ROSMETER: a bioinformatic tool for the identification of transcriptomic imprints related to reactive oxygen species type and origin provides new insights into stress responses.


:The chemical identity of the reactive oxygen species (ROS) and its subcellular origin will leave a specific imprint on the transcriptome response. In order to facilitate the appreciation of ROS signaling, we developed a tool that is tuned to qualify this imprint. Transcriptome data from experiments in Arabidopsis (Arabidopsis thaliana) for which the ROS type and organelle origin are known were compiled into indices and made accessible by a Web-based interface called ROSMETER. The ROSMETER algorithm uses a vector-based algorithm to portray the ROS signature for a given transcriptome. The ROSMETER platform was applied to identify the ROS signatures profiles in transcriptomes of senescing plants and of those exposed to abiotic and biotic stresses. An unexpected highly significant ROS transcriptome signature of mitochondrial stress was detected during the early presymptomatic stages of leaf senescence, which was accompanied by the specific oxidation of mitochondria-targeted redox-sensitive green fluorescent protein probe. The ROSMETER analysis of diverse stresses revealed both commonalties and prominent differences between various abiotic stress conditions, such as salt, cold, ultraviolet light, drought, heat, and pathogens. Interestingly, early responses to the various abiotic stresses clustered together, independent of later responses, and exhibited negative correlations to several ROS indices. In general, the ROS transcriptome signature of abiotic stresses showed limited correlation to a few indices, while biotic stresses showed broad correlation with multiple indices. The ROSMETER platform can assist in formulating hypotheses to delineate the role of ROS in plant acclimation to environmental stress conditions and to elucidate the molecular mechanisms of the oxidative stress response in plants.


Plant Physiol


Plant physiology


Rosenwasser S,Fluhr R,Joshi JR,Leviatan N,Sela N,Hetzroni A,Friedman H




Has Abstract


2013-10-01 00:00:00














  • Regulation of apoplastic NH4+ concentration in leaves of oilseed rape

    abstract::Regulation of apoplastic NH4+ concentration in leaves of oilseed rape (Brassica napus L.) was studied using a vacuum-infiltration technique that allowed controlled manipulations of the apoplastic solution. In leaves infiltrated with NH4+-free solution, the apoplastic NH4+ concentration returned in less than 1.5 min to...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Nielsen KH,Schjoerring JK

    更新日期:1998-12-01 00:00:00

  • Histochemical Compartmentation of Photosynthesis in the Crassulacean Acid Metabolism Plant Crassula falcata.

    abstract::The succulent leaf of the obligate Crassulacean acid metabolism plant Crassula falcata comprises two distinct types of parenchyma. The peripheral tissue is dark green, whereas the central tissue is relatively colorless. We have investigated whether the conventional interpretation of Crassulacean acid metabolism-simply...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Springer SA,Outlaw WH

    更新日期:1988-11-01 00:00:00

  • Arabidopsis NATA1 Acetylates Putrescine and Decreases Defense-Related Hydrogen Peroxide Accumulation.

    abstract::Biosynthesis of the polyamines putrescine, spermidine, and spermine is induced in response to pathogen infection of plants. Putrescine, which is produced from Arg, serves as a metabolic precursor for longer polyamines, including spermidine and spermine. Polyamine acetylation, which has important regulatory functions i...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Lou YR,Bor M,Yan J,Preuss AS,Jander G

    更新日期:2016-06-01 00:00:00

  • The effect of exogenous abscisic acid on stomatal development, stomatal mechanics, and leaf gas exchange in Tradescantia virginiana.

    abstract::Gas exchange parameters and stomatal physical properties were measured in Tradescantia virginiana plants grown under well-watered conditions and treated daily with either distilled water (control) or 3.0 mM abscisic acid (ABA). Photosynthetic capacity (CO(2) assimilation rate for any given leaf intercellular CO(2) con...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Franks PJ,Farquhar GD

    更新日期:2001-02-01 00:00:00

  • Bound auxin formation in growing stems.

    abstract::The term "bound auxin" is herein used to describe auxin conjugates insoluble in organic solvents which dissolve indoleacetic acid (IAA) and its derivatives, but hydrolyzable by NaOH to release IAA. Bound auxin from pea stems was fractionated into water-soluble, water-insoluble/NaOH-hydrolyzable, and insoluble componen...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Davies PJ

    更新日期:1976-02-01 00:00:00

  • Cytoplasmic pH dynamics in maize pulvinal cells induced by gravity vector changes.

    abstract::In maize (Zea mays) and other grasses, changes in orientation of stems are perceived by pulvinal tissue, which responds to the stimulus by differential growth resulting in upward bending of the stem. The amyloplast-containing bundle sheath cells are the sites of gravity perception, although the initial steps of gravit...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Johannes E,Collings DA,Rink JC,Allen NS

    更新日期:2001-09-01 00:00:00

  • Abscisic Acid and the Photoperiodic Induction of Dormancy in Salix viminalis L.

    abstract::A series of growth room experiments was carried out aiming to establish the role of abscisic acid on dormancy of Salix viminalis L. The inhibitor content and abscisic acid levels of extracts from roots, sap, leaves, and apical tissues of willow were measured using biological assay and gas-liquid chromatography.No evid...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Alvim R,Saunders PF,Barros RS

    更新日期:1979-04-01 00:00:00

  • Sequence and comparative analysis of the maize NB mitochondrial genome.

    abstract::The NB mitochondrial genome found in most fertile varieties of commercial maize (Zea mays subsp. mays) was sequenced. The 569,630-bp genome maps as a circle containing 58 identified genes encoding 33 known proteins, 3 ribosomal RNAs, and 21 tRNAs that recognize 14 amino acids. Among the 22 group II introns identified,...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Clifton SW,Minx P,Fauron CM,Gibson M,Allen JO,Sun H,Thompson M,Barbazuk WB,Kanuganti S,Tayloe C,Meyer L,Wilson RK,Newton KJ

    更新日期:2004-11-01 00:00:00

  • Tailoring the specificity of a plant cystatin toward herbivorous insect digestive cysteine proteases by single mutations at positively selected amino acid sites.

    abstract::Plant cystatins, similar to other defense proteins, include hypervariable, positively selected amino acid sites presumably impacting their biological activity. Using 29 single mutants of the eighth domain of tomato (Solanum lycopersicum) multicystatin, SlCYS8, we assessed here the potential of site-directed mutagenesi...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Goulet MC,Dallaire C,Vaillancourt LP,Khalf M,Badri AM,Preradov A,Duceppe MO,Goulet C,Cloutier C,Michaud D

    更新日期:2008-03-01 00:00:00

  • Phosphatidylinositol 3-Phosphate 5-Kinase, FAB1/PIKfyve Kinase Mediates Endosome Maturation to Establish Endosome-Cortical Microtubule Interaction in Arabidopsis.

    abstract::Phosphatidylinositol 3,5-bisphosphate [PtdIns(3,5)P2] is an important lipid in membrane trafficking in animal and yeast systems; however, its role is still largely obscure in plants. Here, we demonstrate that the phosphatidylinositol 3-phosphate 5-kinase, formation of aploid and binucleate cells1 (FAB1)/FYVE finger-co...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Hirano T,Munnik T,Sato MH

    更新日期:2015-11-01 00:00:00

  • Dead or Alive? Using Membrane Failure and Chlorophyll a Fluorescence to Predict Plant Mortality from Drought.

    abstract::Climate models predict widespread increases in both drought intensity and duration in the next decades. Although water deficiency is a significant determinant of plant survival, limited understanding of plant responses to extreme drought impedes forecasts of both forest and crop productivity under increasing aridity. ...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Guadagno CR,Ewers BE,Speckman HN,Aston TL,Huhn BJ,DeVore SB,Ladwig JT,Strawn RN,Weinig C

    更新日期:2017-09-01 00:00:00

  • On the Role of Stored mRNA in Protein Synthesis in Embryonic Axes of Germinating Vigna unguiculata Seeds.

    abstract::Polyadenylated (poly A(+)) RNAs were prepared from both dry and incubated embryonic axes of Vigna unguiculata seeds and were translated by a wheat germ translation system. Analysis with gel electrophoresis and fluorography showed that translation products of poly A(+) RNA from dry embryonic axes were nearly the same a...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Suzuki Y,Minamikawa T

    更新日期:1985-10-01 00:00:00

  • delta-Aminolevulinic Acid Synthase of Euglena gracilis: Regulation of Activity.

    abstract::delta-Aminolevulinic acid (ALA), a key precursor of the tetrapyrroles heme and chlorophyll, is capable of being synthesized by two different routes in cells of the unicellular green alga Euglena gracilis: from the intact carbon skeleton of glutamate, and via the condensation of glycine and succinyl CoA, mediated by th...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Foley T,Dzelzkalns V,Beale SI

    更新日期:1982-07-01 00:00:00

  • Regulation of a Cytochrome P450 Gene CYP94B1 by WRKY33 Transcription Factor Controls Apoplastic Barrier Formation in Roots to Confer Salt Tolerance.

    abstract::Salinity is an environmental stress that causes decline in crop yield. Avicennia officinalis and other mangroves have adaptations such as ultrafiltration at the roots aided by apoplastic cell wall barriers to thrive in saline conditions. We studied a cytochrome P450 gene from A. officinalis, AoCYP94B1, and its putativ...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Krishnamurthy P,Vishal B,Ho WJ,Lok FCJ,Lee FSM,Kumar PP

    更新日期:2020-12-01 00:00:00

  • Phytochrome- and gibberellin-mediated regulation of abscisic acid metabolism during germination of photoblastic lettuce seeds.

    abstract::Germination of lettuce (Lactuca sativa) 'Grand Rapids' seeds is regulated by phytochrome. The action of phytochrome includes alterations in the levels of gibberellin (GA) and abscisic acid (ABA). To determine the molecular mechanism of phytochrome regulation of ABA metabolism, we isolated four lettuce cDNAs encoding 9...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Sawada Y,Aoki M,Nakaminami K,Mitsuhashi W,Tatematsu K,Kushiro T,Koshiba T,Kamiya Y,Inoue Y,Nambara E,Toyomasu T

    更新日期:2008-03-01 00:00:00

  • In Vivo Synthesis and Turnover of alpha-Amylase in Attached and Detached Cotyledons of Vigna mungo Seeds.

    abstract::alpha-Amylase activity increased in attached cotyledons of germinated Vigna mungo seeds until the 5th day after imbibition and decreased thereafter, whereas in detached and incubated cotyledons the activity continuously increased and, at the 6th day, reached the value more than three times that of the maximum activity...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Koshiba T,Minamikawa T

    更新日期:1983-01-01 00:00:00

  • The Lipid Flippases ALA4 and ALA5 Play Critical Roles in Cell Expansion and Plant Growth.

    abstract::Aminophospholipid ATPases (ALAs) are lipid flippases involved in transporting specific lipids across membrane bilayers. Arabidopsis (Arabidopsis thaliana) contains 12 ALAs in five phylogenetic clusters, including four in cluster 3 (ALA4-ALA7). ALA4/5 and ALA6/7, are expressed primarily in vegetative tissues and pollen...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Davis JA,Pares RB,Bernstein T,McDowell SC,Brown E,Stubrich J,Rosenberg A,Cahoon EB,Cahoon RE,Poulsen LR,Palmgren M,López-Marqués RL,Harper JF

    更新日期:2020-04-01 00:00:00

  • CYP79D73 Participates in Biosynthesis of Floral Scent Compound 2-Phenylethanol in Plumeria rubra.

    abstract::Plumeria (Plumeria rubra), well known for its brightly colored and fragrant flowers, emits a number of floral volatile organic compounds (VOCs). Plumeria flowers emit a total of 43 VOCs including nine phenylpropanoids/benzenoids, such as 2-phenylethanol (2PE), benzaldehyde, 2-phenylacetaldehyde (PAld), (E/Z)-phenylace...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Dhandapani S,Jin J,Sridhar V,Chua NH,Jang IC

    更新日期:2019-05-01 00:00:00

  • Cucumber seedling indoleacetaldehyde oxidase.

    abstract::Extracts of light-grown Cucumis sativus L. seedlings catalyzed the oxidation of indole-3-acetaldehyde to indole-3-acetic acid. No added cofactors were required. Inhibitor studies indicated that the enzyme is a metalloflavoprotein. While indole-3-aldehyde, benzaldehyde, and phenylacetaldehyde partially inhibited the ox...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Bower PJ,Brown HM,Purves WK

    更新日期:1978-01-01 00:00:00

  • Isotope ratios of cellulose from plants having different photosynthetic pathways.

    abstract::Hydrogen and carbon isotope ratios of cellulose nitrate and oxygen isotope ratios of cellulose from C(3), C(4), and Crassulacean acid metabolism (CAM) plants were determined for plants growing within a small area in Val Verde County, Texas. Plants having CAM had distinctly higher deuterium/hydrogen (D/H) ratios than p...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Sternberg LO,Deniro MJ,Johnson HB

    更新日期:1984-03-01 00:00:00

  • Osmotic dependence of the transmembrane potential difference of broadbean mesocarp cells.

    abstract::Pod walls of broadbean (Vicia faba L. cv Aguadulce) were harvested at the import (S(1)), at the transition (S(2)) or at the export (S(3)) phase for assimilate transport. Measurements of the transmembrane potential difference (PD) of mesocarp cells were made under various osmotic conditions. Internal osmotic potentials...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Li ZS,Delrot S

    更新日期:1987-07-01 00:00:00

  • Characteristics of glutamate dehydrogenase in mitochondria prepared from corn shoots.

    abstract::The amination of alpha-ketoglutarate (alpha-KG) by NADH-glutamate dehydrogenase (GDH) obtained from Sephadex G-75 treated crude extracts from shoots of 5-day-old seedlings was stimulated by the addition of Ca(2+). The NADH-GDH purified 161-fold with ammonium sulfate, DEAE-Toyopearl, and Sephadex G-200 was also activat...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Yamaya T,Oaks A,Matsumoto H

    更新日期:1984-12-01 00:00:00

  • The G-Box Transcriptional Regulatory Code in Arabidopsis.

    abstract::Plants have significantly more transcription factor (TF) families than animals and fungi, and plant TF families tend to contain more genes; these expansions are linked to adaptation to environmental stressors. Many TF family members bind to similar or identical sequence motifs, such as G-boxes (CACGTG), so it is diffi...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Ezer D,Shepherd SJK,Brestovitsky A,Dickinson P,Cortijo S,Charoensawan V,Box MS,Biswas S,Jaeger KE,Wigge PA

    更新日期:2017-10-01 00:00:00

  • Induction of CO2 and Bicarbonate Transport in the Green Alga Chlorella ellipsoidea (I. Time Course of Induction of the Two Systems).

    abstract::Changes in the physiological properties of the green alga Chlorella ellipsoidea (UTEX 20) were determined during adaptation from high CO2 to air. Cells of C. ellipsoidea, grown in high CO2, had an extremely low affinity for dissolved inorganic carbon (DIC). However, high-affinity DIC transport was induced rapidly afte...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Matsuda Y,Colman B

    更新日期:1995-05-01 00:00:00

  • Regulation of Nicotine Biosynthesis by an Endogenous Target Mimicry of MicroRNA in Tobacco.

    abstract::The interaction between noncoding endogenous target mimicry (eTM) and its corresponding microRNA (miRNA) is a newly discovered regulatory mechanism and plays pivotal roles in various biological processes in plants. Tobacco (Nicotiana tabacum) is a model plant for studying secondary metabolite alkaloids, of which nicot...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Li F,Wang W,Zhao N,Xiao B,Cao P,Wu X,Ye C,Shen E,Qiu J,Zhu QH,Xie J,Zhou X,Fan L

    更新日期:2015-10-01 00:00:00

  • Both subunits of the circadian RNA-binding protein CHLAMY1 can integrate temperature information.

    abstract::The circadian RNA-binding protein CHLAMY1 from the green alga Chlamydomonas reinhardtii consists of two subunits named C1 and C3. Changes in the C1 level cause arrhythmicity of the phototaxis rhythm, while alterations in the level of C3 lead to acrophase shifts. Thus, CHLAMY1 is involved in maintaining period and phas...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Voytsekh O,Seitz SB,Iliev D,Mittag M

    更新日期:2008-08-01 00:00:00

  • Mercury-induced Ethylene Formation and Abscission in Citrus and Coleus Explants.

    abstract::Mercury vapor induces ethylene formation and abscission in Citrus and Coleus explants. Both responses are markedly greater in the absence of CO(2). The stimulation of these metabolically complex processes indicates that the action of mercury vapor is not consistent with the more popular conception of mercury toxicity....

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Goren R,Siegel SM

    更新日期:1976-04-01 00:00:00

  • A 2-Oxoglutarate-Dependent Dioxygenase Mediates the Biosynthesis of Glucoraphasatin in Radish.

    abstract::Glucosinolates (GSLs) are secondary metabolites whose degradation products confer intrinsic flavors and aromas to Brassicaceae vegetables. Several structures of GSLs are known in the Brassicaceae, and the biosynthetic pathway and regulatory networks have been elucidated in Arabidopsis (Arabidopsis thaliana). GSLs are ...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Kakizaki T,Kitashiba H,Zou Z,Li F,Fukino N,Ohara T,Nishio T,Ishida M

    更新日期:2017-03-01 00:00:00

  • Alteration in cell permeability as a mechanism of action of certain quinone pesticides.

    abstract::The permeability of the Chlorella pyrenoidosa membrane was studied by following the efflux of (14)C-intracellular material from cells which had been allowed to incorporate (14)CO(2) photosynthetically. It was observed that the efflux increased upon treatment with low concentrations (3-30 muM) of 2, 3-dichloro-1, 4-nap...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Sikka HC,Saxena J,Zweig G

    更新日期:1973-02-01 00:00:00

  • Enhancement models at high light intensities.

    abstract::The separate package and spillover models of photosynthetic enhancement are generalized and extended to light saturation assuming hyperbolic or exponential rate versus intensity curves. The available data are more consistent with the exponential model at high light intensities. Two significant conclusions follow: (a) ...

    journal_title:Plant physiology

    pub_type: 杂志文章


    authors: Pickett JM

    更新日期:1971-02-01 00:00:00