02614nas a2200517 4500008004100000020004600041245014500087210006900232260001200301300001200313490000700325520091000332653004701242653005901289653002401348653003801372653002901410653001701439653002001456653002101476653002001497653003601517653003301553653003001586653004301616653004101659653004801700653003301748100001901781700001501800700001801815700001101833700001801844700001301862700002001875700001401895700001401909700002101923700001401944700002201958700001501980700001501995700001802010700001902028856004902047 2016 eng d a1878-1551 (Electronic)1534-5807 (Linking)00aEstablishment of Expression in the SHORTROOT-SCARECROW Transcriptional Cascade through Opposing Activities of Both Activators and Repressors0 aEstablishment of Expression in the SHORTROOTSCARECROW Transcript c12/2016 a585-5960 v393 a
Tissue-specific gene expression is often thought to arise from spatially restricted transcriptional cascades. However, it is unclear how expression is established at the top of these cascades in the absence of pre-existing specificity. We generated a transcriptional network to explore how transcription factor expression is established in the Arabidopsis thaliana root ground tissue. Regulators of the SHORTROOT-SCARECROW transcriptional cascade were validated in planta. At the top of this cascade, we identified both activators and repressors of SHORTROOT. The aggregate spatial expression of these regulators is not sufficient to predict transcriptional specificity. Instead, modeling, transcriptional reporters, and synthetic promoters support a mechanism whereby expression at the top of the SHORTROOT-SCARECROW cascade is established through opposing activities of activators and repressors.
10aArabidopsis Proteins/ genetics/ metabolism10aArabidopsis/ genetics/growth & development/ metabolism10aComputer Simulation10aGene Expression Regulation, Plant10aGene Regulatory Networks10aGenes, Plant10aGenes, Reporter10aGenes, Synthetic10aModels, Genetic10aPlant Roots/cytology/metabolism10aPlants, Genetically Modified10aPromoter Regions, Genetic10aRepressor Proteins/genetics/metabolism10aTrans-Activators/genetics/metabolism10aTranscription Factors/ genetics/ metabolism10aTwo-Hybrid System Techniques1 aSparks, E., E.1 aDrapek, C.1 aGaudinier, A.1 aLi, S.1 aAnsariola, M.1 aShen, N.1 aHennacy, J., H.1 aZhang, J.1 aTurco, G.1 aPetricka, J., J.1 aForet, J.1 aHartemink, A., J.1 aGordan, R.1 aMegraw, M.1 aBrady, S., M.1 aBenfey, P., N. uhttps://doi.org/10.1016/j.devcel.2016.09.03102378nas a2200433 4500008004100000022001400041245006200055210005700117260001500174300001100189490000800200520113300208653001601341653002501357653001801382653002701400653001601427653003001443653001601473653003301489653002701522653003201549653001301581653001501594653001501609653002901624100002401653700002301677700001801700700002701718700001901745700002101764700002301785700001501808700002801823700002301851700002201874856004801896 2012 eng d a1091-649000aThe protein expression landscape of the Arabidopsis root.0 aprotein expression landscape of the Arabidopsis root c2012 May 1 a6811-80 v1093 aBecause 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.
10aArabidopsis10aArabidopsis Proteins10aBase Sequence10aChromatography, Liquid10aDNA Primers10aGene Expression Profiling10aPlant Roots10aPlants, Genetically Modified10aProtein Array Analysis10aProtein Interaction Mapping10aProteome10aProteomics10aRNA, Plant10aTandem Mass Spectrometry1 aPetricka, Jalean, J1 aSchauer, Monica, A1 aMegraw, Molly1 aBreakfield, Natalie, W1 aThompson, Will1 aGeorgiev, Stoyan1 aSoderblom, Erik, J1 aOhler, Uwe1 aMoseley, Martin, Arthur1 aGrossniklaus, Ueli1 aBenfey, Philip, N uhttp://megraw.cgrb.oregonstate.edu/node/321