The protein expression landscape of the Arabidopsis root.

TitleThe protein expression landscape of the Arabidopsis root.
Publication TypeJournal Article
Year of Publication2012
AuthorsPetricka, JJ, Schauer, MA, Megraw, M, Breakfield, NW, J Thompson, W, Georgiev, S, Soderblom, EJ, Ohler, U, Moseley, MArthur, Grossniklaus, U, Benfey, PN
JournalProc Natl Acad Sci U S A
Date Published2012 May 1
KeywordsArabidopsis, Arabidopsis Proteins, Base Sequence, Chromatography, Liquid, DNA Primers, Gene Expression Profiling, Plant Roots, Plants, Genetically Modified, Protein Array Analysis, Protein Interaction Mapping, Proteome, Proteomics, RNA, Plant, Tandem Mass Spectrometry

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.

Alternate JournalProc. Natl. Acad. Sci. U.S.A.
PubMed ID22447775
PubMed Central IDPMC3344980
Grant List1P50-GM081883 / GM / NIGMS NIH HHS / United States
F32GM086976 / GM / NIGMS NIH HHS / United States