Genomes and Genes
Experts and Doctors on arabidopsis in Tucson, Arizona, United States
Locale: Tucson, Arizona, United States
- Rashotte A, Jenks M, Feldmann K. Cuticular waxes on eceriferum mutants of Arabidopsis thaliana. Phytochemistry. 2001;57:115-23 pubmed..The CER20 gene is predicted to affect the oxidation of C29 alkane to C29 secondary alcohol. Several predicted gene products affect only stem specific steps in the wax pathway. ..
- Woo H, Jeong B, Hirsch A, Hawes M. Characterization of Arabidopsis AtUGT85A and AtGUS gene families and their expression in rapidly dividing tissues. Genomics. 2007;90:143-53 pubmed..Both AtUGT85A and AtGUS genes, like PsUGT1, exhibit localized, tissue-specific expression, mainly in areas of active cell division with possible involvement in cell cycle regulation. ..
- Choe S, Noguchi T, Fujioka S, Takatsuto S, Tissier C, Gregory B, et al. The Arabidopsis dwf7/ste1 mutant is defective in the delta7 sterol C-5 desaturation step leading to brassinosteroid biosynthesis. Plant Cell. 1999;11:207-21 pubmed..Thus, the reduction of BRs in dwf7 is due to a shortage of substrate sterols and is the direct cause of the dwarf phenotype in dwf7. ..
- Soderlund C, Descour A, Kudrna D, Bomhoff M, Boyd L, Currie J, et al. Sequencing, mapping, and analysis of 27,455 maize full-length cDNAs. PLoS Genet. 2009;5:e1000740 pubmed publisher..The libraries, ESTs, and FLcDNA sequences produced from this project are publicly available. The annotated EST and FLcDNA assemblies are available through the maize FLcDNA web resource (www.maizecdna.org). ..
- Zhu J, Liu J, Xiong L. Genetic analysis of salt tolerance in arabidopsis. Evidence for a critical role of potassium nutrition. Plant Cell. 1998;10:1181-91 pubmed
- ..Transcribed, noncoding tandem repeats and proteins implicated in RNA-directed transcriptional silencing in plants and yeast are required for paramutation, yet the specific molecules mediating heritable silencing remain to be determined. ..
- Nelson D, Glaunsinger B, Bohnert H. Abundant accumulation of the calcium-binding molecular chaperone calreticulin in specific floral tissues of Arabidopsis thaliana. Plant Physiol. 1997;114:29-37 pubmed..Localization of CRT in the anthers, which are degenerating at the time of maximum expression of CRT, cannot easily be reconciled with a chaperone function but may indicate a role for CRT in anther maturation or dehiscence. ..
- Yang R, Wang X. Organ evolution in angiosperms driven by correlated divergences of gene sequences and expression patterns. Plant Cell. 2013;25:71-82 pubmed publisher..This linkage supports the hypothesis that constitutively expressed genes may experience higher levels of functional constraint accumulated from multiple tissues than do tissue-specific genes. ..
- Chinnusamy V, Ohta M, Kanrar S, Lee B, Hong X, Agarwal M, et al. ICE1: a regulator of cold-induced transcriptome and freezing tolerance in Arabidopsis. Genes Dev. 2003;17:1043-54 pubmed..ICE1 is expressed constitutively, and its overexpression in wild-type plants enhances the expression of the CBF regulon in the cold and improves freezing tolerance of the transgenic plants. ..
- Basha E, Jones C, Wysocki V, Vierling E. Mechanistic differences between two conserved classes of small heat shock proteins found in the plant cytosol. J Biol Chem. 2010;285:11489-97 pubmed publisher..The CI and CII proteins behave strictly additively in client protection. In total, the results demonstrate that different sHSPs can achieve effective protection of client proteins by varied mechanisms. ..
- Carey C, Strahle J, Selinger D, Chandler V. Mutations in the pale aleurone color1 regulatory gene of the Zea mays anthocyanin pathway have distinct phenotypes relative to the functionally similar TRANSPARENT TESTA GLABRA1 gene in Arabidopsis thaliana. Plant Cell. 2004;16:450-64 pubmed publisher..Substantial differences in pac1, an11, and ttg1 mutant phenotypes suggest the evolutionary divergence of regulatory mechanisms for several traits that cannot be ascribed solely to divergence of the dicot and monocot protein sequences...
- Tsukamoto T, Qin Y, Huang Y, Dunatunga D, Palanivelu R. A role for LORELEI, a putative glycosylphosphatidylinositol-anchored protein, in Arabidopsis thaliana double fertilization and early seed development. Plant J. 2010;62:571-88 pubmed publisher..Our results show that, besides pollen tube reception, LORELEI also functions during double fertilization and early seed development. ..
- Ohta M, Guo Y, Halfter U, Zhu J. A novel domain in the protein kinase SOS2 mediates interaction with the protein phosphatase 2C ABI2. Proc Natl Acad Sci U S A. 2003;100:11771-6 pubmed..Our results establish the PPI motif and the protein kinase interaction domain as novel protein interaction domains that mediate the binding between the SOS2 family of protein kinases and the ABI1/2 family of protein phosphatases. ..
- Guo Y, Xiong L, Ishitani M, Zhu J. An Arabidopsis mutation in translation elongation factor 2 causes superinduction of CBF/DREB1 transcription factor genes but blocks the induction of their downstream targets under low temperatures. Proc Natl Acad Sci U S A. 2002;99:7786-91 pubmed..Our results also suggest that cold-induced transcription of CBF/DREB1s is feedback inhibited by their gene products or by products of their downstream target genes. ..
- Foley S, Gosai S, Wang D, Selamoglu N, Sollitti A, KÃ¶ster T, et al. A Global View of RNA-Protein Interactions Identifies Post-transcriptional Regulators of Root Hair Cell Fate. Dev Cell. 2017;41:204-220.e5 pubmed publisher..In addition, we show that GLYCINE-RICH PROTEIN 8 promotes hair cell fate while alleviating phosphate starvation stress. In total, this global analysis revealsÂ post-transcriptional regulators of plant root epidermal cell fate. ..
- Pogson B, McDonald K, Truong M, Britton G, DellaPenna D. Arabidopsis carotenoid mutants demonstrate that lutein is not essential for photosynthesis in higher plants. Plant Cell. 1996;8:1627-39 pubmed..Presumably, particular beta, beta-carotenoids are able to compensate functionally and structurally for lutein in the photosystems of Arabidopsis. ..
- Jenkins M, Suzuki T, Mount D. Evidence that heat and ultraviolet radiation activate a common stress-response program in plants that is altered in the uvh6 mutant of Arabidopsis thaliana. Plant Physiol. 1997;115:1351-8 pubmed..We propose the UV damage and heat induce a common stress response in plants that leads to tissue death and reduced chloroplast function, and that the UVH6 product is a negative regulator of this response. ..
- Shi H, Ishitani M, Kim C, Zhu J. The Arabidopsis thaliana salt tolerance gene SOS1 encodes a putative Na+/H+ antiporter. Proc Natl Acad Sci U S A. 2000;97:6896-901 pubmed..SOS1 gene expression in plants is up-regulated in response to NaCl stress. This up-regulation is abated in sos3 or sos2 mutant plants, suggesting that it is controlled by the SOS3/SOS2 regulatory pathway. ..
- Moran P, Thompson G. Molecular responses to aphid feeding in Arabidopsis in relation to plant defense pathways. Plant Physiol. 2001;125:1074-85 pubmed..Phloem feeding on Arabidopsis leads to stimulation of response pathways associated with both pathogen infection and wounding. ..
- Xiong L, Ishitani M, Lee H, Zhu J. The Arabidopsis LOS5/ABA3 locus encodes a molybdenum cofactor sulfurase and modulates cold stress- and osmotic stress-responsive gene expression. Plant Cell. 2001;13:2063-83 pubmed..Our results show that LOS5/ABA3 is a key regulator of ABA biosynthesis, stress-responsive gene expression, and stress tolerance. ..
- Shi H, Xiong L, Stevenson B, Lu T, Zhu J. The Arabidopsis salt overly sensitive 4 mutants uncover a critical role for vitamin B6 in plant salt tolerance. Plant Cell. 2002;14:575-88 pubmed..We propose that pyridoxal-5-phosphate regulates Na(+) and K(+) homeostasis by modulating the activities of ion transporters. ..
- Choe S, Dilkes B, Fujioka S, Takatsuto S, Sakurai A, Feldmann K. The DWF4 gene of Arabidopsis encodes a cytochrome P450 that mediates multiple 22alpha-hydroxylation steps in brassinosteroid biosynthesis. Plant Cell. 1998;10:231-43 pubmed..In fact, feeding studies utilizing BR intermediates showed that only 22alpha-hydroxylated BRs rescued the dwf4 phenotype, confirming that DWF4 acts as a 22alpha-hydroxylase. ..
- Norris S, Shen X, DellaPenna D. Complementation of the Arabidopsis pds1 mutation with the gene encoding p-hydroxyphenylpyruvate dioxygenase. Plant Physiol. 1998;117:1317-23 pubmed..Together, these data conclusively demonstrate that pds1 is a mutation in the HPPDase structural gene. ..
- Kaimoyo E, Farag M, Sumner L, Wasmann C, Cuello J, VanEtten H. Sub-lethal levels of electric current elicit the biosynthesis of plant secondary metabolites. Biotechnol Prog. 2008;24:377-84 pubmed publisher..On the basis of our results, electric current would appear to be a general elicitor of plant secondary metabolites and to have potential for application in both basic and commercial research...
- Astashkin A, Johnson Winters K, Klein E, Byrne R, Hille R, Raitsimring A, et al. Direct demonstration of the presence of coordinated sulfate in the reaction pathway of Arabidopsis thaliana sulfite oxidase using 33S labeling and ESEEM spectroscopy. J Am Chem Soc. 2007;129:14800-10 pubmed..The isotropic hfi constant of 33S determined in these experiments was about 3 MHz, which demonstrates the presence of coordinated sulfate in the sulfite-reduced low-pH form of the plant enzyme. ..
- Xiong L, Gong Z, Rock C, Subramanian S, Guo Y, Xu W, et al. Modulation of abscisic acid signal transduction and biosynthesis by an Sm-like protein in Arabidopsis. Dev Cell. 2001;1:771-81 pubmed..These results suggest a critical role for mRNA metabolism in the control of ABA signaling as well as in the regulation of ABA homeostasis. ..
- Tax F, Vernon D. T-DNA-associated duplication/translocations in Arabidopsis. Implications for mutant analysis and functional genomics. Plant Physiol. 2001;126:1527-38 pubmed..Simple mapping and polymerase chain reaction methods for detecting such rearrangements should be included as a standard step in T-DNA mutant analysis. ..
- Wehmeyer N, Hernandez L, Finkelstein R, Vierling E. Synthesis of small heat-shock proteins is part of the developmental program of late seed maturation. Plant Physiol. 1996;112:747-57 pubmed..In total the data indicate that the expression of sHSPs in seeds is part of the normal developmental program of late seed maturation and the presence of sHSPs has adaptive significance for plant reproduction. ..
- Shi H, Quintero F, Pardo J, Zhu J. The putative plasma membrane Na(+)/H(+) antiporter SOS1 controls long-distance Na(+) transport in plants. Plant Cell. 2002;14:465-77 pubmed..We present a model in which SOS1 functions in retrieving Na(+) from the xylem stream under severe salt stress, whereas under mild salt stress it may function in loading Na(+) into the xylem. ..
- Lee H, Xiong L, Ishitani M, Stevenson B, Zhu J. Cold-regulated gene expression and freezing tolerance in an Arabidopsis thaliana mutant. Plant J. 1999;17:301-8 pubmed..However, the hos2-1 mutation does not impair the vernalization response. These results indicate that HOS2 is a negative regulator of low temperature signal transduction important for plant cold acclimation. ..
- Raitsimring A, Kappler U, Feng C, Astashkin A, Enemark J. Pulsed EPR studies of a bacterial sulfite-oxidizing enzyme with pH-invariant hyperfine interactions from exchangeable protons. Inorg Chem. 2005;44:7283-5 pubmed..The SDH proton parameters are distinctly different from the low-pH forms of chicken and human SO. ..
- Hong S, Vierling E. Mutants of Arabidopsis thaliana defective in the acquisition of tolerance to high temperature stress. Proc Natl Acad Sci U S A. 2000;97:4392-7 pubmed..The phenotype of hot1 also provides direct evidence that Hsp101, which is required for thermotolerance in bacteria and yeast, is also essential for thermotolerance in a complex eukaryote. ..
- Lee U, Wie C, Fernandez B, Feelisch M, Vierling E. Modulation of nitrosative stress by S-nitrosoglutathione reductase is critical for thermotolerance and plant growth in Arabidopsis. Plant Cell. 2008;20:786-802 pubmed publisher..An NO-overproducing mutant is also defective in thermotolerance. Together, our results expand the importance of GSNOR-regulated NO homeostasis to abiotic stress and plant development. ..
- Lee B, Lee H, Xiong L, Zhu J. A mitochondrial complex I defect impairs cold-regulated nuclear gene expression. Plant Cell. 2002;14:1235-51 pubmed..Confocal imaging shows that the FRO1:green fluorescent protein fusion protein is localized in mitochondria. These results suggest that cold induction of nuclear gene expression is modulated by mitochondrial function. ..
- Nodine M, Yadegari R, Tax F. RPK1 and TOAD2 are two receptor-like kinases redundantly required for arabidopsis embryonic pattern formation. Dev Cell. 2007;12:943-56 pubmed..We propose that RPK1 and TOAD2 receive intercellular signals and mediate intracellular responses that are necessary for embryonic pattern formation. ..
- Shi H, Kim Y, Guo Y, Stevenson B, Zhu J. The Arabidopsis SOS5 locus encodes a putative cell surface adhesion protein and is required for normal cell expansion. Plant Cell. 2003;15:19-32 pubmed..SOS5 is expressed ubiquitously in all plant organs and tissues, including guard cells in the leaf. ..
- Norris S, Barrette T, DellaPenna D. Genetic dissection of carotenoid synthesis in arabidopsis defines plastoquinone as an essential component of phytoene desaturation. Plant Cell. 1995;7:2139-49 pubmed..We propose a model for carotenoid synthesis in photosynthetic tissue whereby plastoquinone acts as an intermediate electron carrier between carotenoid desaturases and the photosynthetic electron transport chain. ..
- Lee B, Henderson D, Zhu J. The Arabidopsis cold-responsive transcriptome and its regulation by ICE1. Plant Cell. 2005;17:3155-75 pubmed..Our study provides a global picture of the Arabidopsis cold-responsive transcriptome and its control by ICE1 and will be valuable for understanding gene regulation under cold stress and the molecular mechanisms of cold tolerance. ..
- Gong D, Gong Z, Guo Y, Chen X, Zhu J. Biochemical and functional characterization of PKS11, a novel Arabidopsis protein kinase. J Biol Chem. 2002;277:28340-50 pubmed..These results provide insights into the function as well as regulation and biochemical properties of the PKS protein kinase. ..
- Basha E, Jones C, Blackwell A, Cheng G, Waters E, Samsel K, et al. An unusual dimeric small heat shock protein provides insight into the mechanism of this class of chaperones. J Mol Biol. 2013;425:1683-96 pubmed publisher..In total, these data imply that the core ?-crystallin domain of the sHSPs is a platform for flexible arms that capture substrates to maintain their solubility. ..
- Chytilova E, Macas J, Sliwinska E, Rafelski S, Lambert G, Galbraith D. Nuclear dynamics in Arabidopsis thaliana. Mol Biol Cell. 2000;11:2733-41 pubmed..The GFP-based assay is simple and of general applicability. It will be interesting to establish whether the novel type of dynamic behavior reported here, for higher plants, is observed in other eukaryotic organisms. ..
- Durbak A, Tax F. CLAVATA signaling pathway receptors of Arabidopsis regulate cell proliferation in fruit organ formation as well as in meristems. Genetics. 2011;189:177-94 pubmed publisher..These results demonstrate the importance of regulating cell proliferation in plants that undergo organogenesis throughout their life cycle. ..
- Shi H, Zhu J. SOS4, a pyridoxal kinase gene, is required for root hair development in Arabidopsis. Plant Physiol. 2002;129:585-93 pubmed..The possible role of SOS4 in ethylene and auxin biosynthesis is discussed. ..
- Lee U, Wie C, Escobar M, Williams B, Hong S, Vierling E. Genetic analysis reveals domain interactions of Arabidopsis Hsp100/ClpB and cooperation with the small heat shock protein chaperone system. Plant Cell. 2005;17:559-71 pubmed..These results also demonstrate that quantitative phenotypes can be used for in vivo genetic dissection of protein mechanism in Arabidopsis. ..
- Song C, Agarwal M, Ohta M, Guo Y, Halfter U, Wang P, et al. Role of an Arabidopsis AP2/EREBP-type transcriptional repressor in abscisic acid and drought stress responses. Plant Cell. 2005;17:2384-96 pubmed..Together, our results suggest that AtERF7 plays an important role in ABA responses and may be part of a transcriptional repressor complex and be regulated by PKS3. ..
- Astashkin A, Hood B, Feng C, Hille R, Mendel R, Raitsimring A, et al. Structures of the Mo(V) forms of sulfite oxidase from Arabidopsis thaliana by pulsed EPR spectroscopy. Biochemistry. 2005;44:13274-81 pubmed..At high pH, the active site is in the "open form", and water can readily exchange into the site to generate the hpH SO. ..
- Viswanathan C, Zhu J. Molecular genetic analysis of cold-regulated gene transcription. Philos Trans R Soc Lond B Biol Sci. 2002;357:877-86 pubmed..Thus HOS1 is a negative regulator, which may be functionally linked to cellular thermosensors to modulate cold-responsive gene transcription. ..
- Liu Z, Hong S, Escobar M, Vierling E, Mitchell D, Mount D, et al. Arabidopsis UVH6, a homolog of human XPD and yeast RAD3 DNA repair genes, functions in DNA repair and is essential for plant growth. Plant Physiol. 2003;132:1405-14 pubmed..Thus, homozygous insertions appear to be lethal. We conclude that the UVH6/AtXPD gene is required for UV resistance and is an essential gene in Arabidopsis. ..
- Nodine M, Tax F. Two receptor-like kinases required together for the establishment of Arabidopsis cotyledon primordia. Dev Biol. 2008;314:161-70 pubmed
- Liu J, Ishitani M, Halfter U, Kim C, Zhu J. The Arabidopsis thaliana SOS2 gene encodes a protein kinase that is required for salt tolerance. Proc Natl Acad Sci U S A. 2000;97:3730-4 pubmed..This mutation abolishes SOS2 autophosphorylation, indicating that SOS2 protein kinase activity is required for salt tolerance. ..
- Ishitani M, Xiong L, Lee H, Stevenson B, Zhu J. HOS1, a genetic locus involved in cold-responsive gene expression in arabidopsis. Plant Cell. 1998;10:1151-61 pubmed
- Qin Y, Leydon A, Manziello A, Pandey R, Mount D, Denic S, et al. Penetration of the stigma and style elicits a novel transcriptome in pollen tubes, pointing to genes critical for growth in a pistil. PLoS Genet. 2009;5:e1000621 pubmed publisher..Our studies form the foundation for functional genomic analysis of the interactions between the pollen tube and the pistil, which is an excellent system for elucidation of novel modes of cell-cell interaction. ..
- Tsukamoto T, Palanivelu R. Loss of LORELEI function in the pistil delays initiation but does not affect embryo development in Arabidopsis thaliana. Plant Signal Behav. 2010;5:1487-90 pubmed publisher..Additionally, lre-5/lre-5 seed germination, and seedling and root development are indistinguishable from wild type indicating that loss of LORELEI is tolerated, at least under standard growth conditions, in vegetative tissues. ..
- Kim M, Lee U, Small I, des Francs Small C, Vierling E. Mutations in an Arabidopsis mitochondrial transcription termination factor-related protein enhance thermotolerance in the absence of the major molecular chaperone HSP101. Plant Cell. 2012;24:3349-65 pubmed..The heat tolerance of shot1 emphasizes the importance of mitochondria in stress tolerance, and defining its function may provide insights into control of oxidative damage for engineering stress-resistant plants. ..
- Guo Y, Xiong L, Song C, Gong D, Halfter U, Zhu J. A calcium sensor and its interacting protein kinase are global regulators of abscisic acid signaling in Arabidopsis. Dev Cell. 2002;3:233-44 pubmed..Thus, SCaBP5 and PKS3 are part of a calcium-responsive negative regulatory loop controlling ABA sensitivity. ..
- Liu J, Zhu J. A calcium sensor homolog required for plant salt tolerance. Science. 1998;280:1943-5 pubmed..The results suggest that intracellular calcium signaling through a calcineurin-like pathway mediates the beneficial effect of calcium on plant salt tolerance. ..
- Larkindale J, Vierling E. Core genome responses involved in acclimation to high temperature. Plant Physiol. 2008;146:748-61 pubmed
- Groen S, Humphrey P, Chevasco D, Ausubel F, Pierce N, Whiteman N. Pseudomonas syringae enhances herbivory by suppressing the reactive oxygen burst in Arabidopsis. J Insect Physiol. 2016;84:90-102 pubmed publisher..syringae. Our genetic and physiological data show that P. syringae enhances S. flava feeding on infected plants at least in part by suppressing anti-herbivore defenses mediated by reactive oxygen species. ..