Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea
A repetitive element of approximately 200 bp was cloned from harbour seal (Phoca vitulina concolour) genomic DNA. The sequence of the element revealed putative RNA polymerase III control boxes, a poly A tail and direct terminal repeats characteristic of SINEs. Sequence and secondary structural simil...
Published in: | Nucleic Acids Research |
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Online Access: | https://doi.org/10.1093/nar/22.14.2726 http://hdl.handle.net/10222/30118 |
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ftdalhouse:oai:DalSpace.library.dal.ca:10222/30118 2023-05-15T16:33:36+02:00 Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea Coltman, David W. Wright, Jonathan M. 2013-07-04T18:45:15Z https://doi.org/10.1093/nar/22.14.2726 http://hdl.handle.net/10222/30118 unknown Nucleic acids research Coltman, David W., and Jonathan M. Wright. 1994. "Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea." Nucleic acids research 22(14): 2726-2730. doi:10.1093/nar/22.14.2726 0305-1048 http://dx.doi.org/10.1093/nar/22.14.2726 http://hdl.handle.net/10222/30118 22 14 2726 Creative Commons Attribution Non-Commercial License © 1994 Oxford University Press CC-BY-NC article 2013 ftdalhouse https://doi.org/10.1093/nar/22.14.2726 2021-12-29T18:08:50Z A repetitive element of approximately 200 bp was cloned from harbour seal (Phoca vitulina concolour) genomic DNA. The sequence of the element revealed putative RNA polymerase III control boxes, a poly A tail and direct terminal repeats characteristic of SINEs. Sequence and secondary structural similarities suggest that the SINE is derived from a tRNA, possibly tRNA-alanine. Southern blot analysis indicated that the element is predominately dispersed in unique regions of the seal genome, but may also be present in other repetitive sequences, such as tandemly arrayed satellite DNA. Based on slot-blot hybridization analysis, we estimate that 1.3 x 10-6 copies of the SINE are present in the harbour seal genome; SINE copy number based on the number of clones isolated from a size-selected library, however, is an order of magnitude lower (1 - 3 x 10-5 copies), an estimate consistent with the abundance of SINEs in other mammalian genomes. Database searches found similar sequences have been isolated from dog (Canis familiaris) and mink (Musteia vison). These, and the seal SINE sequences are characterized by an internal CT dinucleotide microsatellite in the tRNA-unrelated region. Hybridization of genomic DNA from representative species of a wide range of mammalian orders to an oligonucleotide (30mer) probe complementary to a conserved region of the SINE confirmed that the element is unique to carnivores of the superfamily Canoidea. Article in Journal/Newspaper harbour seal Phoca vitulina Dalhousie University: DalSpace Institutional Repository Nucleic Acids Research 22 14 2726 2730 |
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Dalhousie University: DalSpace Institutional Repository |
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description |
A repetitive element of approximately 200 bp was cloned from harbour seal (Phoca vitulina concolour) genomic DNA. The sequence of the element revealed putative RNA polymerase III control boxes, a poly A tail and direct terminal repeats characteristic of SINEs. Sequence and secondary structural similarities suggest that the SINE is derived from a tRNA, possibly tRNA-alanine. Southern blot analysis indicated that the element is predominately dispersed in unique regions of the seal genome, but may also be present in other repetitive sequences, such as tandemly arrayed satellite DNA. Based on slot-blot hybridization analysis, we estimate that 1.3 x 10-6 copies of the SINE are present in the harbour seal genome; SINE copy number based on the number of clones isolated from a size-selected library, however, is an order of magnitude lower (1 - 3 x 10-5 copies), an estimate consistent with the abundance of SINEs in other mammalian genomes. Database searches found similar sequences have been isolated from dog (Canis familiaris) and mink (Musteia vison). These, and the seal SINE sequences are characterized by an internal CT dinucleotide microsatellite in the tRNA-unrelated region. Hybridization of genomic DNA from representative species of a wide range of mammalian orders to an oligonucleotide (30mer) probe complementary to a conserved region of the SINE confirmed that the element is unique to carnivores of the superfamily Canoidea. |
format |
Article in Journal/Newspaper |
author |
Coltman, David W. Wright, Jonathan M. |
spellingShingle |
Coltman, David W. Wright, Jonathan M. Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea |
author_facet |
Coltman, David W. Wright, Jonathan M. |
author_sort |
Coltman, David W. |
title |
Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea |
title_short |
Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea |
title_full |
Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea |
title_fullStr |
Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea |
title_full_unstemmed |
Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea |
title_sort |
can sines: a family of trna-derived retroposons specific to the superfamily canoidea |
publishDate |
2013 |
url |
https://doi.org/10.1093/nar/22.14.2726 http://hdl.handle.net/10222/30118 |
genre |
harbour seal Phoca vitulina |
genre_facet |
harbour seal Phoca vitulina |
op_relation |
Nucleic acids research Coltman, David W., and Jonathan M. Wright. 1994. "Can SINEs: A family of tRNA-derived retroposons specific to the superfamily canoidea." Nucleic acids research 22(14): 2726-2730. doi:10.1093/nar/22.14.2726 0305-1048 http://dx.doi.org/10.1093/nar/22.14.2726 http://hdl.handle.net/10222/30118 22 14 2726 |
op_rights |
Creative Commons Attribution Non-Commercial License © 1994 Oxford University Press |
op_rightsnorm |
CC-BY-NC |
op_doi |
https://doi.org/10.1093/nar/22.14.2726 |
container_title |
Nucleic Acids Research |
container_volume |
22 |
container_issue |
14 |
container_start_page |
2726 |
op_container_end_page |
2730 |
_version_ |
1766023281705484288 |