title: Differential proteomics reveals the hallmarks of seed development in common bean (Phaseolus vulgaris L.).
abstract: Common bean (Phaseolus vulgaris L.) is one of the most consumed staple foods worldwide. Little is known about the molecular mechanisms controlling seed development. This study aims to comprehensively describe proteome dynamics during seed development of common bean. A high-throughput gel-free proteomics approach (LC-MS/MS) was conducted on seeds at 10, 20, 30 and 40days after anthesis, spanning from late embryogenesis until desiccation. Of the 418 differentially accumulated proteins identified, 255 were characterized, most belonging to protein metabolism. An accumulation of proteins belonging to the MapMan functional categories of "protein", "glycolysis", "TCA", "DNA", "RNA", "cell" and "stress" were found at early seed development stages, reflecting an extensive metabolic activity. In the mid stages, accumulation of storage, signaling, starch synthesis and cell wall-related proteins stood out. In the later stages, an increase in proteins related to redox, protein degradation/modification/folding and nucleic acid metabolisms reflect that seed desiccation-resistance mechanisms were activated. Our study unveils new clues to understand the regulation of seed development mediated by post-translational modifications and maintenance of genome integrity. This knowledge enhances the understanding on seed development molecular mechanisms that may be used in the design and selection of common bean seeds with desired quality traits.
  
  
  
  Common bean (P. vulgaris) is an important source of proteins and carbohydrates worldwide. Despite the agronomic and economic importance of this pulse, knowledge on common bean seed development is limited. Herein, a gel-free high throughput methodology was used to describe the proteome changes during P. vulgaris seed development. Data obtained will enhance the knowledge on the molecular mechanisms controlling this grain legume seed development and may be used in the design and selection of common bean seeds with desired quality traits. Results may be extrapolated to other pulses.
authors.affiliation: Plant Cell Biotechnology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Av. da República, Estação Agronómica Nacional, 2780-157 Oeiras, Portugal.
authors.forename: J R
authors.initials: JR
authors.lastname: Parreira
authors.affiliation: Biomolecular Mass Spectrometry and Proteomics, Bijvoet Centre for Biomolecular Research, Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Netherlands Proteomics Centre, Padualaan 8, 3584CH Utrecht, The Netherlands.
authors.forename: J
authors.initials: J
authors.lastname: Bouraada
authors.affiliation: Biomolecular Mass Spectrometry and Proteomics, Bijvoet Centre for Biomolecular Research, Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Netherlands Proteomics Centre, Padualaan 8, 3584CH Utrecht, The Netherlands.
authors.forename: M A
authors.initials: MA
authors.lastname: Fitzpatrick
authors.affiliation: Plant Functional Genomics Group, Biosystems and Integrative Sciences Institute (BioISI), Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal; Departamento de Biologia Vegetal, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal.
authors.forename: S
authors.initials: S
authors.lastname: Silvestre
authors.affiliation: Plant Functional Genomics Group, Biosystems and Integrative Sciences Institute (BioISI), Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal; Departamento de Biologia Vegetal, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal.
authors.forename: A
authors.initials: A
authors.lastname: Bernardes da Silva
authors.affiliation: Plant Functional Genomics Group, Biosystems and Integrative Sciences Institute (BioISI), Faculdade de Ciências, Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal; Departamento de Biologia Vegetal, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal.
authors.forename: J
authors.initials: J
authors.lastname: Marques da Silva
authors.affiliation: Plant Cell Biotechnology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Av. da República, Estação Agronómica Nacional, 2780-157 Oeiras, Portugal.
authors.forename: A M
authors.initials: AM
authors.lastname: Almeida
authors.affiliation: Plant Cell Biotechnology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Av. da República, Estação Agronómica Nacional, 2780-157 Oeiras, Portugal; Departamento de Biologia Vegetal, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, 1749-016, Lisboa, Portugal.
authors.forename: P
authors.initials: P
authors.lastname: Fevereiro
authors.affiliation: Biomolecular Mass Spectrometry and Proteomics, Bijvoet Centre for Biomolecular Research, Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Netherlands Proteomics Centre, Padualaan 8, 3584CH Utrecht, The Netherlands.
authors.forename: A F M
authors.initials: AFM
authors.lastname: Altelaar
authors.affiliation: Plant Cell Biotechnology Laboratory, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB-NOVA), Av. da República, Estação Agronómica Nacional, 2780-157 Oeiras, Portugal; Plant Biotechnology Laboratory, Department of Biology and Biotechnology, 'L. Spallanzani', University of Pavia, via Ferrata 1, 27100 Pavia, Italy. Electronic address: saraujo@itqb.unl.pt.
authors.forename: S S
authors.initials: SS
authors.lastname: Araújo
mesh_terms: D002853:Chromatography, Liquid; D018506:Gene Expression Regulation, Plant; D027805:Phaseolus / Q000737:chemistry / Q000196:embryology*; D010940:Plant Proteins / Q000378:metabolism; D040901:Proteomics / Q000379:methods*; D012639:Seeds / Q000737:chemistry / Q000254:growth & development*; D053719:Tandem Mass Spectrometry
chemical_list: D010940:Plant Proteins
keywords: Common bean; Legume; Seed development; Shotgun proteomics