfordjournals.molbev.a040521. View

13.

Boeke J, Corces V . Transcription and reverse transcription of retrotransposons. Annu Rev Microbiol. 1989; 43:403-34. DOI: 10.1146/annurev.mi.43.100189.002155. View

14.

SANGER F, Nicklen S, Coulson A . DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977; 74(12):5463-7. PMC: 431765. DOI: 10.1073/pnas.74.12.5463. View

15.

SANGER F, Coulson A, Barrell B, Smith A, Roe B . Cloning in single-stranded bacteriophage as an aid to rapid DNA sequencing. J Mol Biol. 1980; 143(2):161-78. DOI: 10.1016/0022-2836(80)90196-5. View

16.

Dawid I, Long E, DiNocera P, Pardue M . Ribosomal insertion-like elements in Drosophila melanogaster are interspersed with mobile sequences. Cell. 1981; 25(2):399-408. DOI: 10.1016/0092-8674(81)90058-1. View

17.

Singer M . SINEs and LINEs: highly repeated short and long interspersed sequences in mammalian genomes. Cell. 1982; 28(3):433-4. DOI: 10.1016/0092-8674(82)90194-5. View

18.

Merritt S, Tschudi C, Konigsberg W, Richards F . Reverse transcription of trypanosome variable antigen mRNAs initiated by a specific oligonucleotide primer. Proc Natl Acad Sci U S A. 1983; 80(6):1536-40. PMC: 393636. DOI: 10.1073/pnas.80.6.1536. View

19.

Messing J . New M13 vectors for cloning. Methods Enzymol. 1983; 101:20-78. DOI: 10.1016/0076-6879(83)01005-8. View

20.

Toh H, Hayashida H, Miyata T . Sequence homology between retroviral reverse transcriptase and putative polymerases of hepatitis B virus and cauliflower mosaic virus. Nature. 1983; 305(5937):827-9. DOI: 10.1038/305827a0. View