A LINE element from the pufferfish (fugu) Fugu rubripes which shows similarity to the CR1 family of non-LTR retrotransposons
This study describes the consensus sequence of a full-length (4585 bp) non-LTR retrotransposon from the fugu fish, Fugu rubripes. The retrotransposon, termed Maui, is represented by a group of very similar LINE elements found as multiple copies within the fish genome. Two long open reading frames (O...
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Published in | Gene Vol. 227; no. 2; pp. 169 - 179 |
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Main Authors | , , |
Format | Journal Article |
Language | English |
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Elsevier B.V
18.02.1999
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Abstract | This study describes the consensus sequence of a full-length (4585
bp) non-LTR retrotransposon from the fugu fish,
Fugu rubripes. The retrotransposon, termed Maui, is represented by a group of very similar LINE elements found as multiple copies within the fish genome. Two long open reading frames (ORFs) are predicted from the sequence. The first ORF has a domain resembling a novel zinc finger motif recently found in both a turtle and a chicken (CR1) non-LTR retrotransposon. The second ORF includes sequences homologous to the endonuclease, reverse transcriptase and carboxy-terminal domains found in other non-LTR retrotransposons. Sequence comparisons of the predicted translation products of the two ORFs indicate that Maui is most closely related to a class of non-LTR retrotransposons represented by the CR1-like elements (chicken repeat 1 elements) that are present in several avian species and have recently been described in the turtle
Platemys spixii. The sequence of the 3′ untranslated region also supports this relationship since Maui resembles the CR1 like elements in not having a poly-A tail. |
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AbstractList | This study describes the consensus sequence of a full-length (4585 bp) non-LTR retrotransposon from the fugu fish, Fugu rubripes. The retrotransposon, termed Maui, is represented by a group of very similar LINE elements found as multiple copies within the fish genome. Two long open reading frames (ORFs) are predicted from the sequence. The first ORF has a domain resembling a novel zinc finger motif recently found in both a turtle and a chicken (CR1) non-LTR retrotransposon. The second ORF includes sequences homologous to the endonuclease, reverse transcriptase and carboxy-terminal domains found in other non-LTR retrotransposons. Sequence comparisons of the predicted translation products of the two ORFs indicate that Maui is most closely related to a class of non-LTR retrotransposons represented by the CR1-like elements (chicken repeat 1 elements) that are present in several avian species and have recently been described in the turtle Platemys spixii. The sequence of the 3' untranslated region also supports this relationship since Maui resembles the CR1 like elements in not having a poly-A tail. This study describes the consensus sequence of a full-length (4585bp) non-LTR retrotransposon from the fugu fish, Fugu rubripes. The retrotransposon, termed Maui, is represented by a group of very similar LINE elements found as multiple copies within the fish genome. Two long open reading frames (ORFs) are predicted from the sequence. The first ORF has a domain resembling a novel zinc finger motif recently found in both a turtle and a chicken (CR1) non-LTR retrotransposon. The second ORF includes sequences homologous to the endonuclease, reverse transcriptase and carboxy-terminal domains found in other non-LTR retrotransposons. Sequence comparisons of the predicted translation products of the two ORFs indicate that Maui is most closely related to a class of non-LTR retrotransposons represented by the CR1-like elements (chicken repeat 1 elements) that are present in several avian species and have recently been described in the turtle Platemys spixii. The sequence of the 3' untranslated region also supports this relationship since Maui resembles the CR1 like elements in not having a poly-A tail. This study describes the consensus sequence of a full-length (4585 bp) non-LTR retrotransposon from the fugu fish, Fugu rubripes. The retrotransposon, termed Maui, is represented by a group of very similar LINE elements found as multiple copies within the fish genome. Two long open reading frames (ORFs) are predicted from the sequence. The first ORF has a domain resembling a novel zinc finger motif recently found in both a turtle and a chicken (CR1) non-LTR retrotransposon. The second ORF includes sequences homologous to the endonuclease, reverse transcriptase and carboxy-terminal domains found in other non-LTR retrotransposons. Sequence comparisons of the predicted translation products of the two ORFs indicate that Maui is most closely related to a class of non-LTR retrotransposons represented by the CR1-like elements (chicken repeat 1 elements) that are present in several avian species and have recently been described in the turtle Platemys spixii. The sequence of the 3′ untranslated region also supports this relationship since Maui resembles the CR1 like elements in not having a poly-A tail. |
Author | Poulter, Russell Ormandy, Joanne Butler, Margaret |
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Keywords | Non-LTR retrotransposon CR1 dNTP, deoxyribonucleoside triphosphate kb, kilobase LINE, long interspersed nuclear elements ORF, open reading frame bp, base pair PCR, polymerase chain reaction Vertebrate retrotransposon CR1, chicken repeat 1 RT, reverse transcriptase LTR, long terminal repeat |
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Snippet | This study describes the consensus sequence of a full-length (4585
bp) non-LTR retrotransposon from the fugu fish,
Fugu rubripes. The retrotransposon, termed... This study describes the consensus sequence of a full-length (4585bp) non-LTR retrotransposon from the fugu fish, Fugu rubripes. The retrotransposon, termed... This study describes the consensus sequence of a full-length (4585 bp) non-LTR retrotransposon from the fugu fish, Fugu rubripes. The retrotransposon, termed... |
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SubjectTerms | 3' Untranslated Regions - genetics 5' Untranslated Regions - genetics Amino Acid Sequence Animals Base Sequence CR1 Fish Proteins Fishes - genetics Fugu rubripes Gene Dosage Long Interspersed Nucleotide Elements - genetics Marine Molecular Sequence Data Non-LTR retrotransposon Open Reading Frames Phylogeny Polymerase Chain Reaction Proteins - genetics Retroelements - genetics Sequence Alignment Sequence Analysis, DNA transposon Maui Vertebrate retrotransposon Zinc Fingers - genetics |
Title | A LINE element from the pufferfish (fugu) Fugu rubripes which shows similarity to the CR1 family of non-LTR retrotransposons |
URI | https://dx.doi.org/10.1016/S0378-1119(98)00600-3 https://www.ncbi.nlm.nih.gov/pubmed/10023050 https://search.proquest.com/docview/17372482 https://search.proquest.com/docview/69587422 |
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