title: Proteomic and phosphoproteomic analyses of chromatin-associated proteins from Arabidopsis thaliana.
abstract: The nucleus is the organelle where basically all DNA-related processes take place in eukaryotes, such as replication, transcription, and splicing as well as epigenetic regulation. The identification and description of the nuclear proteins is one of the requisites toward a comprehensive understanding of the biological functions accomplished in the nucleus. Many of the regulatory mechanisms of protein functions rely on their PTMs among which phosphorylation is probably one of the most important properties affecting enzymatic activity, interaction with other molecules, localization, or stability. So far, the nuclear and subnuclear proteome and phosphoproteome of the model plant Arabidopsis thaliana have been the subject of very few studies. In this work, we developed a purification protocol of Arabidopsis chromatin-associated proteins and performed proteomic and phosphoproteomic analyses identifying a total of 879 proteins of which 198 were phosphoproteins that were mainly involved in chromatin remodeling, transcriptional regulation, and RNA processing. From 230 precisely localized phosphorylation sites (phosphosites), 52 correspond to hitherto unidentified sites. This protocol and data thereby obtained should be a valuable resource for many domains of plant research.
authors.affiliation: Unité de Recherche en Génomique Végétale (URGV), UMR INRA/CNRS/Université d'Evry Val d'Essonne/Saclay Plant Sciences, Evry, France.
authors.forename: Jean
authors.initials: J
authors.lastname: Bigeard
authors.forename: Naganand
authors.initials: N
authors.lastname: Rayapuram
authors.forename: Ludovic
authors.initials: L
authors.lastname: Bonhomme
authors.forename: Heribert
authors.initials: H
authors.lastname: Hirt
authors.forename: Delphine
authors.initials: D
authors.lastname: Pflieger
mesh_terms: D000595:Amino Acid Sequence; D017360:Arabidopsis / Q000737:chemistry; D029681:Arabidopsis Proteins / Q000737:chemistry* / Q000145:classification / Q000378:metabolism; D002843:Chromatin / Q000737:chemistry* / Q000378:metabolism; D030562:Databases, Protein; D008969:Molecular Sequence Data; D009687:Nuclear Proteins / Q000737:chemistry* / Q000378:metabolism; D010750:Phosphoproteins / Q000737:chemistry* / Q000145:classification / Q000378:metabolism; D020543:Proteome / Q000032:analysis / Q000737:chemistry* / Q000378:metabolism
chemical_list: D029681:Arabidopsis Proteins; D002843:Chromatin; D009687:Nuclear Proteins; D010750:Phosphoproteins; D020543:Proteome
keywords: Arabidopsis thaliana; Chromatin; Nucleus; Phosphoproteomics; Plant proteomics