Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic>
<p>Non-LTR retrotransposons are common in vertebrate genomes and although present in invertebrates they appear at a much lower frequency. The cephalochordate amphioxus is the closest living relative to vertebrates and has been considered a good model for comparative analyses of genome expansio...
| Format: | Article |
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| Language: | English |
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Ivyspring International Publisher
2006-04-01
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| Series: | International Journal of Biological Sciences |
| Subjects: | |
| Online Access: | http://www.biolsci.org/v02p0048.htm |
| _version_ | 1811219846515392512 |
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| collection | DOAJ |
| description | <p>Non-LTR retrotransposons are common in vertebrate genomes and although present in invertebrates they appear at a much lower frequency. The cephalochordate amphioxus is the closest living relative to vertebrates and has been considered a good model for comparative analyses of genome expansions during vertebrate evolution. With the aim to assess the involvement of transposable elements in these events, we have analysed the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic>. In silico searches have allowed to reconstruct non-LTR elements of six different clades (CR1, I, L1, L2, NeSL and RTE) and assess their structural features. According to the estimated copy number of these elements they account for less than 1% of the haploid genome, which reminds of the low abundance also encountered in the urochordate <italic>Ciona intestinalis</italic>. Amphioxus (<italic>B. floridae</italic>) and <italic>Ciona</italic> share a pre-vertebrate-like organization for the non-LTR retrotransposons (<150 copies, < 1% of the genome) versus the complexity associated to higher vertebrates (<italic>Homo sapiens</italic> >1.3·10<sup>6</sup> copies, > 20% of the genome).</p> |
| first_indexed | 2024-04-12T07:32:45Z |
| format | Article |
| id | doaj.art-91eff1c198304808a9ac2a33856e4166 |
| institution | Directory Open Access Journal |
| issn | 1449-2288 |
| language | English |
| last_indexed | 2024-04-12T07:32:45Z |
| publishDate | 2006-04-01 |
| publisher | Ivyspring International Publisher |
| record_format | Article |
| series | International Journal of Biological Sciences |
| spelling | doaj.art-91eff1c198304808a9ac2a33856e41662022-12-22T03:42:01ZengIvyspring International PublisherInternational Journal of Biological Sciences1449-22882006-04-01224853Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic><p>Non-LTR retrotransposons are common in vertebrate genomes and although present in invertebrates they appear at a much lower frequency. The cephalochordate amphioxus is the closest living relative to vertebrates and has been considered a good model for comparative analyses of genome expansions during vertebrate evolution. With the aim to assess the involvement of transposable elements in these events, we have analysed the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic>. In silico searches have allowed to reconstruct non-LTR elements of six different clades (CR1, I, L1, L2, NeSL and RTE) and assess their structural features. According to the estimated copy number of these elements they account for less than 1% of the haploid genome, which reminds of the low abundance also encountered in the urochordate <italic>Ciona intestinalis</italic>. Amphioxus (<italic>B. floridae</italic>) and <italic>Ciona</italic> share a pre-vertebrate-like organization for the non-LTR retrotransposons (<150 copies, < 1% of the genome) versus the complexity associated to higher vertebrates (<italic>Homo sapiens</italic> >1.3·10<sup>6</sup> copies, > 20% of the genome).</p>http://www.biolsci.org/v02p0048.htmtransposable elementsnon-LTR retrotransposonscephalochordatesgenome evolution. |
| spellingShingle | Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic> International Journal of Biological Sciences transposable elements non-LTR retrotransposons cephalochordates genome evolution. |
| title | Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic> |
| title_full | Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic> |
| title_fullStr | Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic> |
| title_full_unstemmed | Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic> |
| title_short | Getting closer to a pre-vertebrate genome: the non-LTR retrotransposons of <italic>Branchiostoma floridae</italic> |
| title_sort | getting closer to a pre vertebrate genome the non ltr retrotransposons of italic branchiostoma floridae italic |
| topic | transposable elements non-LTR retrotransposons cephalochordates genome evolution. |
| url | http://www.biolsci.org/v02p0048.htm |