Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis

Background: Alu elements are primate-specific retroposons that mobilize using the enzymatic machinery of L1 s. The recently completed baboon genome project found that the mobilization rate of Alu elements is higher than in the genome of any other primate studied thus far. However, the Alu subfamily...

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Detalles Bibliográficos
Autores: Steely, Cody J., Baker, Jasmine N., Walker, Jerilyn A., Loupe, Charles D., Baboon Genome Analysis Consortium, Batzer, Mark A.
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2018
País:España
Institución:Universitat Pompeu Fabra
Repositorio:Repositorio Digital de la UPF
OAI Identifier:oai:repositori.upf.edu:10230/37204
Acceso en línea:http://hdl.handle.net/10230/37204
http://dx.doi.org/10.1186/s13100-018-0115-6
Access Level:acceso abierto
Palabra clave:Alu
Baboon
Papio
Subfamily
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repository_id_str
spelling Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubisSteely, Cody J.Baker, Jasmine N.Walker, Jerilyn A.Loupe, Charles D.Baboon Genome Analysis ConsortiumBatzer, Mark A.AluBaboonPapioSubfamilyBackground: Alu elements are primate-specific retroposons that mobilize using the enzymatic machinery of L1 s. The recently completed baboon genome project found that the mobilization rate of Alu elements is higher than in the genome of any other primate studied thus far. However, the Alu subfamily structure present in and specific to baboons had not been examined yet. Results: Here we report 129 Alu subfamilies that are propagating in the genome of the olive baboon, with 127 of these subfamilies being new and specific to the baboon lineage. We analyzed 233 Alu insertions in the genome of the olive baboon using locus specific polymerase chain reaction assays, covering 113 of the 129 subfamilies. The allele frequency data from these insertions show that none of the nine groups of subfamilies are nearing fixation in the lineage. Conclusions: Many subfamilies of Alu elements are actively mobilizing throughout the baboon lineage, with most being specific to the baboon lineage.BioMed Central201920192018info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfapplication/pdfhttp://hdl.handle.net/10230/37204http://dx.doi.org/10.1186/s13100-018-0115-6reponame:Repositorio Digital de la UPFinstname:Universitat Pompeu FabraInglésMobile DNA. 2018;9:10© The Author(s). 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.http://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:repositori.upf.edu:10230/372042026-06-12T07:21:37Z
dc.title.none.fl_str_mv Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
title Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
spellingShingle Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
Steely, Cody J.
Alu
Baboon
Papio
Subfamily
title_short Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
title_full Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
title_fullStr Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
title_full_unstemmed Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
title_sort Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis
dc.creator.none.fl_str_mv Steely, Cody J.
Baker, Jasmine N.
Walker, Jerilyn A.
Loupe, Charles D.
Baboon Genome Analysis Consortium
Batzer, Mark A.
author Steely, Cody J.
author_facet Steely, Cody J.
Baker, Jasmine N.
Walker, Jerilyn A.
Loupe, Charles D.
Baboon Genome Analysis Consortium
Batzer, Mark A.
author_role author
author2 Baker, Jasmine N.
Walker, Jerilyn A.
Loupe, Charles D.
Baboon Genome Analysis Consortium
Batzer, Mark A.
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv Alu
Baboon
Papio
Subfamily
topic Alu
Baboon
Papio
Subfamily
description Background: Alu elements are primate-specific retroposons that mobilize using the enzymatic machinery of L1 s. The recently completed baboon genome project found that the mobilization rate of Alu elements is higher than in the genome of any other primate studied thus far. However, the Alu subfamily structure present in and specific to baboons had not been examined yet. Results: Here we report 129 Alu subfamilies that are propagating in the genome of the olive baboon, with 127 of these subfamilies being new and specific to the baboon lineage. We analyzed 233 Alu insertions in the genome of the olive baboon using locus specific polymerase chain reaction assays, covering 113 of the 129 subfamilies. The allele frequency data from these insertions show that none of the nine groups of subfamilies are nearing fixation in the lineage. Conclusions: Many subfamilies of Alu elements are actively mobilizing throughout the baboon lineage, with most being specific to the baboon lineage.
publishDate 2018
dc.date.none.fl_str_mv 2018
2019
2019
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 http://hdl.handle.net/10230/37204
http://dx.doi.org/10.1186/s13100-018-0115-6
url http://hdl.handle.net/10230/37204
http://dx.doi.org/10.1186/s13100-018-0115-6
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Mobile DNA. 2018;9:10
dc.rights.none.fl_str_mv http://creativecommons.org/licenses/by/4.0/
info:eu-repo/semantics/openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by/4.0/
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv BioMed Central
publisher.none.fl_str_mv BioMed Central
dc.source.none.fl_str_mv reponame:Repositorio Digital de la UPF
instname:Universitat Pompeu Fabra
instname_str Universitat Pompeu Fabra
reponame_str Repositorio Digital de la UPF
collection Repositorio Digital de la UPF
repository.name.fl_str_mv
repository.mail.fl_str_mv
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score 15,811543

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