Plant retrotransposon from Lilium henryi is related to Ty3 of yeast and the gypsy group of Drosophila.
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Journal: 1989/August - Proceedings of the National Academy of Sciences of the United States of America
ISSN: 0027-8424
PUBMED: 2544887
Abstract:
The lily retrotransposon del 1-46 is 9345 base pairs (bp) long. It has long terminal repeats (LTRs) of 2406 bp (left) and 2415 bp (right), which differ in sequence by 1.4%. Sequences similar to those involved in priming DNA synthesis in retroviruses occur in the internal region. Near the left LTR is a sequence complementary to 18 residues at the 3' end of methionine initiator tRNA of three plant species, and a run of 12 purines occurs close to the right LTR. One internal reading frame of del 1-46 has relatively few stop codons. The 1462-codon product from this frame has motifs, in N to C terminus order, corresponding to those identified with RNA binding, protease, reverse transcriptase, RNase H, and integrase functions in retroviruses and certain other retrotransposons. Amino acid sequence comparisons of three conserved pol regions show del to be closely related to the Ty3 retrotransposon of yeast (37-40% identity). del is also related to the gypsy group of Drosophila (17.6, 297, gypsy/mdg4, and 412), showing closer identity with their reverse transcriptase (32-38%) and RNase H (36-45%) domains than with their integrase domain (21-26%). It is proposed that a gypsy group ancestor exchanged the integrase region with a more distantly related element since its divergence from a del/Ty3 common ancestor. The occurrence of related retrotransposons in three different kingdoms (plants, animals, and fungi) strongly implies their horizontal transmission in recent evolutionary time.
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Proc Natl Acad Sci U S A 86(13): 5015-5019
PMID: 2544887

Plant retrotransposon from Lilium henryi is related to Ty3 of yeast and the gypsy group of Drosophila.

Abstract

The lily retrotransposon del 1-46 is 9345 base pairs (bp) long. It has long terminal repeats (LTRs) of 2406 bp (left) and 2415 bp (right), which differ in sequence by 1.4%. Sequences similar to those involved in priming DNA synthesis in retroviruses occur in the internal region. Near the left LTR is a sequence complementary to 18 residues at the 3' end of methionine initiator tRNA of three plant species, and a run of 12 purines occurs close to the right LTR. One internal reading frame of del 1-46 has relatively few stop codons. The 1462-codon product from this frame has motifs, in N to C terminus order, corresponding to those identified with RNA binding, protease, reverse transcriptase, RNase H, and integrase functions in retroviruses and certain other retrotransposons. Amino acid sequence comparisons of three conserved pol regions show del to be closely related to the Ty3 retrotransposon of yeast (37-40% identity). del is also related to the gypsy group of Drosophila (17.6, 297, gypsy/mdg4, and 412), showing closer identity with their reverse transcriptase (32-38%) and RNase H (36-45%) domains than with their integrase domain (21-26%). It is proposed that a gypsy group ancestor exchanged the integrase region with a more distantly related element since its divergence from a del/Ty3 common ancestor. The occurrence of related retrotransposons in three different kingdoms (plants, animals, and fungi) strongly implies their horizontal transmission in recent evolutionary time.

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Selected References

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  • Bennett MD, Smith JB. Nuclear dna amounts in angiosperms. Philos Trans R Soc Lond B Biol Sci. 1976 May 27;274(933):227–274. [PubMed] [Google Scholar]
  • Flavell RB. Repetitive DNA and chromosome evolution in plants. Philos Trans R Soc Lond B Biol Sci. 1986 Jan 29;312(1154):227–242. [PubMed] [Google Scholar]
  • Sentry JW, Smyth DR. An element with long terminal repeats and its variant arrangements in the genome of Lilium henryi. Mol Gen Genet. 1989 Jan;215(2):349–354. [PubMed] [Google Scholar]
  • Temin HM. Origin of retroviruses from cellular moveable genetic elements. Cell. 1980 Oct;21(3):599–600. [PubMed] [Google Scholar]
  • Finnegan DJ. Retroviruses and transposable elements--which came first? Nature. 1983 Mar 10;302(5904):105–106. [PubMed] [Google Scholar]
  • Baltimore D. Retroviruses and retrotransposons: the role of reverse transcription in shaping the eukaryotic genome. Cell. 1985 Mar;40(3):481–482. [PubMed] [Google Scholar]
  • Boeke JD, Garfinkel DJ, Styles CA, Fink GR. Ty elements transpose through an RNA intermediate. Cell. 1985 Mar;40(3):491–500. [PubMed] [Google Scholar]
  • Eichinger DJ, Boeke JD. The DNA intermediate in yeast Ty1 element transposition copurifies with virus-like particles: cell-free Ty1 transposition. Cell. 1988 Sep 23;54(7):955–966. [PubMed] [Google Scholar]
  • Clare J, Farabaugh P. Nucleotide sequence of a yeast Ty element: evidence for an unusual mechanism of gene expression. Proc Natl Acad Sci U S A. 1985 May;82(9):2829–2833.[PMC free article] [PubMed] [Google Scholar]
  • Hansen LJ, Chalker DL, Sandmeyer SB. Ty3, a yeast retrotransposon associated with tRNA genes, has homology to animal retroviruses. Mol Cell Biol. 1988 Dec;8(12):5245–5256.[PMC free article] [PubMed] [Google Scholar]
  • Mount SM, Rubin GM. Complete nucleotide sequence of the Drosophila transposable element copia: homology between copia and retroviral proteins. Mol Cell Biol. 1985 Jul;5(7):1630–1638.[PMC free article] [PubMed] [Google Scholar]
  • Emori Y, Shiba T, Kanaya S, Inouye S, Yuki S, Saigo K. The nucleotide sequences of copia and copia-related RNA in Drosophila virus-like particles. Nature. 315(6022):773–776. [PubMed] [Google Scholar]
  • Saigo K, Kugimiya W, Matsuo Y, Inouye S, Yoshioka K, Yuki S. Identification of the coding sequence for a reverse transcriptase-like enzyme in a transposable genetic element in Drosophila melanogaster. Nature. 1984 Dec 13;312(5995):659–661. [PubMed] [Google Scholar]
  • Inouye S, Yuki S, Saigo K. Complete nucleotide sequence and genome organization of a Drosophila transposable genetic element, 297. Eur J Biochem. 1986 Jan 15;154(2):417–425. [PubMed] [Google Scholar]
  • Marlor RL, Parkhurst SM, Corces VG. The Drosophila melanogaster gypsy transposable element encodes putative gene products homologous to retroviral proteins. Mol Cell Biol. 1986 Apr;6(4):1129–1134.[PMC free article] [PubMed] [Google Scholar]
  • Bayev AA, Jr, Lyubomirskaya NV, Dzhumagaliev EB, Ananiev EV, Amiantova IG, Ilyin YV. Structural organization of transposable element mdg4 from Drosophila melanogaster and a nucleotide sequence of its long terminal repeats. Nucleic Acids Res. 1984 Apr 25;12(8):3707–3723.[PMC free article] [PubMed] [Google Scholar]
  • Yuki S, Inouye S, Ishimaru S, Saigo K. Nucleotide sequence characterization of a Drosophila retrotransposon, 412. Eur J Biochem. 1986 Jul 15;158(2):403–410. [PubMed] [Google Scholar]
  • Yuki S, Ishimaru S, Inouye S, Saigo K. Identification of genes for reverse transcriptase-like enzymes in two Drosophila retrotransposons, 412 and gypsy; a rapid detection method of reverse transcriptase genes using YXDD box probes. Nucleic Acids Res. 1986 Apr 11;14(7):3017–3030.[PMC free article] [PubMed] [Google Scholar]
  • Xiong Y, Eickbush TH. Similarity of reverse transcriptase-like sequences of viruses, transposable elements, and mitochondrial introns. Mol Biol Evol. 1988 Nov;5(6):675–690. [PubMed] [Google Scholar]
  • Doolittle RF, Feng DF, Johnson MS, McClure MA. Origins and evolutionary relationships of retroviruses. Q Rev Biol. 1989 Mar;64(1):1–30. [PubMed] [Google Scholar]
  • Sanger F, Nicklen S, Coulson AR. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467.[PMC free article] [PubMed] [Google Scholar]
  • Messing J. New M13 vectors for cloning. Methods Enzymol. 1983;101:20–78. [PubMed] [Google Scholar]
  • Franck A, Guilley H, Jonard G, Richards K, Hirth L. Nucleotide sequence of cauliflower mosaic virus DNA. Cell. 1980 Aug;21(1):285–294. [PubMed] [Google Scholar]
  • Hull R, Sadler J, Longstaff M. The sequence of carnation etched ring virus DNA: comparison with cauliflower mosaic virus and retroviruses. EMBO J. 1986 Dec 1;5(12):3083–3090.[PMC free article] [PubMed] [Google Scholar]
  • Cappello J, Handelsman K, Lodish HF. Sequence of Dictyostelium DIRS-1: an apparent retrotransposon with inverted terminal repeats and an internal circle junction sequence. Cell. 1985 Nov;43(1):105–115. [PubMed] [Google Scholar]
  • Shinnick TM, Lerner RA, Sutcliffe JG. Nucleotide sequence of Moloney murine leukaemia virus. Nature. 1981 Oct 15;293(5833):543–548. [PubMed] [Google Scholar]
  • Covey SN. Amino acid sequence homology in gag region of reverse transcribing elements and the coat protein gene of cauliflower mosaic virus. Nucleic Acids Res. 1986 Jan 24;14(2):623–633.[PMC free article] [PubMed] [Google Scholar]
  • Toh H, Kikuno R, Hayashida H, Miyata T, Kugimiya W, Inouye S, Yuki S, Saigo K. Close structural resemblance between putative polymerase of a Drosophila transposable genetic element 17.6 and pol gene product of Moloney murine leukaemia virus. EMBO J. 1985 May;4(5):1267–1272.[PMC free article] [PubMed] [Google Scholar]
  • Johnson MS, McClure MA, Feng DF, Gray J, Doolittle RF. Computer analysis of retroviral pol genes: assignment of enzymatic functions to specific sequences and homologies with nonviral enzymes. Proc Natl Acad Sci U S A. 1986 Oct;83(20):7648–7652.[PMC free article] [PubMed] [Google Scholar]
  • McClure MA, Johnson MS, Feng DF, Doolittle RF. Sequence comparisons of retroviral proteins: relative rates of change and general phylogeny. Proc Natl Acad Sci U S A. 1988 Apr;85(8):2469–2473.[PMC free article] [PubMed] [Google Scholar]
  • Inouye S, Saigo K, Yamada K, Kuchino Y. Identification and nucleotide sequence determination of a potential primer tRNA for reverse transcription of a Drosophila retrotransposon, 297. Nucleic Acids Res. 1986 Apr 11;14(7):3031–3043.[PMC free article] [PubMed] [Google Scholar]
  • Voytas DF, Ausubel FM. A copia-like transposable element family in Arabidopsis thaliana. Nature. 1988 Nov 17;336(6196):242–244. [PubMed] [Google Scholar]
  • Grandbastien MA, Spielmann A, Caboche M. Tnt1, a mobile retroviral-like transposable element of tobacco isolated by plant cell genetics. Nature. 1989 Jan 26;337(6205):376–380. [PubMed] [Google Scholar]
Department of Genetics, Monash University, Clayton, Victoria, Australia.
Department of Genetics, Monash University, Clayton, Victoria, Australia.
Copyright notice
Abstract
The lily retrotransposon del 1-46 is 9345 base pairs (bp) long. It has long terminal repeats (LTRs) of 2406 bp (left) and 2415 bp (right), which differ in sequence by 1.4%. Sequences similar to those involved in priming DNA synthesis in retroviruses occur in the internal region. Near the left LTR is a sequence complementary to 18 residues at the 3' end of methionine initiator tRNA of three plant species, and a run of 12 purines occurs close to the right LTR. One internal reading frame of del 1-46 has relatively few stop codons. The 1462-codon product from this frame has motifs, in N to C terminus order, corresponding to those identified with RNA binding, protease, reverse transcriptase, RNase H, and integrase functions in retroviruses and certain other retrotransposons. Amino acid sequence comparisons of three conserved pol regions show del to be closely related to the Ty3 retrotransposon of yeast (37-40% identity). del is also related to the gypsy group of Drosophila (17.6, 297, gypsy/mdg4, and 412), showing closer identity with their reverse transcriptase (32-38%) and RNase H (36-45%) domains than with their integrase domain (21-26%). It is proposed that a gypsy group ancestor exchanged the integrase region with a more distantly related element since its divergence from a del/Ty3 common ancestor. The occurrence of related retrotransposons in three different kingdoms (plants, animals, and fungi) strongly implies their horizontal transmission in recent evolutionary time.
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