Genomes and Genes
Experts and Doctors on arabidopsis proteins in United States
Locale: United States
Topic: arabidopsis proteins
- Shen H, Moon J, Huq E. PIF1 is regulated by light-mediated degradation through the ubiquitin-26S proteasome pathway to optimize photomorphogenesis of seedlings in Arabidopsis. Plant J. 2005;44:1023-35 pubmed..Taken together, these results suggest that the light signals perceived by phys induce the degradation of PIF1 and other phy-interacting factors to optimize photomorphogenesis. ..
- Parry G, Calderon Villalobos L, Prigge M, Peret B, Dharmasiri S, Itoh H, et al. Complex regulation of the TIR1/AFB family of auxin receptors. Proc Natl Acad Sci U S A. 2009;106:22540-5 pubmed publisher..However our data suggest that this regulation is complex. Our results suggest that differences between members of the auxin receptor family may contribute to the complexity of auxin response. ..
- Whippo C, Hangarter R. Second positive phototropism results from coordinated co-action of the phototropins and cryptochromes. Plant Physiol. 2003;132:1499-507 pubmed..Based on our results, we hypothesize that phototropins and cryptochromes regulate phototropism by coordinating the balance between stimulation and inhibition of growth of the hypocotyl depending on the fluence rate of blue light. ..
- Pegadaraju V, Louis J, Singh V, Reese J, Bautor J, Feys B, et al. Phloem-based resistance to green peach aphid is controlled by Arabidopsis PHYTOALEXIN DEFICIENT4 without its signaling partner ENHANCED DISEASE SUSCEPTIBILITY1. Plant J. 2007;52:332-41 pubmed..Thus, a PAD4 mode of action that is uncoupled from EDS1 determines the extent of aphid feeding in the phloem. ..
- Ahsan N, Huang Y, Tovar Mendez A, Swatek K, Zhang J, Miernyk J, et al. A versatile mass spectrometry-based method to both identify kinase client-relationships and characterize signaling network topology. J Proteome Res. 2013;12:937-48 pubmed publisher..Structural modeling revealed that phosphorylation of AtPPI-2 induces conformational changes that modulate TOPP binding. ..
- Wang L, Kim J, Somers D. Transcriptional corepressor TOPLESS complexes with pseudoresponse regulator proteins and histone deacetylases to regulate circadian transcription. Proc Natl Acad Sci U S A. 2013;110:761-6 pubmed publisher..Our findings show that the TPL/TPR corepressor family are components of the central circadian oscillator mechanism and reinforces the role of this family as central to multiple signaling pathways in higher plants. ..
- Gagne J, Smalle J, Gingerich D, Walker J, Yoo S, Yanagisawa S, et al. Arabidopsis EIN3-binding F-box 1 and 2 form ubiquitin-protein ligases that repress ethylene action and promote growth by directing EIN3 degradation. Proc Natl Acad Sci U S A. 2004;101:6803-8 pubmed..Collectively, our results show that the SCF(EBF1/EBF2)-dependent ubiquitination and subsequent removal of EIN3 is critical not only for proper ethylene signaling but also for growth in plants. ..
- Roeder A, Tarr P, Tobin C, Zhang X, Chickarmane V, Cunha A, et al. Computational morphodynamics of plants: integrating development over space and time. Nat Rev Mol Cell Biol. 2011;12:265-73 pubmed publisher..The strength of the field comes from the iterative and combined use of these techniques, which has provided important insights into plant development. ..
- Khrouchtchova A, Monde R, Barkan A. A short PPR protein required for the splicing of specific group II introns in angiosperm chloroplasts. RNA. 2012;18:1197-209 pubmed publisher..THA8 is the first member of this subfamily with a defined molecular function, and illustrates that even small PPR proteins have the potential to mediate specific intermolecular interactions in vivo. ..
- Siriwardana N, Lamb R. The poetry of reproduction: the role of LEAFY in Arabidopsis thaliana flower formation. Int J Dev Biol. 2012;56:207-21 pubmed publisher..We discuss the current state of knowledge in Arabidopsis, with an emphasis on known target genes and co-factors of LFY. ..
- Nandi A, Moeder W, Kachroo P, Klessig D, Shah J. Arabidopsis ssi2-conferred susceptibility to Botrytis cinerea is dependent on EDS5 and PAD4. Mol Plant Microbe Interact. 2005;18:363-70 pubmed..cinerea. Our results suggest that interaction between an SSI2-dependent factor or factors and an EDS5- and PAD4-dependent mechanism or mechanisms modulates defense to B. cinerea. ..
- Drakakaki G, Zabotina O, Delgado I, Robert S, Keegstra K, Raikhel N. Arabidopsis reversibly glycosylated polypeptides 1 and 2 are essential for pollen development. Plant Physiol. 2006;142:1480-92 pubmed..Taken together, our results indicate that RGP1 and RGP2 are required during microspore development and pollen mitosis, either affecting cell division and/or vacuolar integrity. ..
- Asakura Y, Barkan A. Arabidopsis orthologs of maize chloroplast splicing factors promote splicing of orthologous and species-specific group II introns. Plant Physiol. 2006;142:1656-63 pubmed..Finally, we show that a strong AtCAF2 allele conditions an embryo-lethal phenotype, adding to the body of data suggesting that cell viability is more sensitive to the loss of plastid translation in Arabidopsis than in maize. ..
- Warren R, Merritt P, Holub E, Innes R. Identification of three putative signal transduction genes involved in R gene-specified disease resistance in Arabidopsis. Genetics. 1999;152:401-12 pubmed..The pbs mutations are recessive and have been mapped to chromosomes I (pbs2) and V (pbs1 and pbs3). ..
- Hsieh K, Huang A. Tapetosomes in Brassica tapetum accumulate endoplasmic reticulum-derived flavonoids and alkanes for delivery to the pollen surface. Plant Cell. 2007;19:582-96 pubmed..This tapetosome-originated pollen coat protects the haploidic pollen from UV light damage and water loss and aids water uptake. ..
- Jeong R, Kachroo A, Kachroo P. Blue light photoreceptors are required for the stability and function of a resistance protein mediating viral defense in Arabidopsis. Plant Signal Behav. 2010;5:1504-9 pubmed publisher..These and the fact that PHOT2 interacts directly with the R protein RPS2 suggest that blue-light photoreceptors might be involved in regulation and/or signaling mediated by several R proteins...
- Dong C, Zolman B, Bartel B, Lee B, Stevenson B, Agarwal M, et al. Disruption of Arabidopsis CHY1 reveals an important role of metabolic status in plant cold stress signaling. Mol Plant. 2009;2:59-72 pubmed publisher..Our results suggest a role for peroxisomal metabolism in cold stress signaling, and plant tolerance to cold stress and darkness-induced starvation. ..
- Martin J, Harwood J, McCaffery M, Fernandez D, Cline K. Localization and integration of thylakoid protein translocase subunit cpTatC. Plant J. 2009;58:831-42 pubmed publisher..These data suggest the existence of another translocase, possibly one dedicated to the integration of chloroplast translocases. ..
- Dong C, Agarwal M, Zhang Y, Xie Q, Zhu J. The negative regulator of plant cold responses, HOS1, is a RING E3 ligase that mediates the ubiquitination and degradation of ICE1. Proc Natl Acad Sci U S A. 2006;103:8281-6 pubmed..Our results indicate that cold stress responses in Arabidopsis are attenuated by a ubiquitination/proteasome pathway in which HOS1 mediates the degradation of the ICE1 protein. ..
- Thompson A, Doelling J, Suttangkakul A, Vierstra R. Autophagic nutrient recycling in Arabidopsis directed by the ATG8 and ATG12 conjugation pathways. Plant Physiol. 2005;138:2097-110 pubmed..This accumulation was substantially enhanced by starvation but blocked in the atg7 background. The use of this fusion in conjunction with atg mutants now provides an important marker to track autophagic vesicles in planta. ..
- Zhang W, Zhang T, Wu Y, Jiang J. Genome-wide identification of regulatory DNA elements and protein-binding footprints using signatures of open chromatin in Arabidopsis. Plant Cell. 2012;24:2719-31 pubmed publisher..Thus, genome-wide DH site mapping will be an important tool for systematic identification of all cis-regulatory DNA elements in plants. ..
- Moore M, Goforth R, Mori H, Henry R. Functional interaction of chloroplast SRP/FtsY with the ALB3 translocase in thylakoids: substrate not required. J Cell Biol. 2003;162:1245-54 pubmed..Furthermore, antibody bound to ALB3 prevented ALB3 association with cpSRP and cpFtsY and inhibited LHCP integration suggesting that a complex containing cpSRP, cpFtsY, and ALB3 must form for proper LHCP integration. ..
- Bowerman B, Severson A. Cell division: plant-like properties of animal cell cytokinesis. Curr Biol. 1999;9:R658-60 pubmed..Recent evidence that a syntaxin is required for cytokinesis in Caenorhabditis elegans embryos suggests that the mechanism of cell division in plant and animal cells may be more similar than previously imagined. ..
- Johnson K, Yu Y, Gao L, Eng R, Wasteneys G, Chen X, et al. A partial loss-of-function mutation in an Arabidopsis RNA polymerase III subunit leads to pleiotropic defects. J Exp Bot. 2016;67:2219-30 pubmed publisher..Future analyses using thenrpc7-1mutant will be instrumental in examining other unknown Pol III functions. ..
- Zhang L, Tan Q, Lee R, Trethewy A, Lee Y, Tegeder M. Altered xylem-phloem transfer of amino acids affects metabolism and leads to increased seed yield and oil content in Arabidopsis. Plant Cell. 2010;22:3603-20 pubmed publisher..Thus, AAP2 is key for xylem to phloem transfer and sink N and C supply; moreover, modifications of N allocation can positively affect C assimilation and source-sink transport and benefit sink development and oil yield. ..
- Bell S, Hunt A. The Arabidopsis ortholog of the 77 kDa subunit of the cleavage stimulatory factor (AtCstF-77) involved in mRNA polyadenylation is an RNA-binding protein. FEBS Lett. 2010;584:1449-54 pubmed publisher..This raises interesting questions as to the means by which RNAs are recognized during mRNA 3' end formation in plants. ..
- Kong Y, Zhou G, Abdeen A, Schafhauser J, Richardson B, Atmodjo M, et al. GALACTURONOSYLTRANSFERASE-LIKE5 is involved in the production of Arabidopsis seed coat mucilage. Plant Physiol. 2013;163:1203-17 pubmed publisher..These data provide evidence that AtGATL5 might function in the regulation of the final size of the mucilage rhamnogalacturonan I. ..
- Venugopal S, Jeong R, Mandal M, Zhu S, Chandra Shekara A, Xia Y, et al. Enhanced disease susceptibility 1 and salicylic acid act redundantly to regulate resistance gene-mediated signaling. PLoS Genet. 2009;5:e1000545 pubmed publisher..The functional redundancy with SA was specific to EDS1. Results presented here redefine our understanding of the roles of EDS1 and SA in plant defense...
- Christians M, Gingerich D, Hansen M, Binder B, Kieber J, Vierstra R. The BTB ubiquitin ligases ETO1, EOL1 and EOL2 act collectively to regulate ethylene biosynthesis in Arabidopsis by controlling type-2 ACC synthase levels. Plant J. 2009;57:332-45 pubmed publisher..Collectively, the data indicate that the Arabidopsis BTB E3s assembled with ETO1, EOL1 and EOL2 work together to negatively regulate ethylene synthesis by directing the degradation of type-2 ACS proteins. ..
- Salome P, Xie Q, McClung C. Circadian timekeeping during early Arabidopsis development. Plant Physiol. 2008;147:1110-25 pubmed publisher..A circadian clock entrainable by temperature cycles in germinating etiolated seedlings may synchronize the buried seedling with the local daily cycles before emergence from the soil and exposure to light. ..
- Konopka C, Bednarek S. Comparison of the dynamics and functional redundancy of the Arabidopsis dynamin-related isoforms DRP1A and DRP1C during plant development. Plant Physiol. 2008;147:1590-602 pubmed publisher..Our studies indicated that the DRP1 isoforms function or are regulated differently during cell expansion. ..
- Michaels S, Ditta G, Gustafson Brown C, Pelaz S, Yanofsky M, Amasino R. AGL24 acts as a promoter of flowering in Arabidopsis and is positively regulated by vernalization. Plant J. 2003;33:867-74 pubmed..When overexpressed, SOC1 and AGL24 are able to upregulate each other's expression. Thus, AGL24 represents another component in a network of MADS-domain-containing transcription factors that regulate flowering time. ..
- Heo J, Sung S, Assmann S. Ca2+-dependent GTPase, extra-large G protein 2 (XLG2), promotes activation of DNA-binding protein related to vernalization 1 (RTV1), leading to activation of floral integrator genes and early flowering in Arabidopsis. J Biol Chem. 2012;287:8242-53 pubmed publisher..Thus, a Ca(2+)-dependent G protein, XLG2, promotes RTV1 DNA binding activity for a subset of floral integrator genes and contributes to floral transition. ..
- Gallie D. Eukaryotic Initiation Factor eIFiso4G1 and eIFiso4G2 Are Isoforms Exhibiting Distinct Functional Differences in Supporting Translation in Arabidopsis. J Biol Chem. 2016;291:1501-13 pubmed publisher..These results suggest that eIFiso4G2 appeared late in plant evolution and exhibits more functional similarity with eIF4G than with eIFiso4G1 during Î©-mediated translation. ..
- Burk D, Liu B, Zhong R, Morrison W, Ye Z. A katanin-like protein regulates normal cell wall biosynthesis and cell elongation. Plant Cell. 2001;13:807-27 pubmed..Together, these results suggest that AtKTN1, a katanin-like protein, is essential not only for normal cell wall biosynthesis and cell elongation in fiber cells but also for cell expansion in all organs. ..
- Zhao J, Devaiah S, Wang C, Li M, Welti R, Wang X. Arabidopsis phospholipase D?1 modulates defense responses to bacterial and fungal pathogens. New Phytol. 2013;199:228-40 pubmed publisher..PLD?1 is responsible for most of the increase in PA production in response to necrotrophic B. cinerea and virulent Pst DC3000 infection, but contributes less to avirulent Pst DC3000 (avrRpt2)-induced PA production. ..
- Zhang X, Gassmann W. RPS4-mediated disease resistance requires the combined presence of RPS4 transcripts with full-length and truncated open reading frames. Plant Cell. 2003;15:2333-42 pubmed..Together with published results on the tobacco N gene, our data suggest that the generation of alternative TIR-NBS-LRR R gene transcripts is of general biological significance across plant species. ..
- Watt G, Leoff C, Harper A, Bar Peled M. A bifunctional 3,5-epimerase/4-keto reductase for nucleotide-rhamnose synthesis in Arabidopsis. Plant Physiol. 2004;134:1337-46 pubmed..To our knowledge, this is the first example of a bifunctional plant enzyme involved in sugar nucleotide synthesis where a single polypeptide exhibits the same activities as two separate prokaryotic enzymes. ..
- Chiu T, Christiansen K, Moreno I, Lao J, Loque D, Orellana A, et al. AtAPY1 and AtAPY2 function as Golgi-localized nucleoside diphosphatases in Arabidopsis thaliana. Plant Cell Physiol. 2012;53:1913-25 pubmed publisher..Taken together, these results reveal that AtAPY1 and AtAPY2 are Golgi-localized nucleotide diphosphatases and are likely to have roles in regulating UDP/GDP concentrations in the Golgi lumen. ..
- Dharmasiri N, Dharmasiri S, Estelle M. The F-box protein TIR1 is an auxin receptor. Nature. 2005;435:441-5 pubmed..Finally, TIR1 synthesized in insect cells binds Aux/IAA proteins in an auxin-dependent manner. Together, these results indicate that TIR1 is an auxin receptor that mediates Aux/IAA degradation and auxin-regulated transcription. ..
- Tang D, Ade J, Frye C, Innes R. Regulation of plant defense responses in Arabidopsis by EDR2, a PH and START domain-containing protein. Plant J. 2005;44:245-57 pubmed..The PH and START domains are implicated in lipid binding, suggesting that EDR2 may provide a link between lipid signaling and activation of programmed cell death mediated by mitochondria. ..
- Bell E, Lin W, Husbands A, Yu L, Jaganatha V, Jablonska B, et al. Arabidopsis lateral organ boundaries negatively regulates brassinosteroid accumulation to limit growth in organ boundaries. Proc Natl Acad Sci U S A. 2012;109:21146-51 pubmed publisher..In addition, LOB expression is BR regulated; therefore, LOB and BR form a feedback loop to modulate local BR accumulation in organ boundaries to limit growth in the boundary domain. ..
- Gray W, del Pozo J, Walker L, Hobbie L, Risseeuw E, Banks T, et al. Identification of an SCF ubiquitin-ligase complex required for auxin response in Arabidopsis thaliana. Genes Dev. 1999;13:1678-91 pubmed..These results provide new support for a model in which auxin action depends on the regulated proteolysis of repressor proteins. ..
- Adamczyk B, Fernandez D. MIKC* MADS domain heterodimers are required for pollen maturation and tube growth in Arabidopsis. Plant Physiol. 2009;149:1713-23 pubmed publisher..These results were combined to create a model to describe MIKC* heterodimer contributions in pollen. ..
- Avila E, Brown M, Pan S, Desikan R, Neill S, Girke T, et al. Expression analysis of Arabidopsis vacuolar sorting receptor 3 reveals a putative function in guard cells. J Exp Bot. 2008;59:1149-61 pubmed publisher..Thus, AtVSR3 may play an important role in responses to plant stress. ..
- Bianchetti C, Blouin G, Bitto E, Olson J, Phillips G. The structure and NO binding properties of the nitrophorin-like heme-binding protein from Arabidopsis thaliana gene locus At1g79260.1. Proteins. 2010;78:917-31 pubmed publisher..However, one of the two human homologs of nitrobindin contains a THAP domain, implying a possible role in apoptosis. Proteins 2010. (c) 2009 Wiley-Liss, Inc. ..
- Hill K, Wang H, Perry S. A transcriptional repression motif in the MADS factor AGL15 is involved in recruitment of histone deacetylase complex components. Plant J. 2008;53:172-85 pubmed..This motif mediates the association of AGL15 with SAP18, thus providing a possible mechanism for the role of AGL15 in regulating gene expression via recruitment of an HDAC complex. ..
- Ham J, Kim M, Lee S, Mackey D. Layered basal defenses underlie non-host resistance of Arabidopsis to Pseudomonas syringae pv. phaseolicola. Plant J. 2007;51:604-16 pubmed publisher..Thus, non-host resistance of Arabidopsis to Pph is based on multiple, individually effective layers of basal defense...
- Nobuta K, Okrent R, Stoutemyer M, Rodibaugh N, Kempema L, Wildermuth M, et al. The GH3 acyl adenylase family member PBS3 regulates salicylic acid-dependent defense responses in Arabidopsis. Plant Physiol. 2007;144:1144-56 pubmed..Thus, our results suggest that amino acid conjugation plays a critical role in SA metabolism and induced defense responses, with PBS3 acting upstream of SA, directly on SA, or on a competitive inhibitor of SA. ..
- Krizek B, Sulli C. Mapping sequences required for nuclear localization and the transcriptional activation function of the Arabidopsis protein AINTEGUMENTA. Planta. 2006;224:612-21 pubmed..Finally, we show that ANT is nuclear localized and that the sequence KKKR (amino acids 252-255) is required for nuclear localization of the protein. ..
- Mason M, Li J, Mathews D, Kieber J, Schaller G. Type-B response regulators display overlapping expression patterns in Arabidopsis. Plant Physiol. 2004;135:927-37 pubmed..These data suggest that differing expression levels of the type-B ARRs may play a role in modulating the cellular responses to cytokinin. ..
- Lockhart P, Hulihan M, Lincoln S, Hussey J, Skipper L, Bisceglio G, et al. Identification of the human ubiquitin specific protease 31 (USP31) gene: structure, sequence and expression analysis. DNA Seq. 2004;15:9-14 pubmed..Northern blot analysis revealed a single USP31 transcript of approximately 4 kb, which was primarily expressed in the testis and lung. ..
- Ding D, Muthuswamy S, Meier I. Functional interaction between the Arabidopsis orthologs of spindle assembly checkpoint proteins MAD1 and MAD2 and the nucleoporin NUA. Plant Mol Biol. 2012;79:203-16 pubmed publisher..Together, these data suggest that NUA scaffolds AtMAD1 and AtMAD2 at the nuclear pore to form a functional complex and that both NUA and AtMAD2 suppress premature exit from cell division at the Arabidopsis root meristem. ..
- Yang X, Lee S, So J, Dharmasiri S, Dharmasiri N, Ge L, et al. The IAA1 protein is encoded by AXR5 and is a substrate of SCF(TIR1). Plant J. 2004;40:772-82 pubmed..Our results provide further support for a model in which most members of the Aux/IAA family are targeted for degradation by SCFTIR1 in response to auxin. ..
- He X, Hsu Y, Pontes O, Zhu J, Lu J, Bressan R, et al. NRPD4, a protein related to the RPB4 subunit of RNA polymerase II, is a component of RNA polymerases IV and V and is required for RNA-directed DNA methylation. Genes Dev. 2009;23:318-30 pubmed publisher..Our results show that RDM2/NRPD4/NRPE4 is a new component of the RdDM pathway in Arabidopsis and that it functions as part of Pol IV and Pol V. ..
- Watkins K, Rojas M, Friso G, van Wijk K, Meurer J, Barkan A. APO1 promotes the splicing of chloroplast group II introns and harbors a plant-specific zinc-dependent RNA binding domain. Plant Cell. 2011;23:1082-92 pubmed publisher..Thus, DUF794 adds a new example to the repertoire of plant-specific RNA binding domains that emerged as a product of nuclear-organellar coevolution. ..