Molecular Evolution of RAMOSA1 (RA1) in Land Plants

Autores
Bellino Ambort, Carolina Dianela; Herrera, Fernando Enrique; Rodrigues, Daniel Enrique; Garay, A. Sergio; Huck, Sofía Victoria; Reinheimer, Renata
Año de publicación
2024
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
RAMOSA1 (RA1) is a Cys2-His2-type (C2H2) zinc finger transcription factor that controlsplant meristem fate and identity and has played an important role in maize domestication. Despiteits importance, the origin of RA1 is unknown, and the evolution in plants is only partially understood.In this paper, we present a well-resolved phylogeny based on 73 amino acid sequences from48 embryophyte species. The recovered tree topology indicates that, during grass evolution, RA1arose from two consecutive SUPERMAN duplications, resulting in three distinct grass sequencelineages: RA1-like A, RA1-like B, and RA1; however, most of these copies have unknown functions.Our findings indicate that RA1 and RA1-like play roles in the nucleus despite lacking a traditionalnuclear localization signal. Here, we report that copies diversified their coding region and, with it,their protein structure, suggesting different patterns of DNA binding and protein–protein interaction.In addition, each of the retained copies diversified regulatory elements along their promoter regions,indicating differences in their upstream regulation. Taken together, the evidence indicates that theRA1 and RA1-like gene families in grasses underwent subfunctionalization and neofunctionalizationenabled by gene duplication.
Fil: Bellino Ambort, Carolina Dianela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Herrera, Fernando Enrique. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Rodrigues, Daniel Enrique. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Garay, A. Sergio. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina
Fil: Huck, Sofía Victoria. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Reinheimer, Renata. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Materia
ZINC FINGER
EMBRYOPHYTE
PHYLOGENY
PARALOGS
COLLINEARITY
NUCLEAR LOCALIZATION
SECONDARY STRUCTURE
DIVERGENT MOTIFS
PROMOTER
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/235408
Acceder
id CONICETDig_b5af60029e93dbb8f3f1dac431198317
oai_identifier_str oai:ri.conicet.gov.ar:11336/235408
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Molecular Evolution of RAMOSA1 (RA1) in Land PlantsBellino Ambort, Carolina DianelaHerrera, Fernando EnriqueRodrigues, Daniel EnriqueGaray, A. SergioHuck, Sofía VictoriaReinheimer, RenataZINC FINGEREMBRYOPHYTEPHYLOGENYPARALOGSCOLLINEARITYNUCLEAR LOCALIZATIONSECONDARY STRUCTUREDIVERGENT MOTIFSPROMOTERhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1RAMOSA1 (RA1) is a Cys2-His2-type (C2H2) zinc finger transcription factor that controlsplant meristem fate and identity and has played an important role in maize domestication. Despiteits importance, the origin of RA1 is unknown, and the evolution in plants is only partially understood.In this paper, we present a well-resolved phylogeny based on 73 amino acid sequences from48 embryophyte species. The recovered tree topology indicates that, during grass evolution, RA1arose from two consecutive SUPERMAN duplications, resulting in three distinct grass sequencelineages: RA1-like A, RA1-like B, and RA1; however, most of these copies have unknown functions.Our findings indicate that RA1 and RA1-like play roles in the nucleus despite lacking a traditionalnuclear localization signal. Here, we report that copies diversified their coding region and, with it,their protein structure, suggesting different patterns of DNA binding and protein–protein interaction.In addition, each of the retained copies diversified regulatory elements along their promoter regions,indicating differences in their upstream regulation. Taken together, the evidence indicates that theRA1 and RA1-like gene families in grasses underwent subfunctionalization and neofunctionalizationenabled by gene duplication.Fil: Bellino Ambort, Carolina Dianela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; ArgentinaFil: Herrera, Fernando Enrique. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Rodrigues, Daniel Enrique. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Garay, A. Sergio. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; ArgentinaFil: Huck, Sofía Victoria. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; ArgentinaFil: Reinheimer, Renata. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; ArgentinaMDPI2024-05info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/235408Bellino Ambort, Carolina Dianela; Herrera, Fernando Enrique; Rodrigues, Daniel Enrique; Garay, A. Sergio; Huck, Sofía Victoria; et al.; Molecular Evolution of RAMOSA1 (RA1) in Land Plants; MDPI; Biomolecules; 14; 5; 5-2024; 1-212218-273XCONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://www.mdpi.com/2218-273X/14/5/550info:eu-repo/semantics/altIdentifier/doi/10.3390/biom14050550info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-22T12:15:52Zoai:ri.conicet.gov.ar:11336/235408instacron: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:34982025-10-22 12:15:52.354CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Molecular Evolution of RAMOSA1 (RA1) in Land Plants
title Molecular Evolution of RAMOSA1 (RA1) in Land Plants
spellingShingle Molecular Evolution of RAMOSA1 (RA1) in Land Plants
Bellino Ambort, Carolina Dianela
ZINC FINGER
EMBRYOPHYTE
PHYLOGENY
PARALOGS
COLLINEARITY
NUCLEAR LOCALIZATION
SECONDARY STRUCTURE
DIVERGENT MOTIFS
PROMOTER
title_short Molecular Evolution of RAMOSA1 (RA1) in Land Plants
title_full Molecular Evolution of RAMOSA1 (RA1) in Land Plants
title_fullStr Molecular Evolution of RAMOSA1 (RA1) in Land Plants
title_full_unstemmed Molecular Evolution of RAMOSA1 (RA1) in Land Plants
title_sort Molecular Evolution of RAMOSA1 (RA1) in Land Plants
dc.creator.none.fl_str_mv Bellino Ambort, Carolina Dianela
Herrera, Fernando Enrique
Rodrigues, Daniel Enrique
Garay, A. Sergio
Huck, Sofía Victoria
Reinheimer, Renata
author Bellino Ambort, Carolina Dianela
author_facet Bellino Ambort, Carolina Dianela
Herrera, Fernando Enrique
Rodrigues, Daniel Enrique
Garay, A. Sergio
Huck, Sofía Victoria
Reinheimer, Renata
author_role author
author2 Herrera, Fernando Enrique
Rodrigues, Daniel Enrique
Garay, A. Sergio
Huck, Sofía Victoria
Reinheimer, Renata
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv ZINC FINGER
EMBRYOPHYTE
PHYLOGENY
PARALOGS
COLLINEARITY
NUCLEAR LOCALIZATION
SECONDARY STRUCTURE
DIVERGENT MOTIFS
PROMOTER
topic ZINC FINGER
EMBRYOPHYTE
PHYLOGENY
PARALOGS
COLLINEARITY
NUCLEAR LOCALIZATION
SECONDARY STRUCTURE
DIVERGENT MOTIFS
PROMOTER
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv RAMOSA1 (RA1) is a Cys2-His2-type (C2H2) zinc finger transcription factor that controlsplant meristem fate and identity and has played an important role in maize domestication. Despiteits importance, the origin of RA1 is unknown, and the evolution in plants is only partially understood.In this paper, we present a well-resolved phylogeny based on 73 amino acid sequences from48 embryophyte species. The recovered tree topology indicates that, during grass evolution, RA1arose from two consecutive SUPERMAN duplications, resulting in three distinct grass sequencelineages: RA1-like A, RA1-like B, and RA1; however, most of these copies have unknown functions.Our findings indicate that RA1 and RA1-like play roles in the nucleus despite lacking a traditionalnuclear localization signal. Here, we report that copies diversified their coding region and, with it,their protein structure, suggesting different patterns of DNA binding and protein–protein interaction.In addition, each of the retained copies diversified regulatory elements along their promoter regions,indicating differences in their upstream regulation. Taken together, the evidence indicates that theRA1 and RA1-like gene families in grasses underwent subfunctionalization and neofunctionalizationenabled by gene duplication.
Fil: Bellino Ambort, Carolina Dianela. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Herrera, Fernando Enrique. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Rodrigues, Daniel Enrique. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Garay, A. Sergio. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina
Fil: Huck, Sofía Victoria. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
Fil: Reinheimer, Renata. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe. Instituto de Agrobiotecnología del Litoral. Universidad Nacional del Litoral. Instituto de Agrobiotecnología del Litoral; Argentina
description RAMOSA1 (RA1) is a Cys2-His2-type (C2H2) zinc finger transcription factor that controlsplant meristem fate and identity and has played an important role in maize domestication. Despiteits importance, the origin of RA1 is unknown, and the evolution in plants is only partially understood.In this paper, we present a well-resolved phylogeny based on 73 amino acid sequences from48 embryophyte species. The recovered tree topology indicates that, during grass evolution, RA1arose from two consecutive SUPERMAN duplications, resulting in three distinct grass sequencelineages: RA1-like A, RA1-like B, and RA1; however, most of these copies have unknown functions.Our findings indicate that RA1 and RA1-like play roles in the nucleus despite lacking a traditionalnuclear localization signal. Here, we report that copies diversified their coding region and, with it,their protein structure, suggesting different patterns of DNA binding and protein–protein interaction.In addition, each of the retained copies diversified regulatory elements along their promoter regions,indicating differences in their upstream regulation. Taken together, the evidence indicates that theRA1 and RA1-like gene families in grasses underwent subfunctionalization and neofunctionalizationenabled by gene duplication.
publishDate 2024
dc.date.none.fl_str_mv 2024-05
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/11336/235408
Bellino Ambort, Carolina Dianela; Herrera, Fernando Enrique; Rodrigues, Daniel Enrique; Garay, A. Sergio; Huck, Sofía Victoria; et al.; Molecular Evolution of RAMOSA1 (RA1) in Land Plants; MDPI; Biomolecules; 14; 5; 5-2024; 1-21
2218-273X
CONICET Digital
CONICET
url http://hdl.handle.net/11336/235408
identifier_str_mv Bellino Ambort, Carolina Dianela; Herrera, Fernando Enrique; Rodrigues, Daniel Enrique; Garay, A. Sergio; Huck, Sofía Victoria; et al.; Molecular Evolution of RAMOSA1 (RA1) in Land Plants; MDPI; Biomolecules; 14; 5; 5-2024; 1-21
2218-273X
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.mdpi.com/2218-273X/14/5/550
info:eu-repo/semantics/altIdentifier/doi/10.3390/biom14050550
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv MDPI
publisher.none.fl_str_mv MDPI
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 12.982451

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