Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex

Autores
San Eufrasio, Bonoso; Bigatton, Ezequiel Darío; Guerrero Sánchez, Victor M.; Chaturvedi, Palak; Jorrín Novo, Jesús V.; Rey, María Dolores; Castillejo Sánchez, María Ángeles
Año de publicación
2021
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Drought is one of the main causes of mortality in holm oak (Quercus ilex) seedlings used in reforestation programs. Although this species shows high adaptability to the extreme climate conditions prevailing in Southern Spain, its intrinsic genetic variability may play a role in the differential response of some populations and individuals. The aim of this work was to identify proteins and derived proteotypic peptides potentially useful as putative markers for drought tolerance in holm oak by using a targeted post-acquisition proteomics approach. For this purpose, we used a set of proteins identified by shotgun (LC-MSMS) analysis in a drought experiment on Q. ilex seedlings from four different provenances (viz. the Andalusian provinces Granada, Huelva, Cadiz and Seville). A double strategy involving the quantification of proteins and target peptides by shotgun analysis and post-acquisition data analysis based on proteotypic peptides was used. To this end, an initial list of proteotypic peptides from proteins highly represented under drought conditions was compiled that was used in combination with the raw files from the shotgun experiment to quantify the relative abundance of the fragment’s ion peaks with the software Skyline. The most abundant peptides under drought conditions in at least two populations were selected as putative markers of drought tolerance. A total of 30 proteins and 46 derived peptides belonging to the redox, stress-related, synthesis,-folding and degradation, and primary and secondary metabolism functional groups were thus identified. Two proteins (viz., subtilisin and chaperone GrpE protein) were found at increased levels in three populations, which make them especially interesting for validation drought tolerance markers in subsequent experiments.
Fil: San Eufrasio, Bonoso. Universidad de Córdoba; España
Fil: Bigatton, Ezequiel Darío. Universidad de Córdoba; España. Universidad Nacional de Córdoba. Facultad de Ciencias Agropecuarias. Departamento de Recursos Naturales. Cátedra de Microbiología Agrícola; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba; Argentina
Fil: Guerrero Sánchez, Victor M.. Universidad de Córdoba; España
Fil: Chaturvedi, Palak. Vienna University of Technology; Austria
Fil: Jorrín Novo, Jesús V.. Universidad de Córdoba; España
Fil: Rey, María Dolores. Universidad de Córdoba; España
Fil: Castillejo Sánchez, María Ángeles. Universidad de Córdoba; España
Materia
DROUGHT TOLERANCE
PEPTIDE MARKERS
QUERCUS ILEX
TARGETED POST-ACQUISITION PROTEOMICS
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:11336/151896
Acceder
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network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilexSan Eufrasio, BonosoBigatton, Ezequiel DaríoGuerrero Sánchez, Victor M.Chaturvedi, PalakJorrín Novo, Jesús V.Rey, María DoloresCastillejo Sánchez, María ÁngelesDROUGHT TOLERANCEPEPTIDE MARKERSQUERCUS ILEXTARGETED POST-ACQUISITION PROTEOMICShttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Drought is one of the main causes of mortality in holm oak (Quercus ilex) seedlings used in reforestation programs. Although this species shows high adaptability to the extreme climate conditions prevailing in Southern Spain, its intrinsic genetic variability may play a role in the differential response of some populations and individuals. The aim of this work was to identify proteins and derived proteotypic peptides potentially useful as putative markers for drought tolerance in holm oak by using a targeted post-acquisition proteomics approach. For this purpose, we used a set of proteins identified by shotgun (LC-MSMS) analysis in a drought experiment on Q. ilex seedlings from four different provenances (viz. the Andalusian provinces Granada, Huelva, Cadiz and Seville). A double strategy involving the quantification of proteins and target peptides by shotgun analysis and post-acquisition data analysis based on proteotypic peptides was used. To this end, an initial list of proteotypic peptides from proteins highly represented under drought conditions was compiled that was used in combination with the raw files from the shotgun experiment to quantify the relative abundance of the fragment’s ion peaks with the software Skyline. The most abundant peptides under drought conditions in at least two populations were selected as putative markers of drought tolerance. A total of 30 proteins and 46 derived peptides belonging to the redox, stress-related, synthesis,-folding and degradation, and primary and secondary metabolism functional groups were thus identified. Two proteins (viz., subtilisin and chaperone GrpE protein) were found at increased levels in three populations, which make them especially interesting for validation drought tolerance markers in subsequent experiments.Fil: San Eufrasio, Bonoso. Universidad de Córdoba; EspañaFil: Bigatton, Ezequiel Darío. Universidad de Córdoba; España. Universidad Nacional de Córdoba. Facultad de Ciencias Agropecuarias. Departamento de Recursos Naturales. Cátedra de Microbiología Agrícola; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba; ArgentinaFil: Guerrero Sánchez, Victor M.. Universidad de Córdoba; EspañaFil: Chaturvedi, Palak. Vienna University of Technology; AustriaFil: Jorrín Novo, Jesús V.. Universidad de Córdoba; EspañaFil: Rey, María Dolores. Universidad de Córdoba; EspañaFil: Castillejo Sánchez, María Ángeles. Universidad de Córdoba; EspañaMDPI2021-03info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/151896San Eufrasio, Bonoso; Bigatton, Ezequiel Darío; Guerrero Sánchez, Victor M.; Chaturvedi, Palak; Jorrín Novo, Jesús V.; et al.; Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex; MDPI; International Journal of Molecular Sciences; 22; 6; 3-2021; 1-171661-65961422-0067CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://www.mdpi.com/1422-0067/22/6/3191info:eu-repo/semantics/altIdentifier/doi/10.3390/ijms22063191info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:44:42Zoai:ri.conicet.gov.ar:11336/151896instacron: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:34982025-09-29 10:44:42.967CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
title Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
spellingShingle Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
San Eufrasio, Bonoso
DROUGHT TOLERANCE
PEPTIDE MARKERS
QUERCUS ILEX
TARGETED POST-ACQUISITION PROTEOMICS
title_short Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
title_full Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
title_fullStr Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
title_full_unstemmed Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
title_sort Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex
dc.creator.none.fl_str_mv San Eufrasio, Bonoso
Bigatton, Ezequiel Darío
Guerrero Sánchez, Victor M.
Chaturvedi, Palak
Jorrín Novo, Jesús V.
Rey, María Dolores
Castillejo Sánchez, María Ángeles
author San Eufrasio, Bonoso
author_facet San Eufrasio, Bonoso
Bigatton, Ezequiel Darío
Guerrero Sánchez, Victor M.
Chaturvedi, Palak
Jorrín Novo, Jesús V.
Rey, María Dolores
Castillejo Sánchez, María Ángeles
author_role author
author2 Bigatton, Ezequiel Darío
Guerrero Sánchez, Victor M.
Chaturvedi, Palak
Jorrín Novo, Jesús V.
Rey, María Dolores
Castillejo Sánchez, María Ángeles
author2_role author
author
author
author
author
author
dc.subject.none.fl_str_mv DROUGHT TOLERANCE
PEPTIDE MARKERS
QUERCUS ILEX
TARGETED POST-ACQUISITION PROTEOMICS
topic DROUGHT TOLERANCE
PEPTIDE MARKERS
QUERCUS ILEX
TARGETED POST-ACQUISITION PROTEOMICS
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Drought is one of the main causes of mortality in holm oak (Quercus ilex) seedlings used in reforestation programs. Although this species shows high adaptability to the extreme climate conditions prevailing in Southern Spain, its intrinsic genetic variability may play a role in the differential response of some populations and individuals. The aim of this work was to identify proteins and derived proteotypic peptides potentially useful as putative markers for drought tolerance in holm oak by using a targeted post-acquisition proteomics approach. For this purpose, we used a set of proteins identified by shotgun (LC-MSMS) analysis in a drought experiment on Q. ilex seedlings from four different provenances (viz. the Andalusian provinces Granada, Huelva, Cadiz and Seville). A double strategy involving the quantification of proteins and target peptides by shotgun analysis and post-acquisition data analysis based on proteotypic peptides was used. To this end, an initial list of proteotypic peptides from proteins highly represented under drought conditions was compiled that was used in combination with the raw files from the shotgun experiment to quantify the relative abundance of the fragment’s ion peaks with the software Skyline. The most abundant peptides under drought conditions in at least two populations were selected as putative markers of drought tolerance. A total of 30 proteins and 46 derived peptides belonging to the redox, stress-related, synthesis,-folding and degradation, and primary and secondary metabolism functional groups were thus identified. Two proteins (viz., subtilisin and chaperone GrpE protein) were found at increased levels in three populations, which make them especially interesting for validation drought tolerance markers in subsequent experiments.
Fil: San Eufrasio, Bonoso. Universidad de Córdoba; España
Fil: Bigatton, Ezequiel Darío. Universidad de Córdoba; España. Universidad Nacional de Córdoba. Facultad de Ciencias Agropecuarias. Departamento de Recursos Naturales. Cátedra de Microbiología Agrícola; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Córdoba; Argentina
Fil: Guerrero Sánchez, Victor M.. Universidad de Córdoba; España
Fil: Chaturvedi, Palak. Vienna University of Technology; Austria
Fil: Jorrín Novo, Jesús V.. Universidad de Córdoba; España
Fil: Rey, María Dolores. Universidad de Córdoba; España
Fil: Castillejo Sánchez, María Ángeles. Universidad de Córdoba; España
description Drought is one of the main causes of mortality in holm oak (Quercus ilex) seedlings used in reforestation programs. Although this species shows high adaptability to the extreme climate conditions prevailing in Southern Spain, its intrinsic genetic variability may play a role in the differential response of some populations and individuals. The aim of this work was to identify proteins and derived proteotypic peptides potentially useful as putative markers for drought tolerance in holm oak by using a targeted post-acquisition proteomics approach. For this purpose, we used a set of proteins identified by shotgun (LC-MSMS) analysis in a drought experiment on Q. ilex seedlings from four different provenances (viz. the Andalusian provinces Granada, Huelva, Cadiz and Seville). A double strategy involving the quantification of proteins and target peptides by shotgun analysis and post-acquisition data analysis based on proteotypic peptides was used. To this end, an initial list of proteotypic peptides from proteins highly represented under drought conditions was compiled that was used in combination with the raw files from the shotgun experiment to quantify the relative abundance of the fragment’s ion peaks with the software Skyline. The most abundant peptides under drought conditions in at least two populations were selected as putative markers of drought tolerance. A total of 30 proteins and 46 derived peptides belonging to the redox, stress-related, synthesis,-folding and degradation, and primary and secondary metabolism functional groups were thus identified. Two proteins (viz., subtilisin and chaperone GrpE protein) were found at increased levels in three populations, which make them especially interesting for validation drought tolerance markers in subsequent experiments.
publishDate 2021
dc.date.none.fl_str_mv 2021-03
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/11336/151896
San Eufrasio, Bonoso; Bigatton, Ezequiel Darío; Guerrero Sánchez, Victor M.; Chaturvedi, Palak; Jorrín Novo, Jesús V.; et al.; Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex; MDPI; International Journal of Molecular Sciences; 22; 6; 3-2021; 1-17
1661-6596
1422-0067
CONICET Digital
CONICET
url http://hdl.handle.net/11336/151896
identifier_str_mv San Eufrasio, Bonoso; Bigatton, Ezequiel Darío; Guerrero Sánchez, Victor M.; Chaturvedi, Palak; Jorrín Novo, Jesús V.; et al.; Proteomics Data Analysis for the Identification of Proteins and Derived Proteotypic Peptides of Potential Use as Putative Drought Tolerance Markers for Quercus ilex; MDPI; International Journal of Molecular Sciences; 22; 6; 3-2021; 1-17
1661-6596
1422-0067
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/1422-0067/22/6/3191
info:eu-repo/semantics/altIdentifier/doi/10.3390/ijms22063191
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 13.070432

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