Comparison of splice sites in mammals and chicken.

We have carried out an initial analysis of the dynamics of the recent evolution of the splice-sites sequences on a large collection of human, rodent (mouse and rat), and chicken introns. Our results indicate that the sequences of splice sites are largely homogeneous within tetrapoda. We have also fo...

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Detalles Bibliográficos
Autores: Abril Ferrando, Josep Francesc, 1970-, Castelo Valdueza, Robert, Guigó, Roderic
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2005
País:España
Institución:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:2445/192643
Acceso en línea:https://hdl.handle.net/2445/192643
Access Level:acceso abierto
Palabra clave:Mutació (Biologia)
Genètica animal
Mamífers
Pollastres
Mutation (Biology)
Animal genetics
Mammals
Chickens
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spelling Comparison of splice sites in mammals and chicken.Abril Ferrando, Josep Francesc, 1970-Castelo Valdueza, RobertGuigó, RodericMutació (Biologia)Genètica animalMamífersPollastresMutation (Biology)Animal geneticsMammalsChickensWe have carried out an initial analysis of the dynamics of the recent evolution of the splice-sites sequences on a large collection of human, rodent (mouse and rat), and chicken introns. Our results indicate that the sequences of splice sites are largely homogeneous within tetrapoda. We have also found that orthologous splice signals between human and rodents and within rodents are more conserved than unrelated splice sites, but the additional conservation can be explained mostly by background intron conservation. In contrast, additional conservation over background is detectable in orthologous mammalian and chicken splice sites. Our results also indicate that the U2 and U12 intron classes seem to have evolved independently since the split of mammals and birds; we have not been able to find a convincing case of interconversion between these two classes in our collections of orthologous introns. Similarly, we have not found a single case of switching between AT-AC and GT-AG subtypes within U12 introns, suggesting that this event has been a rare occurrence in recent evolutionary times. Switching between GT-AG and the noncanonical GC-AG U2 subtypes, on the contrary, does not appear to be unusual; in particular, T to C mutations appear to be relatively well tolerated in GT-AG introns with very strong donor sites.Cold Spring Harbor Laboratory Press2023202320052023info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersion10 p.application/pdfapplication/pdfhttps://hdl.handle.net/2445/192643Articles publicats en revistes (Genètica, Microbiologia i Estadística)reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésReproducció del document publicat a: https://doi.org/10.1101/gr.3108805Genome Research, 2005, vol. 15, num. 1, p. 111-119https://doi.org/10.1101/gr.3108805cc-by-nc (c) Abril Ferrando, Josep Francesc, 1970- et al., 2005https://creativecommons.org/licenses/by-nc/4.0/info:eu-repo/semantics/openAccessoai:recercat.cat:2445/1926432026-05-29T05:05:01Z
dc.title.none.fl_str_mv Comparison of splice sites in mammals and chicken.
title Comparison of splice sites in mammals and chicken.
spellingShingle Comparison of splice sites in mammals and chicken.
Abril Ferrando, Josep Francesc, 1970-
Mutació (Biologia)
Genètica animal
Mamífers
Pollastres
Mutation (Biology)
Animal genetics
Mammals
Chickens
title_short Comparison of splice sites in mammals and chicken.
title_full Comparison of splice sites in mammals and chicken.
title_fullStr Comparison of splice sites in mammals and chicken.
title_full_unstemmed Comparison of splice sites in mammals and chicken.
title_sort Comparison of splice sites in mammals and chicken.
dc.creator.none.fl_str_mv Abril Ferrando, Josep Francesc, 1970-
Castelo Valdueza, Robert
Guigó, Roderic
author Abril Ferrando, Josep Francesc, 1970-
author_facet Abril Ferrando, Josep Francesc, 1970-
Castelo Valdueza, Robert
Guigó, Roderic
author_role author
author2 Castelo Valdueza, Robert
Guigó, Roderic
author2_role author
author
dc.subject.none.fl_str_mv Mutació (Biologia)
Genètica animal
Mamífers
Pollastres
Mutation (Biology)
Animal genetics
Mammals
Chickens
topic Mutació (Biologia)
Genètica animal
Mamífers
Pollastres
Mutation (Biology)
Animal genetics
Mammals
Chickens
description We have carried out an initial analysis of the dynamics of the recent evolution of the splice-sites sequences on a large collection of human, rodent (mouse and rat), and chicken introns. Our results indicate that the sequences of splice sites are largely homogeneous within tetrapoda. We have also found that orthologous splice signals between human and rodents and within rodents are more conserved than unrelated splice sites, but the additional conservation can be explained mostly by background intron conservation. In contrast, additional conservation over background is detectable in orthologous mammalian and chicken splice sites. Our results also indicate that the U2 and U12 intron classes seem to have evolved independently since the split of mammals and birds; we have not been able to find a convincing case of interconversion between these two classes in our collections of orthologous introns. Similarly, we have not found a single case of switching between AT-AC and GT-AG subtypes within U12 introns, suggesting that this event has been a rare occurrence in recent evolutionary times. Switching between GT-AG and the noncanonical GC-AG U2 subtypes, on the contrary, does not appear to be unusual; in particular, T to C mutations appear to be relatively well tolerated in GT-AG introns with very strong donor sites.
publishDate 2005
dc.date.none.fl_str_mv 2005
2023
2023
2023
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/192643
url https://hdl.handle.net/2445/192643
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/10.1101/gr.3108805
Genome Research, 2005, vol. 15, num. 1, p. 111-119
https://doi.org/10.1101/gr.3108805
dc.rights.none.fl_str_mv cc-by-nc (c) Abril Ferrando, Josep Francesc, 1970- et al., 2005
https://creativecommons.org/licenses/by-nc/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv cc-by-nc (c) Abril Ferrando, Josep Francesc, 1970- et al., 2005
https://creativecommons.org/licenses/by-nc/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 10 p.
application/pdf
application/pdf
dc.publisher.none.fl_str_mv Cold Spring Harbor Laboratory Press
publisher.none.fl_str_mv Cold Spring Harbor Laboratory Press
dc.source.none.fl_str_mv Articles publicats en revistes (Genètica, Microbiologia i Estadística)
reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15.811543

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