Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis
Global analysis of protein phosphorylation by mass spectrometry proteomic techniques has emerged in the last decades as a powerful tool in biological and biomedical research. However, there are several factors that make the global study of the phosphoproteome more challenging than measuring non-modi...
| Autores: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | artículo |
| Estado: | Versión publicada |
| Fecha de publicación: | 2022 |
| País: | España |
| Recursos: | Universidad Pública de Navarra |
| Repositorio: | Academica-e. Repositorio Institucional de la Universidad Pública de Navarra |
| OAI Identifier: | oai:academica-e.unavarra.es:2454/42711 |
| Acesso em linha: | https://hdl.handle.net/2454/42711 |
| Access Level: | acceso abierto |
| Palavra-chave: | Phosphoproteome Mass-spectrometry Proteomics Experiment |
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Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysisColomé, NúriaAbian, JoaquínAloria, KermanArizmendi, Jesús M.Barceló-Batllori, SilviaBraga-Lagache, SophieBurlet-Schiltz, OdileCarrascal, MontseCasal, Ignacio J.Chicano-Gálvez, EduardChiva, CristinaClemente, Luis F.Elortza, FélixEstanyol, Josep M.Fernández Irigoyen, JoaquínFernández-Puente, PatriciaFidalgo, María J.Froment, CarineFuentes, ManuelFuentes-Almagro, CarlosGay, MarinaHainard, AlexandreHeller, ManfredHernández, María LuisaIbarrola, NievesIloro, IbonKieselbach, ThomasLario, AntonioLocard-Paulet, MarieMarina-Ramírez, AnabelMartín, LunaMorato-López, EsperanzaMuñoz, JavierNavajas, RosanaOdena, Antonia M.Odriozola, LeticiaOliveira, Eliandre deParadela, AlbertoPasquarello, CarlaRios, Vivian de losRuiz-Romero, CristinaSabidó, EduardSánchez del Pino, ManuelSancho, JaimeSantamaría Martínez, EnriqueSchaeffer-Reiss, ChristineSchneider, JustineTorre, Carolina de laValero, Luz M.Vilaseca, MartaWu, ShuaiWu, LinfengXiménez de Embún, PilarCanals, FrancescCorrales, Fernando J.ProteoRed-ISCIIIEuPAPhosphoproteomeMass-spectrometryProteomicsExperimentGlobal analysis of protein phosphorylation by mass spectrometry proteomic techniques has emerged in the last decades as a powerful tool in biological and biomedical research. However, there are several factors that make the global study of the phosphoproteome more challenging than measuring non-modified proteins. The low stoichiometry of the phosphorylated species and the need to retrieve residue specific information require particular attention on sample preparation, data acquisition and processing to ensure reproducibility, qualitative and quantitative robustness and ample phosphoproteome coverage in phosphoproteomic workflows. Aiming to investigate the effect of different variables in the performance of proteome wide phosphoprotein analysis protocols, ProteoRed-ISCIII and EuPA launched the Proteomics Multicentric Experiment 11 (PME11). A reference sample consisting of a yeast protein extract spiked in with different amounts of a phosphomix standard (Sigma/Merck) was distributed to 31 laboratories around the globe. Thirty-six datasets from 23 laboratories were analyzed. Our results indicate the suitability of the PME11 reference sample to benchmark and optimize phosphoproteomics strategies, weighing the influence of different factors, as well as to rank intra and inter laboratory performance.ProteoRed, PRB3 is supported by grant PT17/0019/0001 , of the PE I+D+i 2013-2016 , funded by ISCIII and ERDF.ElsevierCiencias de la SaludOsasun Zientziak2022info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionapplication/pdfapplication/ziphttps://hdl.handle.net/2454/42711reponame:Academica-e. Repositorio Institucional de la Universidad Pública de Navarrainstname:Universidad Pública de NavarraInglés© 2021 The Authors. Creative Commons Attribution 4.0 Internationalhttps://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:academica-e.unavarra.es:2454/427112026-06-17T12:41:47Z |
| dc.title.none.fl_str_mv |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis |
| title |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis |
| spellingShingle |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis Colomé, Núria Phosphoproteome Mass-spectrometry Proteomics Experiment |
| title_short |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis |
| title_full |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis |
| title_fullStr |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis |
| title_full_unstemmed |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis |
| title_sort |
Multi-laboratory experiment PME11 for the standardization of phosphoproteome analysis |
| dc.creator.none.fl_str_mv |
Colomé, Núria Abian, Joaquín Aloria, Kerman Arizmendi, Jesús M. Barceló-Batllori, Silvia Braga-Lagache, Sophie Burlet-Schiltz, Odile Carrascal, Montse Casal, Ignacio J. Chicano-Gálvez, Eduard Chiva, Cristina Clemente, Luis F. Elortza, Félix Estanyol, Josep M. Fernández Irigoyen, Joaquín Fernández-Puente, Patricia Fidalgo, María J. Froment, Carine Fuentes, Manuel Fuentes-Almagro, Carlos Gay, Marina Hainard, Alexandre Heller, Manfred Hernández, María Luisa Ibarrola, Nieves Iloro, Ibon Kieselbach, Thomas Lario, Antonio Locard-Paulet, Marie Marina-Ramírez, Anabel Martín, Luna Morato-López, Esperanza Muñoz, Javier Navajas, Rosana Odena, Antonia M. Odriozola, Leticia Oliveira, Eliandre de Paradela, Alberto Pasquarello, Carla Rios, Vivian de los Ruiz-Romero, Cristina Sabidó, Eduard Sánchez del Pino, Manuel Sancho, Jaime Santamaría Martínez, Enrique Schaeffer-Reiss, Christine Schneider, Justine Torre, Carolina de la Valero, Luz M. Vilaseca, Marta Wu, Shuai Wu, Linfeng Ximénez de Embún, Pilar Canals, Francesc Corrales, Fernando J. ProteoRed-ISCIII EuPA |
| author |
Colomé, Núria |
| author_facet |
Colomé, Núria Abian, Joaquín Aloria, Kerman Arizmendi, Jesús M. Barceló-Batllori, Silvia Braga-Lagache, Sophie Burlet-Schiltz, Odile Carrascal, Montse Casal, Ignacio J. Chicano-Gálvez, Eduard Chiva, Cristina Clemente, Luis F. Elortza, Félix Estanyol, Josep M. Fernández Irigoyen, Joaquín Fernández-Puente, Patricia Fidalgo, María J. Froment, Carine Fuentes, Manuel Fuentes-Almagro, Carlos Gay, Marina Hainard, Alexandre Heller, Manfred Hernández, María Luisa Ibarrola, Nieves Iloro, Ibon Kieselbach, Thomas Lario, Antonio Locard-Paulet, Marie Marina-Ramírez, Anabel Martín, Luna Morato-López, Esperanza Muñoz, Javier Navajas, Rosana Odena, Antonia M. Odriozola, Leticia Oliveira, Eliandre de Paradela, Alberto Pasquarello, Carla Rios, Vivian de los Ruiz-Romero, Cristina Sabidó, Eduard Sánchez del Pino, Manuel Sancho, Jaime Santamaría Martínez, Enrique Schaeffer-Reiss, Christine Schneider, Justine Torre, Carolina de la Valero, Luz M. Vilaseca, Marta Wu, Shuai Wu, Linfeng Ximénez de Embún, Pilar Canals, Francesc Corrales, Fernando J. ProteoRed-ISCIII EuPA |
| author_role |
author |
| author2 |
Abian, Joaquín Aloria, Kerman Arizmendi, Jesús M. Barceló-Batllori, Silvia Braga-Lagache, Sophie Burlet-Schiltz, Odile Carrascal, Montse Casal, Ignacio J. Chicano-Gálvez, Eduard Chiva, Cristina Clemente, Luis F. Elortza, Félix Estanyol, Josep M. Fernández Irigoyen, Joaquín Fernández-Puente, Patricia Fidalgo, María J. Froment, Carine Fuentes, Manuel Fuentes-Almagro, Carlos Gay, Marina Hainard, Alexandre Heller, Manfred Hernández, María Luisa Ibarrola, Nieves Iloro, Ibon Kieselbach, Thomas Lario, Antonio Locard-Paulet, Marie Marina-Ramírez, Anabel Martín, Luna Morato-López, Esperanza Muñoz, Javier Navajas, Rosana Odena, Antonia M. Odriozola, Leticia Oliveira, Eliandre de Paradela, Alberto Pasquarello, Carla Rios, Vivian de los Ruiz-Romero, Cristina Sabidó, Eduard Sánchez del Pino, Manuel Sancho, Jaime Santamaría Martínez, Enrique Schaeffer-Reiss, Christine Schneider, Justine Torre, Carolina de la Valero, Luz M. Vilaseca, Marta Wu, Shuai Wu, Linfeng Ximénez de Embún, Pilar Canals, Francesc Corrales, Fernando J. ProteoRed-ISCIII EuPA |
| author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author |
| dc.contributor.none.fl_str_mv |
Ciencias de la Salud Osasun Zientziak |
| dc.subject.none.fl_str_mv |
Phosphoproteome Mass-spectrometry Proteomics Experiment |
| topic |
Phosphoproteome Mass-spectrometry Proteomics Experiment |
| description |
Global analysis of protein phosphorylation by mass spectrometry proteomic techniques has emerged in the last decades as a powerful tool in biological and biomedical research. However, there are several factors that make the global study of the phosphoproteome more challenging than measuring non-modified proteins. The low stoichiometry of the phosphorylated species and the need to retrieve residue specific information require particular attention on sample preparation, data acquisition and processing to ensure reproducibility, qualitative and quantitative robustness and ample phosphoproteome coverage in phosphoproteomic workflows. Aiming to investigate the effect of different variables in the performance of proteome wide phosphoprotein analysis protocols, ProteoRed-ISCIII and EuPA launched the Proteomics Multicentric Experiment 11 (PME11). A reference sample consisting of a yeast protein extract spiked in with different amounts of a phosphomix standard (Sigma/Merck) was distributed to 31 laboratories around the globe. Thirty-six datasets from 23 laboratories were analyzed. Our results indicate the suitability of the PME11 reference sample to benchmark and optimize phosphoproteomics strategies, weighing the influence of different factors, as well as to rank intra and inter laboratory performance. |
| publishDate |
2022 |
| dc.date.none.fl_str_mv |
2022 |
| 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 |
https://hdl.handle.net/2454/42711 |
| url |
https://hdl.handle.net/2454/42711 |
| dc.language.none.fl_str_mv |
Inglés |
| language_invalid_str_mv |
Inglés |
| dc.rights.none.fl_str_mv |
© 2021 The Authors. Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/ info:eu-repo/semantics/openAccess |
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© 2021 The Authors. Creative Commons Attribution 4.0 International https://creativecommons.org/licenses/by/4.0/ |
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openAccess |
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application/pdf application/zip |
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Elsevier |
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Elsevier |
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reponame:Academica-e. Repositorio Institucional de la Universidad Pública de Navarra instname:Universidad Pública de Navarra |
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Universidad Pública de Navarra |
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Academica-e. Repositorio Institucional de la Universidad Pública de Navarra |
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Academica-e. Repositorio Institucional de la Universidad Pública de Navarra |
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1869419212946014208 |
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15,811543 |