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nfCR1, the first non-LTR retrotransposon characterized in the Australian lungfish genome, Neoceratodus forsteri, shows similarities to CR1-like elements

Sirijovski, Nickolche LU ; Woolnough, Catherine ; Rock, Jennifer and Joss, Jean M.P. (2005) In Journal of Experimental Zoology Part B: Molecular and Developmental Evolution 304B(1). p.40-49
Abstract

The genomes of lungfish, together with those of some urodele amphibians, are the largest of all vertebrate genomes. It has been assumed that the bulk of the DNA making up these large genomes has been derived from repeat elements, like the noncoding DNA of those genomes that have been sequenced (e.g., human). In an attempt to characterize repeat sequences in the lungfish genome, we have isolated, by restriction enzyme digestion of genomic DNA, sequences of a repeat element in Neoceratodus forsteri, the most primitive of the living lungfishes. The fragments sequenced from the EcoRI and BglII digests were used to perform genome walking PCR in order to obtain the full sequence of the repeat element. This element shares homology with the... (More)

The genomes of lungfish, together with those of some urodele amphibians, are the largest of all vertebrate genomes. It has been assumed that the bulk of the DNA making up these large genomes has been derived from repeat elements, like the noncoding DNA of those genomes that have been sequenced (e.g., human). In an attempt to characterize repeat sequences in the lungfish genome, we have isolated, by restriction enzyme digestion of genomic DNA, sequences of a repeat element in Neoceratodus forsteri, the most primitive of the living lungfishes. The fragments sequenced from the EcoRI and BglII digests were used to perform genome walking PCR in order to obtain the full sequence of the repeat element. This element shares homology with the non-LTR (LINE) element, Chicken Repeat 1 (CR1), described for several vertebrates and some invertebrates; we have called it N. forsteri CR1 (NfCR1). NfCR1 shares all the domains of other CR1 elements but it also has several unique features that suggest it may no longer be active in the lungfish genome. It occurs in both full-length and 5′-truncated versions and in its present "inactive" form represents ∼0.05% of the lungfish genome.

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author
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publishing date
type
Contribution to journal
publication status
published
in
Journal of Experimental Zoology Part B: Molecular and Developmental Evolution
volume
304B
issue
1
pages
40 - 49
publisher
John Wiley & Sons Inc.
external identifiers
  • pmid:15593278
  • scopus:14844284661
ISSN
1552-5007
DOI
10.1002/jez.b.21022
language
English
LU publication?
no
id
5a86f6f4-e015-4a21-a724-d17120d595b1
date added to LUP
2019-06-19 12:00:03
date last changed
2024-01-01 11:30:01
@article{5a86f6f4-e015-4a21-a724-d17120d595b1,
  abstract     = {{<p>The genomes of lungfish, together with those of some urodele amphibians, are the largest of all vertebrate genomes. It has been assumed that the bulk of the DNA making up these large genomes has been derived from repeat elements, like the noncoding DNA of those genomes that have been sequenced (e.g., human). In an attempt to characterize repeat sequences in the lungfish genome, we have isolated, by restriction enzyme digestion of genomic DNA, sequences of a repeat element in Neoceratodus forsteri, the most primitive of the living lungfishes. The fragments sequenced from the EcoRI and BglII digests were used to perform genome walking PCR in order to obtain the full sequence of the repeat element. This element shares homology with the non-LTR (LINE) element, Chicken Repeat 1 (CR1), described for several vertebrates and some invertebrates; we have called it N. forsteri CR1 (NfCR1). NfCR1 shares all the domains of other CR1 elements but it also has several unique features that suggest it may no longer be active in the lungfish genome. It occurs in both full-length and 5′-truncated versions and in its present "inactive" form represents ∼0.05% of the lungfish genome.</p>}},
  author       = {{Sirijovski, Nickolche and Woolnough, Catherine and Rock, Jennifer and Joss, Jean M.P.}},
  issn         = {{1552-5007}},
  language     = {{eng}},
  month        = {{01}},
  number       = {{1}},
  pages        = {{40--49}},
  publisher    = {{John Wiley & Sons Inc.}},
  series       = {{Journal of Experimental Zoology Part B: Molecular and Developmental Evolution}},
  title        = {{nfCR1, the first non-LTR retrotransposon characterized in the Australian lungfish genome, Neoceratodus forsteri, shows similarities to CR1-like elements}},
  url          = {{http://dx.doi.org/10.1002/jez.b.21022}},
  doi          = {{10.1002/jez.b.21022}},
  volume       = {{304B}},
  year         = {{2005}},
}