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Structure and evolution of Cyclops: a novel giant retrotransposon of the Ty3/Gypsy family highly amplified in pea and other legume species.
Plant Mol Biol. 1998 May; 37(2):363-75.PM

Abstract

We characterized a novel giant Gypsy-like retrotransposon, Cyclops, present in about 5000 copies in the genome of Pisum sativum. The individual element Cyclops-2 measures 12 314 bp including long terminal repeats (LTRs) of 1504 bp and 1594 bp, respectively, showing 4.1% sequence divergence between one another. Cyclops-2 carries a polypurine tract (PPT) and an unusual primer binding site (PBS) complementary to tRNA-Glu. The element is bounded by 5 bp target site duplications and harbors three successive internal regions with homology to retroviral genes gag (424 codons) and pol (1382 codons) and an additional open reading frame (423 codons) of unknown function indicating the element's potential capacity for gene transduction. The pol region contains sequence motifs related to the enzymes protease, reverse transcriptase, RNAse H and integrase in the same typical order (5'-PR-RT-RH-IN-3') known for retroviruses and Gypsy-like retrotransposons. The reading frame of the pol region is disrupted by several mutations suggesting that Cyclops-2 does not encode functional enzymes. A phylogenetic analysis of the reverse transcriptase domain confirms our differential genetic assessment that Cyclops from pea is a novel element with no specific relationship to the previously described Gypsy-like elements from plants. Genomic Southern hybridizations show that Cyclops is abundant not only in pea but also in common bean, mung bean, broad bean, soybean and the pea nut suggesting that Cyclops may be an useful genetic tool for analyzing the genomes of agronomically important legumes.

Authors+Show Affiliations

Institut für Genetik, Technische Universität Braunschweig, Germany.No affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

9617807

Citation

Chavanne, F, et al. "Structure and Evolution of Cyclops: a Novel Giant Retrotransposon of the Ty3/Gypsy Family Highly Amplified in Pea and Other Legume Species." Plant Molecular Biology, vol. 37, no. 2, 1998, pp. 363-75.
Chavanne F, Zhang DX, Liaud MF, et al. Structure and evolution of Cyclops: a novel giant retrotransposon of the Ty3/Gypsy family highly amplified in pea and other legume species. Plant Mol Biol. 1998;37(2):363-75.
Chavanne, F., Zhang, D. X., Liaud, M. F., & Cerff, R. (1998). Structure and evolution of Cyclops: a novel giant retrotransposon of the Ty3/Gypsy family highly amplified in pea and other legume species. Plant Molecular Biology, 37(2), 363-75.
Chavanne F, et al. Structure and Evolution of Cyclops: a Novel Giant Retrotransposon of the Ty3/Gypsy Family Highly Amplified in Pea and Other Legume Species. Plant Mol Biol. 1998;37(2):363-75. PubMed PMID: 9617807.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Structure and evolution of Cyclops: a novel giant retrotransposon of the Ty3/Gypsy family highly amplified in pea and other legume species. AU - Chavanne,F, AU - Zhang,D X, AU - Liaud,M F, AU - Cerff,R, PY - 1998/6/9/pubmed PY - 1998/6/9/medline PY - 1998/6/9/entrez SP - 363 EP - 75 JF - Plant molecular biology JO - Plant Mol Biol VL - 37 IS - 2 N2 - We characterized a novel giant Gypsy-like retrotransposon, Cyclops, present in about 5000 copies in the genome of Pisum sativum. The individual element Cyclops-2 measures 12 314 bp including long terminal repeats (LTRs) of 1504 bp and 1594 bp, respectively, showing 4.1% sequence divergence between one another. Cyclops-2 carries a polypurine tract (PPT) and an unusual primer binding site (PBS) complementary to tRNA-Glu. The element is bounded by 5 bp target site duplications and harbors three successive internal regions with homology to retroviral genes gag (424 codons) and pol (1382 codons) and an additional open reading frame (423 codons) of unknown function indicating the element's potential capacity for gene transduction. The pol region contains sequence motifs related to the enzymes protease, reverse transcriptase, RNAse H and integrase in the same typical order (5'-PR-RT-RH-IN-3') known for retroviruses and Gypsy-like retrotransposons. The reading frame of the pol region is disrupted by several mutations suggesting that Cyclops-2 does not encode functional enzymes. A phylogenetic analysis of the reverse transcriptase domain confirms our differential genetic assessment that Cyclops from pea is a novel element with no specific relationship to the previously described Gypsy-like elements from plants. Genomic Southern hybridizations show that Cyclops is abundant not only in pea but also in common bean, mung bean, broad bean, soybean and the pea nut suggesting that Cyclops may be an useful genetic tool for analyzing the genomes of agronomically important legumes. SN - 0167-4412 UR - https://www.unboundmedicine.com/medline/citation/9617807/Structure_and_evolution_of_Cyclops:_a_novel_giant_retrotransposon_of_the_Ty3/Gypsy_family_highly_amplified_in_pea_and_other_legume_species_ L2 - http://ovidsp.ovid.com/ovidweb.cgi?T=JS&PAGE=linkout&SEARCH=9617807.ui DB - PRIME DP - Unbound Medicine ER -