Genomes and Genes
Experts and Doctors on arabidopsis proteins in Durham, North Carolina, United States
Locale: Durham, North Carolina, United States
Topic: arabidopsis proteins
- Clarke J, Aarts N, Feys B, Dong X, Parker J. Constitutive disease resistance requires EDS1 in the Arabidopsis mutants cpr1 and cpr6 and is partially EDS1-dependent in cpr5. Plant J. 2001;26:409-20 pubmed..The data allow us to place EDS1 as a necessary downstream component of cpr1- and cpr6-mediated responses, but suggest a more complex relationship between EDS1 and cpr5 in plant defense. ..
- Anderson C, Wagner T, Perret M, He Z, He D, Kohorn B. WAKs: cell wall-associated kinases linking the cytoplasm to the extracellular matrix. Plant Mol Biol. 2001;47:197-206 pubmed..How WAKs are involved in signaling from the pectin extracellular matrix in coordination with GRPs will be key to our understanding of the cell wall's role in cell growth. ..
- Wang W, Barnaby J, Tada Y, Li H, Tör M, Caldelari D, et al. Timing of plant immune responses by a central circadian regulator. Nature. 2011;470:110-4 pubmed publisher..Temporal control of the defence genes by CCA1 differentiates their involvement in basal and R-gene-mediated defence. Our study has revealed a key functional link between the circadian clock and plant immunity. ..
- Song H, Golovkin M, Reddy A, Endow S. In vitro motility of AtKCBP, a calmodulin-binding kinesin protein of Arabidopsis. Proc Natl Acad Sci U S A. 1997;94:322-7 pubmed
- Tsukagoshi H, Busch W, Benfey P. Transcriptional regulation of ROS controls transition from proliferation to differentiation in the root. Cell. 2010;143:606-16 pubmed publisher..This pathway functions independently of auxin and cytokinin plant hormonal signaling. Comparison to ROS-regulated growth control in animals suggests that a similar mechanism is used in plants and animals. ..
- Sun T. The molecular mechanism and evolution of the GA-GID1-DELLA signaling module in plants. Curr Biol. 2011;21:R338-45 pubmed publisher..Interestingly, differentiation of the moss Physcomitrella patens is regulated by as yet unidentified ent-kaurene-derived diterpenes, which are distinct from the common active GAs in vascular plants. ..
- Spoel S, Mou Z, Tada Y, Spivey N, Genschik P, Dong X. Proteasome-mediated turnover of the transcription coactivator NPR1 plays dual roles in regulating plant immunity. Cell. 2009;137:860-72 pubmed publisher..These in vivo data demonstrate dual roles for coactivator turnover in both preventing and stimulating gene transcription to regulate plant immunity. ..
- Dixon D, van Lith M, Edwards R, Benham A. Cloning and initial characterization of the Arabidopsis thaliana endoplasmic reticulum oxidoreductins. Antioxid Redox Signal. 2003;5:389-96 pubmed..The ability to use a genetically tractable multicellular organism in combination with biochemical approaches should further our understanding of redox networks and Ero function in both plants and animals. ..
- Silverstone A, Ciampaglio C, Sun T. The Arabidopsis RGA gene encodes a transcriptional regulator repressing the gibberellin signal transduction pathway. Plant Cell. 1998;10:155-69 pubmed..Because the rga mutation abolished the high level of expression of the GA biosynthetic gene GA4 in the ga1-3 mutant background, we conclude that RGA may also play a role in controlling GA biosynthesis. ..
- Mosher R, Durrant W, Wang D, Song J, Dong X. A comprehensive structure-function analysis of Arabidopsis SNI1 defines essential regions and transcriptional repressor activity. Plant Cell. 2006;18:1750-65 pubmed publisher..The structural similarity of SNI1 to Armadillo repeat proteins implies that SNI1 may form a scaffold for interaction with proteins that modulate transcription...
- Bowling S, Clarke J, Liu Y, Klessig D, Dong X. The cpr5 mutant of Arabidopsis expresses both NPR1-dependent and NPR1-independent resistance. Plant Cell. 1997;9:1573-84 pubmed..Identification of this mutation indicates that these pathways are connected in early signal transduction steps and that they have overlapping functions in providing resistance. ..
- Casson S, Topping J, Lindsey K. MERISTEM-DEFECTIVE, an RS domain protein, is required for the correct meristem patterning and function in Arabidopsis. Plant J. 2009;57:857-69 pubmed publisher..These results demonstrate a requirement for the MDF-dependent pathway in regulating PIN/PLT- and WUS/CLV-mediated meristem activity. ..
- Gallagher K, Benfey P. Both the conserved GRAS domain and nuclear localization are required for SHORT-ROOT movement. Plant J. 2009;57:785-97 pubmed publisher..Finally, we provide evidence that movement requires both cytoplasmic and nuclear localization, strongly suggesting a mechanistic link between nuclear transport and cell-to-cell movement. ..
- Zentella R, Zhang Z, Park M, Thomas S, Endo A, Murase K, et al. Global analysis of della direct targets in early gibberellin signaling in Arabidopsis. Plant Cell. 2007;19:3037-57 pubmed..In addition, one of the putative DELLA targets, XERICO, promotes accumulation of abscisic acid (ABA) that antagonizes GA effects. Therefore, DELLA may restrict GA-promoted processes by modulating both GA and ABA pathways. ..
- Hrabak E, Chan C, Gribskov M, Harper J, Choi J, Halford N, et al. The Arabidopsis CDPK-SnRK superfamily of protein kinases. Plant Physiol. 2003;132:666-80 pubmed..The PlantsP database provides a resource of continuously updated information on protein kinases from Arabidopsis and other plants. ..
- Cui H, Benfey P. Interplay between SCARECROW, GA and LIKE HETEROCHROMATIN PROTEIN 1 in ground tissue patterning in the Arabidopsis root. Plant J. 2009;58:1016-27 pubmed publisher..Together, these results suggest that epigenetic regulation is probably the common basis for SCR and GA activity in cortex cell proliferation. ..
- Lee J, Colinas J, Wang J, Mace D, Ohler U, Benfey P. Transcriptional and posttranscriptional regulation of transcription factor expression in Arabidopsis roots. Proc Natl Acad Sci U S A. 2006;103:6055-60 pubmed..This study provides a systematic overview of regulation of TF expression at a cellular level. ..
- Yan S, Wang W, Marques J, Mohan R, Saleh A, Durrant W, et al. Salicylic acid activates DNA damage responses to potentiate plant immunity. Mol Cell. 2013;52:602-10 pubmed publisher..Our study suggests that activation of DNA damage responses is an intrinsic component of the plant immune responses. ..
- Wathugala D, Hemsley P, Moffat C, Cremelie P, Knight M, Knight H. The Mediator subunit SFR6/MED16 controls defence gene expression mediated by salicylic acid and jasmonate responsive pathways. New Phytol. 2012;195:217-30 pubmed publisher..It is not, however, a universal regulator of stress gene transcription and is likely to mediate transcriptional activation of specific regulons only...
- Xu G, Yuan M, Ai C, Liu L, Zhuang E, Karapetyan S, et al. uORF-mediated translation allows engineered plant disease resistance without fitness costs. Nature. 2017;545:491-494 pubmed publisher..This broadly applicable strategy may lead to decreased pesticide use and reduce the selective pressure for resistant pathogens. ..
- Deeks M, Rodrigues C, Dimmock S, Ketelaar T, Maciver S, Malhó R, et al. Arabidopsis CAP1 - a key regulator of actin organisation and development. J Cell Sci. 2007;120:2609-18 pubmed..Surprisingly, cap1 plants show disruption in plant signalling pathways required for co-ordinated organ expansion suggesting that plant CAP has evolved to attain plant-specific signalling functions. ..
- Wang D, Weaver N, Kesarwani M, Dong X. Induction of protein secretory pathway is required for systemic acquired resistance. Science. 2005;308:1036-40 pubmed..Activation of this cis-element is controlled by a transcription factor that is translocated into the nucleus upon SAR induction. ..
- Levesque M, Vernoux T, Busch W, Cui H, Wang J, Blilou I, et al. Whole-genome analysis of the SHORT-ROOT developmental pathway in Arabidopsis. PLoS Biol. 2006;4:e143 pubmed..Taken together, our results not only identify the first nodes in the SHR pathway and a new function for SHR in the development of the vascular tissue but also reveal the global architecture of this developmental pathway. ..
- Caldelari D, Wang G, Farmer E, Dong X. Arabidopsis lox3 lox4 double mutants are male sterile and defective in global proliferative arrest. Plant Mol Biol. 2011;75:25-33 pubmed publisher..Our studies of lox3 lox4 as well as other jasmonic acid biosynthesis and perception mutants show that this plant hormone is not only required for male fertility but also involved in global proliferative arrest. ..
- Tada Y, Spoel S, Pajerowska Mukhtar K, Mou Z, Song J, Wang C, et al. Plant immunity requires conformational changes [corrected] of NPR1 via S-nitrosylation and thioredoxins. Science. 2008;321:952-6 pubmed publisher..Thus, the regulation of NPR1 is through the opposing action of GSNO and TRX. These findings suggest a link between pathogen-triggered redox changes and gene regulation in plant immunity. ..
- Draper M, Salvadore C, Denis C. Identification of a mouse protein whose homolog in Saccharomyces cerevisiae is a component of the CCR4 transcriptional regulatory complex. Mol Cell Biol. 1995;15:3487-95 pubmed..These data imply that CAF1 is a component of the CCR4 protein complex and that this complex has retained evolutionarily conserved functions important to eukaryotic transcription. ..
- Umbach A, Ng V, Siedow J. Regulation of plant alternative oxidase activity: a tale of two cysteines. Biochim Biophys Acta. 2006;1757:135-42 pubmed..However, results obtained using diamide treatment to covalently link the AtAOX1a subunits by the disulfide bond indicated that Cys(I) must be in the reduced state for activation at Cys(II) to occur. ..
- Brady S, Song S, Dhugga K, Rafalski J, Benfey P. Combining expression and comparative evolutionary analysis. The COBRA gene family. Plant Physiol. 2007;143:172-87 pubmed publisher..Regulation of expression of the Arabidopsis COB gene family members has highly diversified in comparison to that of the maize COB gene superfamily members. We also identify BRITTLE STALK 2-LIKE 3 as a putative ortholog of AtCOB...
- Rodriguez R, Ercoli M, Debernardi J, Breakfield N, Mecchia M, Sabatini M, et al. MicroRNA miR396 Regulates the Switch between Stem Cells and Transit-Amplifying Cells in Arabidopsis Roots. Plant Cell. 2015;27:3354-66 pubmed publisher..We propose that the interactions identified here between miR396 and GRF and PLT transcription factors are necessary to establish the boundary between the stem cell niche and the transit-amplifying region. ..
- Culligan K, Britt A. Both ATM and ATR promote the efficient and accurate processing of programmed meiotic double-strand breaks. Plant J. 2008;55:629-38 pubmed publisher..They also indicate that ATM and ATR act redundantly to inhibit sustained interactions between non-homologous chromatids, and that these ectopic interactions require SPO11 activity. ..
- He Z, Cheeseman I, He D, Kohorn B. A cluster of five cell wall-associated receptor kinase genes, Wak1-5, are expressed in specific organs of Arabidopsis. Plant Mol Biol. 1999;39:1189-96 pubmed
- Sweeney P, Britt A, Culligan K. The Arabidopsis ATRIP ortholog is required for a programmed response to replication inhibitors. Plant J. 2009;60:518-26 pubmed publisher..Positional cloning of hus2 reveals a gene sequence similar to yeast Rad26/Ddc2 and ATRIP (ATR interacting protein), suggesting that hus2 encodes an Arabidopsis ATRIP ortholog. ..
- Aklilu B, Soderquist R, Culligan K. Genetic analysis of the Replication Protein A large subunit family in Arabidopsis reveals unique and overlapping roles in DNA repair, meiosis and DNA replication. Nucleic Acids Res. 2014;42:3104-18 pubmed publisher..We show these defects in the rpa1b rpa1d mutant are likely the result of defective DNA replication leading to reduction in cell division. ..
- Fan W, Dong X. In vivo interaction between NPR1 and transcription factor TGA2 leads to salicylic acid-mediated gene activation in Arabidopsis. Plant Cell. 2002;14:1377-89 pubmed..NPR1 is required for the DNA binding activity of the transcription factor. These genetic data clearly demonstrate that TGA2 is a SA-responsive and NPR1-dependent transcription activator. ..
- Li X, Clarke J, Zhang Y, Dong X. Activation of an EDS1-mediated R-gene pathway in the snc1 mutant leads to constitutive, NPR1-independent pathogen resistance. Mol Plant Microbe Interact. 2001;14:1131-9 pubmed..Moreover, in snc1, constitutive resistance is conferred in the absence of cell death, which is often associated with R-gene mediated resistance. ..
- Olson Manning C, Lee C, Rausher M, Mitchell Olds T. Evolution of flux control in the glucosinolate pathway in Arabidopsis thaliana. Mol Biol Evol. 2013;30:14-23 pubmed publisher..Our results support the hypothesis that natural selection preferentially acts on enzymes with high flux control. ..
- Lu S, Hrabak E. The myristoylated amino-terminus of an Arabidopsis calcium-dependent protein kinase mediates plasma membrane localization. Plant Mol Biol. 2013;82:267-78 pubmed publisher..Our results demonstrate that AtCPK5 is myristoylated at its amino terminus and that myristoylation is required for membrane binding...
- Cui H, Levesque M, Vernoux T, Jung J, Paquette A, Gallagher K, et al. An evolutionarily conserved mechanism delimiting SHR movement defines a single layer of endodermis in plants. Science. 2007;316:421-5 pubmed..Our studies with SHR and SCR homologs from rice suggest that this mechanism is evolutionarily conserved, providing a plausible explanation why nearly all plants have a single layer of endodermis. ..
- Culligan K, Robertson C, Foreman J, Doerner P, Britt A. ATR and ATM play both distinct and additive roles in response to ionizing radiation. Plant J. 2006;48:947-61 pubmed..We propose that this upregulation of CYCB1;1 does not reflect the accumulation of cells in G(2), but instead reflects a still unknown role for this cyclin in DNA damage response. ..
- Zhao X, Qu X, Mathews D, Schaller G. Effect of ethylene pathway mutations upon expression of the ethylene receptor ETR1 from Arabidopsis. Plant Physiol. 2002;130:1983-91 pubmed..Our results also refine the model on how mutations in ethylene receptors are able to confer dominant ethylene insensitivity upon plants. ..
- Miller W, McDonald P, Cai S, Field M, Davis R, Lefkowitz R. Identification of a motif in the carboxyl terminus of beta -arrestin2 responsible for activation of JNK3. J Biol Chem. 2001;276:27770-7 pubmed
- Zhang Z, Ogawa M, Fleet C, Zentella R, Hu J, Heo J, et al. Scarecrow-like 3 promotes gibberellin signaling by antagonizing master growth repressor DELLA in Arabidopsis. Proc Natl Acad Sci U S A. 2011;108:2160-5 pubmed publisher..This work is beginning to shed light on how this complex regulatory network achieves GA homeostasis and controls GA-mediated growth and development in the plant. ..
- Sozzani R, Cui H, Moreno Risueno M, Busch W, Van Norman J, Vernoux T, et al. Spatiotemporal regulation of cell-cycle genes by SHORTROOT links patterning and growth. Nature. 2010;466:128-32 pubmed publisher..Taken together, we provide evidence for a direct link between developmental regulators, specific components of the cell-cycle machinery and organ patterning. ..
- DINNENY J, Long T, Wang J, Jung J, Mace D, Pointer S, et al. Cell identity mediates the response of Arabidopsis roots to abiotic stress. Science. 2008;320:942-5 pubmed publisher..By performing a similar analysis using iron deprivation, we identified common cell-type-specific stress responses and revealed the crucial role the environment plays in defining the transcriptional outcome of cell-fate decisions. ..
- Durrant W, Wang S, Dong X. Arabidopsis SNI1 and RAD51D regulate both gene transcription and DNA recombination during the defense response. Proc Natl Acad Sci U S A. 2007;104:4223-7 pubmed..The dual role of RAD51D and SNI1 in PR gene transcription and DNA recombination suggests a mechanistic link between the short-term defense response and a long-term survival strategy. ..
- Dill A, Thomas S, Hu J, Steber C, Sun T. The Arabidopsis F-box protein SLEEPY1 targets gibberellin signaling repressors for gibberellin-induced degradation. Plant Cell. 2004;16:1392-405 pubmed..This effect of sly1-d appears to be caused by an enhanced interaction between sly1-d and the DELLA proteins. ..
- Cao H, Glazebrook J, Clarke J, Volko S, Dong X. The Arabidopsis NPR1 gene that controls systemic acquired resistance encodes a novel protein containing ankyrin repeats. Cell. 1997;88:57-63 pubmed..syringae in the absence of SAR induction. ..
- Shibata M, Breuer C, Kawamura A, Clark N, Rymen B, Braidwood L, et al. GTL1 and DF1 regulate root hair growth through transcriptional repression of ROOT HAIR DEFECTIVE 6-LIKE 4 in Arabidopsis. Development. 2018;145: pubmed publisher..This study therefore uncovers a core regulatory module that fine-tunes the extent of root hair growth by the orchestrated actions of opposing transcription factors. ..
- Song J, Durrant W, Wang S, Yan S, Tan E, Dong X. DNA repair proteins are directly involved in regulation of gene expression during plant immune response. Cell Host Microbe. 2011;9:115-24 pubmed publisher..Given that the SSN2-RAD51D complex is conserved in eukaryotes, their dual function in homologous recombination and transcription regulation of plant-defense genes suggests a general link between these two stress responses. ..
- Pajerowska Mukhtar K, Wang W, Tada Y, Oka N, Tucker C, Fonseca J, et al. The HSF-like transcription factor TBF1 is a major molecular switch for plant growth-to-defense transition. Curr Biol. 2012;22:103-12 pubmed publisher..Through this unique regulatory mechanism, TBF1 can sense the metabolic changes upon pathogen invasion and trigger the specific transcriptional reprogramming through its target genes expression. ..
- Paquette A, Benfey P. Maturation of the ground tissue of the root is regulated by gibberellin and SCARECROW and requires SHORT-ROOT. Plant Physiol. 2005;138:636-40 pubmed
- Roudier F, Fernandez A, Fujita M, Himmelspach R, Borner G, Schindelman G, et al. COBRA, an Arabidopsis extracellular glycosyl-phosphatidyl inositol-anchored protein, specifically controls highly anisotropic expansion through its involvement in cellulose microfibril orientation. Plant Cell. 2005;17:1749-63 pubmed..Our observations suggest that COB, through its involvement in cellulose microfibril orientation, is an essential factor in highly anisotropic expansion during plant morphogenesis. ..