Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system

Autores
Lencina, Franco Daniel; Prina, Alberto Raul; Pacheco, Maria Gabriela; Kobayashi, Ken; Landau, Alejandra Mabel
Año de publicación
2025
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
A mutation detection strategy based on mismatch digestion was applied previously in barley seedlings carrying the chloroplast mutator (cpm) genotype through many generations. Sixty-one mutations were detected along with four large indels: a 15 bp insertion in the intergenic region between tRNAHis and rps19 genes, a 620 bp deletion in the psbA gene, a 79 bp deletion in the intergenic region between rpl33 and rps18 genes and a 45 bp deletion in the rps3 gene. The present investigation aims to understand the mechanisms producing the large indels and to better characterize the cpm mutagenic effect. Whole plastome sequencing revealed novel polymorphisms that were identified either in regions not previously examined or in regions that were explored but not detected through celery juice extract (CJE) digestion. The 620 bp deletion in the psbA gene was lethal when homoplastomic, whereas the 45 bp deletion in the rps3 gene did not affect the viability of the seedlings even in homoplastomy. The presence of direct repeats at the borders of large indels suggests that they could have originated by illegitimate recombination because of CPM protein malfunction. A truncated mismatch repair MSH1 protein identified in cpm seedlings suggests that CPM is involved in organellar genome stability maintenance.
Instituto de Genética
Fil: Lencina, Franco Daniel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
Fil: Prina, Alberto Raul. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
Fil: Pacheco, Maria Gabriela. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
Fil: Kobayashi, Ken. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Biodiversidad y Biología Experimental y Aplicada. Departamento de Fisiología, Biología Molecular y Celular. Laboratorio de Agrobiotecnología; Argentina
Fil: Landau, Alejandra Mabel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
Fuente
International Journal of Molecular Sciences 26 (17) : 8644 (September 2025)
Materia
Chloroplast DNA
Cytoplasmic Organelles
Barley
Mutation
ADN Cloroplástico
Orgánulo Citoplasmico
Cebada
Mutación
Plastome
Plastoma
Nivel de accesibilidad
acceso abierto
Condiciones de uso
http://creativecommons.org/licenses/by-nc-sa/4.0/
Repositorio
INTA Digital (INTA)
Institución
Instituto Nacional de Tecnología Agropecuaria
OAI Identificador
oai:localhost:20.500.12123/23777
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oai_identifier_str oai:localhost:20.500.12123/23777
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network_name_str INTA Digital (INTA)
spelling Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR systemLencina, Franco DanielPrina, Alberto RaulPacheco, Maria GabrielaKobayashi, KenLandau, Alejandra MabelChloroplast DNACytoplasmic OrganellesBarleyMutationADN CloroplásticoOrgánulo CitoplasmicoCebadaMutaciónPlastomePlastomaA mutation detection strategy based on mismatch digestion was applied previously in barley seedlings carrying the chloroplast mutator (cpm) genotype through many generations. Sixty-one mutations were detected along with four large indels: a 15 bp insertion in the intergenic region between tRNAHis and rps19 genes, a 620 bp deletion in the psbA gene, a 79 bp deletion in the intergenic region between rpl33 and rps18 genes and a 45 bp deletion in the rps3 gene. The present investigation aims to understand the mechanisms producing the large indels and to better characterize the cpm mutagenic effect. Whole plastome sequencing revealed novel polymorphisms that were identified either in regions not previously examined or in regions that were explored but not detected through celery juice extract (CJE) digestion. The 620 bp deletion in the psbA gene was lethal when homoplastomic, whereas the 45 bp deletion in the rps3 gene did not affect the viability of the seedlings even in homoplastomy. The presence of direct repeats at the borders of large indels suggests that they could have originated by illegitimate recombination because of CPM protein malfunction. A truncated mismatch repair MSH1 protein identified in cpm seedlings suggests that CPM is involved in organellar genome stability maintenance.Instituto de GenéticaFil: Lencina, Franco Daniel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; ArgentinaFil: Prina, Alberto Raul. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; ArgentinaFil: Pacheco, Maria Gabriela. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; ArgentinaFil: Kobayashi, Ken. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Biodiversidad y Biología Experimental y Aplicada. Departamento de Fisiología, Biología Molecular y Celular. Laboratorio de Agrobiotecnología; ArgentinaFil: Landau, Alejandra Mabel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; ArgentinaMDPI2025-09-11T13:16:37Z2025-09-11T13:16:37Z2025-09info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/23777https://www.mdpi.com/1422-0067/26/17/86441422-0067https://doi.org/10.3390/ijms26178644International Journal of Molecular Sciences 26 (17) : 8644 (September 2025)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo:eu-repograntAgreement/INTA/2019-PE-E6-I115-001, Edición génica, transgénesis y mutagénesis como generadores de nueva variabilidad en especies de interés agropecuarioinfo:eu-repograntAgreement/INTA/PNBIO/1131024/AR./Desarrollo de sistemas alternativos de generación y utilización de variabilidad genética y su aplicación al mejoramiento de los cultivos.info:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by-nc-sa/4.0/Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)2025-09-29T13:47:31Zoai:localhost:20.500.12123/23777instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-09-29 13:47:32.119INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
title Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
spellingShingle Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
Lencina, Franco Daniel
Chloroplast DNA
Cytoplasmic Organelles
Barley
Mutation
ADN Cloroplástico
Orgánulo Citoplasmico
Cebada
Mutación
Plastome
Plastoma
title_short Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
title_full Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
title_fullStr Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
title_full_unstemmed Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
title_sort Four large indels in barley chloroplast mutator (cpm) seedlings reinforce the hypothesis of a malfunction in the MMR system
dc.creator.none.fl_str_mv Lencina, Franco Daniel
Prina, Alberto Raul
Pacheco, Maria Gabriela
Kobayashi, Ken
Landau, Alejandra Mabel
author Lencina, Franco Daniel
author_facet Lencina, Franco Daniel
Prina, Alberto Raul
Pacheco, Maria Gabriela
Kobayashi, Ken
Landau, Alejandra Mabel
author_role author
author2 Prina, Alberto Raul
Pacheco, Maria Gabriela
Kobayashi, Ken
Landau, Alejandra Mabel
author2_role author
author
author
author
dc.subject.none.fl_str_mv Chloroplast DNA
Cytoplasmic Organelles
Barley
Mutation
ADN Cloroplástico
Orgánulo Citoplasmico
Cebada
Mutación
Plastome
Plastoma
topic Chloroplast DNA
Cytoplasmic Organelles
Barley
Mutation
ADN Cloroplástico
Orgánulo Citoplasmico
Cebada
Mutación
Plastome
Plastoma
dc.description.none.fl_txt_mv A mutation detection strategy based on mismatch digestion was applied previously in barley seedlings carrying the chloroplast mutator (cpm) genotype through many generations. Sixty-one mutations were detected along with four large indels: a 15 bp insertion in the intergenic region between tRNAHis and rps19 genes, a 620 bp deletion in the psbA gene, a 79 bp deletion in the intergenic region between rpl33 and rps18 genes and a 45 bp deletion in the rps3 gene. The present investigation aims to understand the mechanisms producing the large indels and to better characterize the cpm mutagenic effect. Whole plastome sequencing revealed novel polymorphisms that were identified either in regions not previously examined or in regions that were explored but not detected through celery juice extract (CJE) digestion. The 620 bp deletion in the psbA gene was lethal when homoplastomic, whereas the 45 bp deletion in the rps3 gene did not affect the viability of the seedlings even in homoplastomy. The presence of direct repeats at the borders of large indels suggests that they could have originated by illegitimate recombination because of CPM protein malfunction. A truncated mismatch repair MSH1 protein identified in cpm seedlings suggests that CPM is involved in organellar genome stability maintenance.
Instituto de Genética
Fil: Lencina, Franco Daniel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
Fil: Prina, Alberto Raul. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
Fil: Pacheco, Maria Gabriela. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
Fil: Kobayashi, Ken. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Biodiversidad y Biología Experimental y Aplicada. Departamento de Fisiología, Biología Molecular y Celular. Laboratorio de Agrobiotecnología; Argentina
Fil: Landau, Alejandra Mabel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina
description A mutation detection strategy based on mismatch digestion was applied previously in barley seedlings carrying the chloroplast mutator (cpm) genotype through many generations. Sixty-one mutations were detected along with four large indels: a 15 bp insertion in the intergenic region between tRNAHis and rps19 genes, a 620 bp deletion in the psbA gene, a 79 bp deletion in the intergenic region between rpl33 and rps18 genes and a 45 bp deletion in the rps3 gene. The present investigation aims to understand the mechanisms producing the large indels and to better characterize the cpm mutagenic effect. Whole plastome sequencing revealed novel polymorphisms that were identified either in regions not previously examined or in regions that were explored but not detected through celery juice extract (CJE) digestion. The 620 bp deletion in the psbA gene was lethal when homoplastomic, whereas the 45 bp deletion in the rps3 gene did not affect the viability of the seedlings even in homoplastomy. The presence of direct repeats at the borders of large indels suggests that they could have originated by illegitimate recombination because of CPM protein malfunction. A truncated mismatch repair MSH1 protein identified in cpm seedlings suggests that CPM is involved in organellar genome stability maintenance.
publishDate 2025
dc.date.none.fl_str_mv 2025-09-11T13:16:37Z
2025-09-11T13:16:37Z
2025-09
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/20.500.12123/23777
https://www.mdpi.com/1422-0067/26/17/8644
1422-0067
https://doi.org/10.3390/ijms26178644
url http://hdl.handle.net/20.500.12123/23777
https://www.mdpi.com/1422-0067/26/17/8644
https://doi.org/10.3390/ijms26178644
identifier_str_mv 1422-0067
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repograntAgreement/INTA/2019-PE-E6-I115-001, Edición génica, transgénesis y mutagénesis como generadores de nueva variabilidad en especies de interés agropecuario
info:eu-repograntAgreement/INTA/PNBIO/1131024/AR./Desarrollo de sistemas alternativos de generación y utilización de variabilidad genética y su aplicación al mejoramiento de los cultivos.
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
http://creativecommons.org/licenses/by-nc-sa/4.0/
Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
eu_rights_str_mv openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by-nc-sa/4.0/
Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv MDPI
publisher.none.fl_str_mv MDPI
dc.source.none.fl_str_mv International Journal of Molecular Sciences 26 (17) : 8644 (September 2025)
reponame:INTA Digital (INTA)
instname:Instituto Nacional de Tecnología Agropecuaria
reponame_str INTA Digital (INTA)
collection INTA Digital (INTA)
instname_str Instituto Nacional de Tecnología Agropecuaria
repository.name.fl_str_mv INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria
repository.mail.fl_str_mv tripaldi.nicolas@inta.gob.ar
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score 12.558318

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