title: The protein expression landscape of the Arabidopsis root.
abstract: Because proteins are the major functional components of cells, knowledge of their cellular localization is crucial to gaining an understanding of the biology of multicellular organisms. We have generated a protein expression map of the Arabidopsis root providing the identity and cell type-specific localization of nearly 2,000 proteins. Grouping proteins into functional categories revealed unique cellular functions and identified cell type-specific biomarkers. Cellular colocalization provided support for numerous protein-protein interactions. With a binary comparison, we found that RNA and protein expression profiles are weakly correlated. We then performed peak integration at cell type-specific resolution and found an improved correlation with transcriptome data using continuous values. We performed GeLC-MS/MS (in-gel tryptic digestion followed by liquid chromatography-tandem mass spectrometry) proteomic experiments on mutants with ectopic and no root hairs, providing complementary proteomic data. Finally, among our root hair-specific proteins we identified two unique regulators of root hair development.
authors.affiliation: Department of Biology, Duke Center for Systems Biology, and Institute for Genome Sciences and Policy, Duke University, Durham, NC 27708, USA.
authors.forename: Jalean J
authors.initials: JJ
authors.lastname: Petricka
authors.forename: Monica A
authors.initials: MA
authors.lastname: Schauer
authors.forename: Molly
authors.initials: M
authors.lastname: Megraw
authors.forename: Natalie W
authors.initials: NW
authors.lastname: Breakfield
authors.forename: J Will
authors.initials: JW
authors.lastname: Thompson
authors.forename: Stoyan
authors.initials: S
authors.lastname: Georgiev
authors.forename: Erik J
authors.initials: EJ
authors.lastname: Soderblom
authors.forename: Uwe
authors.initials: U
authors.lastname: Ohler
authors.forename: Martin Arthur
authors.initials: MA
authors.lastname: Moseley
authors.forename: Ueli
authors.initials: U
authors.lastname: Grossniklaus
authors.forename: Philip N
authors.initials: PN
authors.lastname: Benfey
mesh_terms: D017360:Arabidopsis / Q000033:anatomy & histology / Q000235:genetics / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000235:genetics / Q000378:metabolism*; D001483:Base Sequence; D002853:Chromatography, Liquid; D017931:DNA Primers / Q000235:genetics; D020869:Gene Expression Profiling; D018517:Plant Roots / Q000033:anatomy & histology / Q000235:genetics / Q000378:metabolism; D030821:Plants, Genetically Modified; D040081:Protein Array Analysis; D025941:Protein Interaction Mapping; D020543:Proteome / Q000235:genetics / Q000378:metabolism; D040901:Proteomics; D018749:RNA, Plant / Q000235:genetics / Q000378:metabolism; D053719:Tandem Mass Spectrometry
chemical_list: D029681:Arabidopsis Proteins; D017931:DNA Primers; D020543:Proteome; D018749:RNA, Plant