Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements

Autores
Bringaud, Frédéric; Ghedin, Elodie; Blandin, Gaëlle; Bartholomeu, Daniella C.; Caler, Elisabet; Levin, Mariano Jorge; Baltz, Théo; El Sayed, Najib M.
Año de publicación
2006
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The ingi and L1Tc non-LTR retrotransposons - which constitute the ingi clade - are abundant in the genome of the trypanosomatid species Trypanosoma brucei and Trypanosoma cruzi, respectively. The corresponding retroelements, however, are not present in the genome of a closely related trypanosomatid, Leishmania major. To study the evolution of non-LTR retrotransposons in trypanosomatids, we have analyzed all ingi/L1Tc elements and highly degenerate ingi/L1Tc-related sequences identified in the recently completed T. brucei, T. cruzi and L. major genomes. The coding sequences of 242 degenerate ingi/L1Tc-related elements (DIREs) in all three genomes were reconstituted by removing the numerous frame shifts. Three independent phylogenetic analyses conducted on the conserved domains encoded by these elements show that all DIREs, including the 52 L. major DIREs, form a monophyletic group belonging to the ingi clade. This indicates that the trypanosomatid ancestor contained active mobile elements that have been retained in the Trypanosoma species, but were lost from L. major genome, where only remnants (DIRE) are detectable. All 242 DIREs analyzed group together according to their species origin with the exception of 11 T. cruzi DIREs which are close to the T. brucei ingi/DIRE families. Considering the absence of known horizontal transfer between the African T. brucei and the South-American T. cruzi, this suggests that this group of elements evolved at a lower rate when compared to the other trypanosomatid elements. Interestingly, the only nucleotide sequence conserved between ingi and L1Tc (the first 79 residues) is also present at the 5′-extremity of all the full length DIREs and suggests a possible role for this conserved motif, as well as for DIREs.
Fil: Bringaud, Frédéric. Universite Victor Segalen Bordeaux Ii; Francia
Fil: Ghedin, Elodie. The Institute for Genomic Research; Estados Unidos. The George Washington University; Estados Unidos
Fil: Blandin, Gaëlle. The Institute for Genomic Research; Estados Unidos
Fil: Bartholomeu, Daniella C.. The Institute for Genomic Research; Estados Unidos
Fil: Caler, Elisabet. The Institute for Genomic Research; Estados Unidos
Fil: Levin, Mariano Jorge. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina. Universidad de Buenos Aires; Argentina
Fil: Baltz, Théo. Universite Victor Segalen Bordeaux Ii; Francia
Fil: El Sayed, Najib M.. The George Washington University; Estados Unidos. The Institute for Genomic Research; Estados Unidos
Materia
Degenerate Retroelement
Evolution
Ingi
L1tc
Leishmania Major
Non-Ltr Retrotransposon
Retroposon
Trypanosoma Brucei
Trypanosoma Cruzi
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/79872
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/79872
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elementsBringaud, FrédéricGhedin, ElodieBlandin, GaëlleBartholomeu, Daniella C.Caler, ElisabetLevin, Mariano JorgeBaltz, ThéoEl Sayed, Najib M.Degenerate RetroelementEvolutionIngiL1tcLeishmania MajorNon-Ltr RetrotransposonRetroposonTrypanosoma BruceiTrypanosoma Cruzihttps://purl.org/becyt/ford/3.1https://purl.org/becyt/ford/3The ingi and L1Tc non-LTR retrotransposons - which constitute the ingi clade - are abundant in the genome of the trypanosomatid species Trypanosoma brucei and Trypanosoma cruzi, respectively. The corresponding retroelements, however, are not present in the genome of a closely related trypanosomatid, Leishmania major. To study the evolution of non-LTR retrotransposons in trypanosomatids, we have analyzed all ingi/L1Tc elements and highly degenerate ingi/L1Tc-related sequences identified in the recently completed T. brucei, T. cruzi and L. major genomes. The coding sequences of 242 degenerate ingi/L1Tc-related elements (DIREs) in all three genomes were reconstituted by removing the numerous frame shifts. Three independent phylogenetic analyses conducted on the conserved domains encoded by these elements show that all DIREs, including the 52 L. major DIREs, form a monophyletic group belonging to the ingi clade. This indicates that the trypanosomatid ancestor contained active mobile elements that have been retained in the Trypanosoma species, but were lost from L. major genome, where only remnants (DIRE) are detectable. All 242 DIREs analyzed group together according to their species origin with the exception of 11 T. cruzi DIREs which are close to the T. brucei ingi/DIRE families. Considering the absence of known horizontal transfer between the African T. brucei and the South-American T. cruzi, this suggests that this group of elements evolved at a lower rate when compared to the other trypanosomatid elements. Interestingly, the only nucleotide sequence conserved between ingi and L1Tc (the first 79 residues) is also present at the 5′-extremity of all the full length DIREs and suggests a possible role for this conserved motif, as well as for DIREs.Fil: Bringaud, Frédéric. Universite Victor Segalen Bordeaux Ii; FranciaFil: Ghedin, Elodie. The Institute for Genomic Research; Estados Unidos. The George Washington University; Estados UnidosFil: Blandin, Gaëlle. The Institute for Genomic Research; Estados UnidosFil: Bartholomeu, Daniella C.. The Institute for Genomic Research; Estados UnidosFil: Caler, Elisabet. The Institute for Genomic Research; Estados UnidosFil: Levin, Mariano Jorge. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina. Universidad de Buenos Aires; ArgentinaFil: Baltz, Théo. Universite Victor Segalen Bordeaux Ii; FranciaFil: El Sayed, Najib M.. The George Washington University; Estados Unidos. The Institute for Genomic Research; Estados UnidosElsevier Science2006-12info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/79872Bringaud, Frédéric; Ghedin, Elodie; Blandin, Gaëlle; Bartholomeu, Daniella C.; Caler, Elisabet; et al.; Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements; Elsevier Science; Molecular and Biochemical Parasitology; 145; 2; 12-2006; 158-1700166-6851CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://www.ncbi.nlm.nih.gov/pubmed/16257065info:eu-repo/semantics/altIdentifier/doi/10.1016/j.molbiopara.2005.09.017info:eu-repo/semantics/altIdentifier/url/https://www.sciencedirect.com/science/article/pii/S0166685105002963info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-03T09:53:48Zoai:ri.conicet.gov.ar:11336/79872instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-03 09:53:48.373CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
title Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
spellingShingle Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
Bringaud, Frédéric
Degenerate Retroelement
Evolution
Ingi
L1tc
Leishmania Major
Non-Ltr Retrotransposon
Retroposon
Trypanosoma Brucei
Trypanosoma Cruzi
title_short Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
title_full Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
title_fullStr Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
title_full_unstemmed Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
title_sort Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements
dc.creator.none.fl_str_mv Bringaud, Frédéric
Ghedin, Elodie
Blandin, Gaëlle
Bartholomeu, Daniella C.
Caler, Elisabet
Levin, Mariano Jorge
Baltz, Théo
El Sayed, Najib M.
author Bringaud, Frédéric
author_facet Bringaud, Frédéric
Ghedin, Elodie
Blandin, Gaëlle
Bartholomeu, Daniella C.
Caler, Elisabet
Levin, Mariano Jorge
Baltz, Théo
El Sayed, Najib M.
author_role author
author2 Ghedin, Elodie
Blandin, Gaëlle
Bartholomeu, Daniella C.
Caler, Elisabet
Levin, Mariano Jorge
Baltz, Théo
El Sayed, Najib M.
author2_role author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Degenerate Retroelement
Evolution
Ingi
L1tc
Leishmania Major
Non-Ltr Retrotransposon
Retroposon
Trypanosoma Brucei
Trypanosoma Cruzi
topic Degenerate Retroelement
Evolution
Ingi
L1tc
Leishmania Major
Non-Ltr Retrotransposon
Retroposon
Trypanosoma Brucei
Trypanosoma Cruzi
purl_subject.fl_str_mv https://purl.org/becyt/ford/3.1
https://purl.org/becyt/ford/3
dc.description.none.fl_txt_mv The ingi and L1Tc non-LTR retrotransposons - which constitute the ingi clade - are abundant in the genome of the trypanosomatid species Trypanosoma brucei and Trypanosoma cruzi, respectively. The corresponding retroelements, however, are not present in the genome of a closely related trypanosomatid, Leishmania major. To study the evolution of non-LTR retrotransposons in trypanosomatids, we have analyzed all ingi/L1Tc elements and highly degenerate ingi/L1Tc-related sequences identified in the recently completed T. brucei, T. cruzi and L. major genomes. The coding sequences of 242 degenerate ingi/L1Tc-related elements (DIREs) in all three genomes were reconstituted by removing the numerous frame shifts. Three independent phylogenetic analyses conducted on the conserved domains encoded by these elements show that all DIREs, including the 52 L. major DIREs, form a monophyletic group belonging to the ingi clade. This indicates that the trypanosomatid ancestor contained active mobile elements that have been retained in the Trypanosoma species, but were lost from L. major genome, where only remnants (DIRE) are detectable. All 242 DIREs analyzed group together according to their species origin with the exception of 11 T. cruzi DIREs which are close to the T. brucei ingi/DIRE families. Considering the absence of known horizontal transfer between the African T. brucei and the South-American T. cruzi, this suggests that this group of elements evolved at a lower rate when compared to the other trypanosomatid elements. Interestingly, the only nucleotide sequence conserved between ingi and L1Tc (the first 79 residues) is also present at the 5′-extremity of all the full length DIREs and suggests a possible role for this conserved motif, as well as for DIREs.
Fil: Bringaud, Frédéric. Universite Victor Segalen Bordeaux Ii; Francia
Fil: Ghedin, Elodie. The Institute for Genomic Research; Estados Unidos. The George Washington University; Estados Unidos
Fil: Blandin, Gaëlle. The Institute for Genomic Research; Estados Unidos
Fil: Bartholomeu, Daniella C.. The Institute for Genomic Research; Estados Unidos
Fil: Caler, Elisabet. The Institute for Genomic Research; Estados Unidos
Fil: Levin, Mariano Jorge. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones en Ingeniería Genética y Biología Molecular "Dr. Héctor N. Torres"; Argentina. Universidad de Buenos Aires; Argentina
Fil: Baltz, Théo. Universite Victor Segalen Bordeaux Ii; Francia
Fil: El Sayed, Najib M.. The George Washington University; Estados Unidos. The Institute for Genomic Research; Estados Unidos
description The ingi and L1Tc non-LTR retrotransposons - which constitute the ingi clade - are abundant in the genome of the trypanosomatid species Trypanosoma brucei and Trypanosoma cruzi, respectively. The corresponding retroelements, however, are not present in the genome of a closely related trypanosomatid, Leishmania major. To study the evolution of non-LTR retrotransposons in trypanosomatids, we have analyzed all ingi/L1Tc elements and highly degenerate ingi/L1Tc-related sequences identified in the recently completed T. brucei, T. cruzi and L. major genomes. The coding sequences of 242 degenerate ingi/L1Tc-related elements (DIREs) in all three genomes were reconstituted by removing the numerous frame shifts. Three independent phylogenetic analyses conducted on the conserved domains encoded by these elements show that all DIREs, including the 52 L. major DIREs, form a monophyletic group belonging to the ingi clade. This indicates that the trypanosomatid ancestor contained active mobile elements that have been retained in the Trypanosoma species, but were lost from L. major genome, where only remnants (DIRE) are detectable. All 242 DIREs analyzed group together according to their species origin with the exception of 11 T. cruzi DIREs which are close to the T. brucei ingi/DIRE families. Considering the absence of known horizontal transfer between the African T. brucei and the South-American T. cruzi, this suggests that this group of elements evolved at a lower rate when compared to the other trypanosomatid elements. Interestingly, the only nucleotide sequence conserved between ingi and L1Tc (the first 79 residues) is also present at the 5′-extremity of all the full length DIREs and suggests a possible role for this conserved motif, as well as for DIREs.
publishDate 2006
dc.date.none.fl_str_mv 2006-12
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/79872
Bringaud, Frédéric; Ghedin, Elodie; Blandin, Gaëlle; Bartholomeu, Daniella C.; Caler, Elisabet; et al.; Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements; Elsevier Science; Molecular and Biochemical Parasitology; 145; 2; 12-2006; 158-170
0166-6851
CONICET Digital
CONICET
url http://hdl.handle.net/11336/79872
identifier_str_mv Bringaud, Frédéric; Ghedin, Elodie; Blandin, Gaëlle; Bartholomeu, Daniella C.; Caler, Elisabet; et al.; Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements; Elsevier Science; Molecular and Biochemical Parasitology; 145; 2; 12-2006; 158-170
0166-6851
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://www.ncbi.nlm.nih.gov/pubmed/16257065
info:eu-repo/semantics/altIdentifier/doi/10.1016/j.molbiopara.2005.09.017
info:eu-repo/semantics/altIdentifier/url/https://www.sciencedirect.com/science/article/pii/S0166685105002963
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Elsevier Science
publisher.none.fl_str_mv Elsevier Science
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 13.13397

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