TY  - JOUR
A1  - Read, Betsy A.
A1  - Kegel, Jessica
A1  - Klute, Mary J.
A1  - Kuo, Alan
A1  - Lefebvre, Stephane C.
A1  - Maumus, Florian
A1  - Mayer, Christoph
A1  - Miller, John
A1  - Monier, Adam
A1  - Salamov, Asaf
A1  - Young, Jeremy
A1  - Aguilar, Maria
A1  - Claverie, Jean-Michel
A1  - Frickenhaus, Stephan
A1  - Gonzalez, Karina
A1  - Herman, Emily K.
A1  - Lin, Yao-Cheng
A1  - Napier, Johnathan
A1  - Ogata, Hiroyuki
A1  - Sarno, Analissa F.
A1  - Shmutz, Jeremy
A1  - Schroeder, Declan
A1  - de Vargas, Colomban
A1  - Verret, Frederic
A1  - von Dassow, Peter
A1  - Valentin, Klaus
A1  - Van de Peer, Yves
A1  - Wheeler, Glen
A1  - Dacks, Joel B.
A1  - Delwiche, Charles F.
A1  - Dyhrman, Sonya T.
A1  - Glöckner, Gernot
A1  - John, Uwe
A1  - Richards, Thomas
A1  - Worden, Alexandra Z.
A1  - Zhang, Xiaoyu
A1  - Grigoriev, Igor V.
A1  - Allen, Andrew E.
A1  - Bidle, Kay
A1  - Borodovsky, M.
A1  - Bowler, C.
A1  - Brownlee, Colin
A1  - Cock, J. Mark
A1  - Elias, Marek
A1  - Gladyshev, Vadim N.
A1  - Groth, Marco
A1  - Guda, Chittibabu
A1  - Hadaegh, Ahmad
A1  - Iglesias-Rodriguez, Maria Debora
A1  - Jenkins, J.
A1  - Jones, Bethan M.
A1  - Lawson, Tracy
A1  - Leese, Florian
A1  - Lindquist, Erika
A1  - Lobanov, Alexei
A1  - Lomsadze, Alexandre
A1  - Malik, Shehre-Banoo
A1  - Marsh, Mary E.
A1  - Mackinder, Luke
A1  - Mock, Thomas
A1  - Müller-Röber, Bernd
A1  - Pagarete, Antonio
A1  - Parker, Micaela
A1  - Probert, Ian
A1  - Quesneville, Hadi
A1  - Raines, Christine
A1  - Rensing, Stefan A.
A1  - Riano-Pachon, Diego Mauricio
A1  - Richier, Sophie
A1  - Rokitta, Sebastian
A1  - Shiraiwa, Yoshihiro
A1  - Soanes, Darren M.
A1  - van der Giezen, Mark
A1  - Wahlund, Thomas M.
A1  - Williams, Bryony
A1  - Wilson, Willie
A1  - Wolfe, Gordon
A1  - Wurch, Louie L.
T1  - Pan genome of the phytoplankton Emiliania underpins its global distribution
JF  - Nature : the international weekly journal of science
N2  - Coccolithophores have influenced the global climate for over 200 million years(1). These marine phytoplankton can account for 20 per cent of total carbon fixation in some systems(2). They form blooms that can occupy hundreds of thousands of square kilometres and are distinguished by their elegantly sculpted calcium carbonate exoskeletons (coccoliths), rendering them visible from space(3). Although coccolithophores export carbon in the form of organic matter and calcite to the sea floor, they also release CO2 in the calcification process. Hence, they have a complex influence on the carbon cycle, driving either CO2 production or uptake, sequestration and export to the deep ocean(4). Here we report the first haptophyte reference genome, from the coccolithophore Emiliania huxleyi strain CCMP1516, and sequences from 13 additional isolates. Our analyses reveal a pan genome (core genes plus genes distributed variably between strains) probably supported by an atypical complement of repetitive sequence in the genome. Comparisons across strains demonstrate that E. huxleyi, which has long been considered a single species, harbours extensive genome variability reflected in different metabolic repertoires. Genome variability within this species complex seems to underpin its capacity both to thrive in habitats ranging from the equator to the subarctic and to form large-scale episodic blooms under a wide variety of environmental conditions.
Y1  - 2013
U6  - https://doi.org/10.1038/nature12221
SN  - 0028-0836
SN  - 1476-4687
VL  - 499
IS  - 7457
SP  - 209
EP  - 213
PB  - Nature Publ. Group
CY  - London
ER  - 
TY  - JOUR
A1  - Schippers, Jos H. M.
A1  - Nguyen, Hung M.
A1  - Lu, Dandan
A1  - Schmidt, Romy
A1  - Müller-Röber, Bernd
T1  - ROS homeostasis during development: an evolutionary conserved strategy
JF  - Cellular and molecular life sciences
N2  - The balance between cellular proliferation and differentiation is a key aspect of development in multicellular organisms. Recent studies on Arabidopsis roots revealed distinct roles for different reactive oxygen species (ROS) in these processes. Modulation of the balance between ROS in proliferating cells and elongating cells is controlled at least in part at the transcriptional level. The effect of ROS on proliferation and differentiation is not specific for plants but appears to be conserved between prokaryotic and eukaryotic life forms. The ways in which ROS is received and how it affects cellular functioning is discussed from an evolutionary point of view. The different redox-sensing mechanisms that evolved ultimately result in the activation of gene regulatory networks that control cellular fate and decision-making. This review highlights the potential common origin of ROS sensing, indicating that organisms evolved similar strategies for utilizing ROS during development, and discusses ROS as an ancient universal developmental regulator.
KW  - Evolution
KW  - Reactive oxygen species
KW  - Development
Y1  - 2012
U6  - https://doi.org/10.1007/s00018-012-1092-4
SN  - 1420-682X
VL  - 69
IS  - 19
SP  - 3245
EP  - 3257
PB  - Springer
CY  - Basel
ER  - 
TY  - JOUR
A1  - Nguyen, Hung M.
A1  - Schippers, Jos H. M.
A1  - Goni-Ramos, Oscar
A1  - Christoph, Mathias P.
A1  - Dortay, Hakan
A1  - van der Hoorn, Renier A. L.
A1  - Müller-Röber, Bernd
T1  - An upstream regulator of the 26S proteasome modulates organ size in Arabidopsis thaliana
JF  - The plant journal
N2  - In both animal and plant kingdoms, body size is a fundamental but still poorly understood attribute of biological systems. Here we report that the Arabidopsis NAC transcription factor Regulator of Proteasomal Gene Expression' (RPX) controls leaf size by positively modulating proteasome activity. We further show that the cis-element recognized by RPX is evolutionarily conserved between higher plant species. Upon over-expression of RPX, plants exhibit reduced growth, which may be reversed by a low concentration of the pharmacological proteasome inhibitor MG132. These data suggest that the rate of protein turnover during growth is a critical parameter for determining final organ size.
KW  - Arabidopsis thaliana
KW  - organ size
KW  - evolution
KW  - leaf development
KW  - proteasome
KW  - gene regulatory network
Y1  - 2013
U6  - https://doi.org/10.1111/tpj.12097
SN  - 0960-7412
VL  - 74
IS  - 1
SP  - 25
EP  - 36
PB  - Wiley-Blackwell
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Becker, Dirk
A1  - Geiger, D.
A1  - Dunkel, M.
A1  - Roller, A.
A1  - Bertl, Adam
A1  - Latz, A.
A1  - Carpaneto, Armando
A1  - Dietrich, Peter
A1  - Roelfsema, M. R. G.
A1  - Voelker, C.
A1  - Schmidt, D.
A1  - Müller-Röber, Bernd
A1  - Czempinski, Katrin
A1  - Hedrich, R.
T1  - AtTPK4, an Arabidopsis tandem-pore K+ channel, poised to control the pollen membrane voltage in a pH- and Ca2+- dependent manner
N2  - The Arabidopsis tandem-pore K+ (TPK) channels displaying four transmembrane domains and two pore regions share structural homologies with their animal counterparts of the KCNK family. In contrast to the Shaker-like Arabidopsis channels (six transmembrane domains/one pore region), the functional properties and the biological role of plant TPK channels have not been elucidated yet. Here, we show that AtTPK4 (KCO4) localizes to the plasma membrane and is predominantly expressed in pollen. AtTPK4 (KCO4) resembles the electrical properties of a voltage-independent K+ channel after expression in Xenopus oocytes and yeast. Hyperpolarizing as well as depolarizing membrane voltages elicited instantaneous K+ currents, which were blocked by extracellular calcium and cytoplasmic protons. Functional complementation assays using a K+ transport-deficient yeast confirmed the biophysical and pharmacological properties of the AtTPK4 channel. The features of AtTPK4 point toward a role in potassium homeostasis and membrane voltage control of the growing pollen tube. Thus, AtTPK4 represents a member of plant tandem-pore-K+ channels, resembling the characteristics of its animal counterparts as well as plant-specific features with respect to modulation of channel activity by acidosis and calcium
Y1  - 2004
SN  - 0027-8424
ER  - 
TY  - JOUR
A1  - Ribeiro, Dimas M.
A1  - Araujo, Wagner L.
A1  - Fernie, Alisdair R.
A1  - Schippers, Jos H. M.
A1  - Müller-Röber, Bernd
T1  - Action of Gibberellins on growth and metabolism of arabidopsis plants Associated with high concentration of carbon dioxide
JF  - Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants
N2  - Although the positive effect of elevated CO2 concentration [CO2] on plant growth is well known, it remains unclear whether global climate change will positively or negatively affect crop yields. In particular, relatively little is known about the role of hormone pathways in controlling the growth responses to elevated [CO2]. Here, we studied the impact of elevated [CO2] on plant biomass and metabolism in Arabidopsis (Arabidopsis thaliana) in relation to the availability of gibberellins (GAs). Inhibition of growth by the GA biosynthesis inhibitor paclobutrazol (PAC) at ambient [CO2] (350 mu mol CO2 mol(-1)) was reverted by elevated [CO2] (750 mu mol CO2 mol(-1)). Thus, we investigated the metabolic adjustment and modulation of gene expression in response to changes in growth of plants imposed by varying the GA regime in ambient and elevated [CO2]. In the presence of PAC (low-GA regime), the activities of enzymes involved in photosynthesis and inorganic nitrogen assimilation were markedly increased at elevated [CO2], whereas the activities of enzymes of organic acid metabolism were decreased. Under ambient [CO2], nitrate, amino acids, and protein accumulated upon PAC treatment; however, this was not the case when plants were grown at elevated [CO2]. These results suggest that only under ambient [CO2] is GA required for the integration of carbohydrate and nitrogen metabolism underlying optimal biomass determination. Our results have implications concerning the action of the Green Revolution genes in future environmental conditions.
Y1  - 2012
U6  - https://doi.org/10.1104/pp.112.204842
SN  - 0032-0889
VL  - 160
IS  - 4
SP  - 1781
EP  - 1794
PB  - American Society of Plant Physiologists
CY  - Rockville
ER  - 
TY  - JOUR
A1  - Ribeiro, Dimas M.
A1  - Araujo, Wagner L.
A1  - Fernie, Alisdair R.
A1  - Schippers, Jos H. M.
A1  - Müller-Röber, Bernd
T1  - Translatome and metabolome effects triggered by gibberellins during rosette growth in Arabidopsis
JF  - Journal of experimental botany
N2  - Although gibberellins (GAs) are well known for their growth control function, little is known about their effects on primary metabolism. Here the modulation of gene expression and metabolic adjustment in response to changes in plant (Arabidopsis thaliana) growth imposed on varying the gibberellin regime were evaluated. Polysomal mRNA populations were profiled following treatment of plants with paclobutrazol (PAC), an inhibitor of GA biosynthesis, and gibberellic acid (GA(3)) to monitor translational regulation of mRNAs globally. Gibberellin levels did not affect levels of carbohydrates in plants treated with PAC and/or GA(3). However, the tricarboxylic acid cycle intermediates malate and fumarate, two alternative carbon storage molecules, accumulated upon PAC treatment. Moreover, an increase in nitrate and in the levels of the amino acids was observed in plants grown under a low GA regime. Only minor changes in amino acid levels were detected in plants treated with GA(3) alone, or PAC plus GA(3). Comparison of the molecular changes at the transcript and metabolite levels demonstrated that a low GA level mainly affects growth by uncoupling growth from carbon availability. These observations, together with the translatome changes, reveal an interaction between energy metabolism and GA-mediated control of growth to coordinate cell wall extension, secondary metabolism, and lipid metabolism.
KW  - Gibberellin
KW  - growth
KW  - paclobutrazol
KW  - primary metabolism
KW  - translatome
Y1  - 2012
U6  - https://doi.org/10.1093/jxb/err463
SN  - 0022-0957
VL  - 63
IS  - 7
SP  - 2769
EP  - 2786
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Tabatabaei, Iman
A1  - Alseekh, Saleh
A1  - Shahid, Mohammad
A1  - Leniak, Ewa
A1  - Wagner, Mateusz
A1  - Mahmoudi, Henda
A1  - Thushar, Sumitha
A1  - Fernie, Alisdair R.
A1  - Murphy, Kevin M.
A1  - Schmöckel, Sandra M.
A1  - Tester, Mark
A1  - Müller-Röber, Bernd
A1  - Skirycz, Aleksandra
A1  - Balazadeh, Salma
T1  - The diversity of quinoa morphological traits and seed metabolic composition
JF  - Scientific data
N2  - Quinoa (Chenopodium quinoa Willd.) is an herbaceous annual crop of the amaranth family (Amaranthaceae). It is increasingly cultivated for its nutritious grains, which are rich in protein and essential amino acids, lipids, and minerals. Quinoa exhibits a high tolerance towards various abiotic stresses including drought and salinity, which supports its agricultural cultivation under climate change conditions. The use of quinoa grains is compromised by anti-nutritional saponins, a terpenoid class of secondary metabolites deposited in the seed coat; their removal before consumption requires extensive washing, an economically and environmentally unfavorable process; or their accumulation can be reduced through breeding. In this study, we analyzed the seed metabolomes, including amino acids, fatty acids, and saponins, from 471 quinoa cultivars, including two related species, by liquid chromatography - mass spectrometry. Additionally, we determined a large number of agronomic traits including biomass, flowering time, and seed yield. The results revealed considerable diversity between genotypes and provide a knowledge base for future breeding or genome editing of quinoa.
Y1  - 2022
U6  - https://doi.org/10.1038/s41597-022-01399-y
SN  - 2052-4463
VL  - 9
IS  - 1
PB  - Nature Research
CY  - Berlin
ER  - 
TY  - JOUR
A1  - Rohn, Sascha
A1  - Rawel, Harshadrai Manilal
A1  - Rober, M.
A1  - Kroll, Jürgen
T1  - Reactions with phenolic substances can induce changes in some physico-chemical properties and activities of bromelain - the consequences for supplementary food products
N2  - Bromelain was allowed to react with phenolic compounds. The activity and selected physico-chemical properties of the resulting derivatives were characterized. In vitro experiments showed that the proteolytic activity of bromelain was inhibited. Bromelain also serves as a food protein, because food stuffs based on pineapple contain relatively high concentrations of bromelain. In vitro digestion of bromelain derivatives with the main proteolytic enzymes of the gastrointestinal tract was also adversely affected. A covalent attachment of the phenolic compounds was identified at the tryptophan, free amino (lysines and N-terminal) and thiol groups of bromelain. A decrease in solubility of the derivatives was observed. The isoelectric point was shifted to lower pH values and high molecular weight fractions were identified. All effects observed depended on the reactivity of the phenolic substances. Two supplementary food products containing both bromelain and quercetin were also tested in terms of their proteolytic activity and digestibility
Y1  - 2005
SN  - 0950-5423
ER  - 
TY  - JOUR
A1  - Banks, Jo Ann
A1  - Nishiyama, Tomoaki
A1  - Hasebe, Mitsuyasu
A1  - Bowman, John L.
A1  - Gribskov, Michael
A1  - dePamphilis, Claude
A1  - Albert, Victor A.
A1  - Aono, Naoki
A1  - Aoyama, Tsuyoshi
A1  - Ambrose, Barbara A.
A1  - Ashton, Neil W.
A1  - Axtell, Michael J.
A1  - Barker, Elizabeth
A1  - Barker, Michael S.
A1  - Bennetzen, Jeffrey L.
A1  - Bonawitz, Nicholas D.
A1  - Chapple, Clint
A1  - Cheng, Chaoyang
A1  - Correa, Luiz Gustavo Guedes
A1  - Dacre, Michael
A1  - DeBarry, Jeremy
A1  - Dreyer, Ingo
A1  - Elias, Marek
A1  - Engstrom, Eric M.
A1  - Estelle, Mark
A1  - Feng, Liang
A1  - Finet, Cedric
A1  - Floyd, Sandra K.
A1  - Frommer, Wolf B.
A1  - Fujita, Tomomichi
A1  - Gramzow, Lydia
A1  - Gutensohn, Michael
A1  - Harholt, Jesper
A1  - Hattori, Mitsuru
A1  - Heyl, Alexander
A1  - Hirai, Tadayoshi
A1  - Hiwatashi, Yuji
A1  - Ishikawa, Masaki
A1  - Iwata, Mineko
A1  - Karol, Kenneth G.
A1  - Koehler, Barbara
A1  - Kolukisaoglu, Uener
A1  - Kubo, Minoru
A1  - Kurata, Tetsuya
A1  - Lalonde, Sylvie
A1  - Li, Kejie
A1  - Li, Ying
A1  - Litt, Amy
A1  - Lyons, Eric
A1  - Manning, Gerard
A1  - Maruyama, Takeshi
A1  - Michael, Todd P.
A1  - Mikami, Koji
A1  - Miyazaki, Saori
A1  - Morinaga, Shin-ichi
A1  - Murata, Takashi
A1  - Müller-Röber, Bernd
A1  - Nelson, David R.
A1  - Obara, Mari
A1  - Oguri, Yasuko
A1  - Olmstead, Richard G.
A1  - Onodera, Naoko
A1  - Petersen, Bent Larsen
A1  - Pils, Birgit
A1  - Prigge, Michael
A1  - Rensing, Stefan A.
A1  - Mauricio Riano-Pachon, Diego
A1  - Roberts, Alison W.
A1  - Sato, Yoshikatsu
A1  - Scheller, Henrik Vibe
A1  - Schulz, Burkhard
A1  - Schulz, Christian
A1  - Shakirov, Eugene V.
A1  - Shibagaki, Nakako
A1  - Shinohara, Naoki
A1  - Shippen, Dorothy E.
A1  - Sorensen, Iben
A1  - Sotooka, Ryo
A1  - Sugimoto, Nagisa
A1  - Sugita, Mamoru
A1  - Sumikawa, Naomi
A1  - Tanurdzic, Milos
A1  - Theissen, Guenter
A1  - Ulvskov, Peter
A1  - Wakazuki, Sachiko
A1  - Weng, Jing-Ke
A1  - Willats, William W. G. T.
A1  - Wipf, Daniel
A1  - Wolf, Paul G.
A1  - Yang, Lixing
A1  - Zimmer, Andreas D.
A1  - Zhu, Qihui
A1  - Mitros, Therese
A1  - Hellsten, Uffe
A1  - Loque, Dominique
A1  - Otillar, Robert
A1  - Salamov, Asaf
A1  - Schmutz, Jeremy
A1  - Shapiro, Harris
A1  - Lindquist, Erika
A1  - Lucas, Susan
A1  - Rokhsar, Daniel
A1  - Grigoriev, Igor V.
T1  - The selaginella genome identifies genetic changes associated with the evolution of vascular plants
JF  - Science
N2  - Vascular plants appeared similar to 410 million years ago, then diverged into several lineages of which only two survive: the euphyllophytes (ferns and seed plants) and the lycophytes. We report here the genome sequence of the lycophyte Selaginella moellendorffii (Selaginella), the first nonseed vascular plant genome reported. By comparing gene content in evolutionarily diverse taxa, we found that the transition from a gametophyte- to a sporophyte-dominated life cycle required far fewer new genes than the transition from a nonseed vascular to a flowering plant, whereas secondary metabolic genes expanded extensively and in parallel in the lycophyte and angiosperm lineages. Selaginella differs in posttranscriptional gene regulation, including small RNA regulation of repetitive elements, an absence of the trans-acting small interfering RNA pathway, and extensive RNA editing of organellar genes.
Y1  - 2011
U6  - https://doi.org/10.1126/science.1203810
SN  - 0036-8075
VL  - 332
IS  - 6032
SP  - 960
EP  - 963
PB  - American Assoc. for the Advancement of Science
CY  - Washington
ER  - 
TY  - JOUR
A1  - Lai, Alvina G.
A1  - Denton-Giles, Matthew
A1  - Müller-Röber, Bernd
A1  - Schippers, Jos H. M.
A1  - Dijkwel, Paul P.
T1  - Positional information resolves structural variations and uncovers an evolutionarily divergent genetic locus in accessions of arabidopsis thaliana
JF  - Genome biology and evolution
N2  - Genome sequencing of closely related individuals has yielded valuable insights that link genome evolution to phenotypic variations. However, advancement in sequencing technology has also led to an escalation in the number of poor quality-drafted genomes assembled based on reference genomes that can have highly divergent or haplotypic regions. The self-fertilizing nature of Arabidopsis thaliana poses an advantage to sequencing projects because its genome is mostly homozygous. To determine the accuracy of an Arabidopsis drafted genome in less conserved regions, we performed a resequencing experiment on a similar to 371-kb genomic interval in the Landsberg erecta (Ler-0) accession. We identified novel structural variations (SVs) between Ler-0 and the reference accession Col-0 using a long-range polymerase chain reaction approach to generate an Illumina data set that has positional information, that is, a data set with reads that map to a known location. Positional information is important for accurate genome assembly and the resolution of SVs particularly in highly duplicated or repetitive regions. Sixty-one regions with misassembly signatures were identified from the Ler-0 draft, suggesting the presence of novel SVs that are not represented in the draft sequence. Sixty of those were resolved by iterative mapping using our data set. Fifteen large indels (> 100 bp) identified from this study were found to be located either within protein-coding regions or upstream regulatory regions, suggesting the formation of novel alleles or altered regulation of existing genes in Ler-0. We propose future genome-sequencing experiments to follow a clone-based approach that incorporates positional information to ultimately reveal haplotype-specific differences between accessions.
KW  - haplotype
KW  - allelic variants
KW  - drafted genomes
KW  - genome partitioning
KW  - comparative genomics
Y1  - 2011
U6  - https://doi.org/10.1093/gbe/evr038
SN  - 1759-6653
VL  - 3
IS  - 1-2
SP  - 627
EP  - 640
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Lai, Alvina Grace
A1  - Doherty, Colleen J.
A1  - Müller-Röber, Bernd
A1  - Kay, Steve A.
A1  - Schippers, Jos H. M.
A1  - Dijkwel, Paul P.
T1  - CIRCADIAN CLOCK-ASSOCIATED 1 regulates ROS homeostasis and oxidative stress responses
JF  - Proceedings of the National Academy of Sciences of the United States of America
N2  - Organisms have evolved endogenous biological clocks as internal timekeepers to coordinate metabolic processes with the external environment. Here, we seek to understand the mechanism of synchrony between the oscillator and products of metabolism known as Reactive Oxygen Species (ROS) in Arabidopsis thaliana. ROS-responsive genes exhibit a time-of-day-specific phase of expression under diurnal and circadian conditions, implying a role of the circadian clock in transcriptional regulation of these genes. Hydrogen peroxide production and scavenging also display time-of-day phases. Mutations in the core-clock regulator, CIRCADIAN CLOCK ASSOCIATED 1 (CCA1), affect the transcriptional regulation of ROS-responsive genes, ROS homeostasis, and tolerance to oxidative stress. Mis-expression of EARLY FLOWERING 3, LUX ARRHYTHMO, and TIMING OF CAB EXPRESSION 1 affect ROS production and transcription, indicating a global effect of the clock on the ROS network. We propose CCA1 as a master regulator of ROS homeostasis through association with the Evening Element in promoters of ROS genes in vivo to coordinate time-dependent responses to oxidative stress. We also find that ROS functions as an input signal that affects the transcriptional output of the clock, revealing an important link between ROS signaling and circadian output. Temporal coordination of ROS signaling by CCA1 and the reciprocal control of circadian output by ROS reveal a mechanistic link that allows plants to master oxidative stress responses.
KW  - redox homeostasis
KW  - transcriptional coordination
Y1  - 2012
U6  - https://doi.org/10.1073/pnas.1209148109
SN  - 0027-8424
VL  - 109
IS  - 42
SP  - 17129
EP  - 17134
PB  - National Acad. of Sciences
CY  - Washington
ER  - 
TY  - JOUR
A1  - Maitrejean, Marie
A1  - Wudick, Michael M.
A1  - Völker, Camilla
A1  - Prinsi, Bhakti
A1  - Müller-Röber, Bernd
A1  - Czempinski, Katrin
A1  - Pedrazzini, Emanuela
A1  - Vitale, Alessandro
T1  - Assembly and sorting of the tonoplast potassium channel AtTPK1 and its turnover by internalization into the Vacuole
JF  - Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants
N2  - The assembly, sorting signals, and turnover of the tonoplast potassium channel AtTPK1 of Arabidopsis (Arabidopsis thaliana) were studied. We used transgenic Arabidopsis expressing a TPK1-green fluorescent protein (GFP) fusion or protoplasts transiently transformed with chimeric constructs based on domain exchange between TPK1 and TPK4, the only TPK family member not located at the tonoplast. The results show that TPK1-GFP is a dimer and that the newly synthesized polypeptides transiently interact with a thus-far unidentified 20-kD polypeptide. A subset of the TPK1-TPK4 chimeras were unable to assemble correctly and these remained located in the endoplasmic reticulum where they interacted with the binding protein chaperone. Therefore, TPK1 must assemble correctly to pass endoplasmic reticulum quality control. Substitution of the cytosolic C terminus of TPK4 with the corresponding domain of TPK1 was sufficient to allow tonoplast delivery, indicating that this domain contains tonoplast sorting information. Pulse-chase labeling indicated that TPK1-GFP has a half-life of at least 24 h. Turnover of the fusion protein involves internalization into the vacuole where the GFP domain is released. This indicates a possible mechanism for the turnover of tonoplast proteins.
Y1  - 2011
U6  - https://doi.org/10.1104/pp.111.177816
SN  - 0032-0889
VL  - 156
IS  - 4
SP  - 1783
EP  - 1796
PB  - American Society of Plant Physiologists
CY  - Rockville
ER  - 
TY  - JOUR
A1  - Winck, Flavia V.
A1  - Riano-Pachon, Diego M.
A1  - Sommer, Frederik
A1  - Rupprecht, Jens
A1  - Müller-Röber, Bernd
T1  - The nuclear proteome of the green alga Chlamydomonas reinhardtii
JF  - Proteomics
N2  - Nuclear proteins play a central role in regulating gene expression. Their identification is important for understanding how the nuclear repertoire changes over time under different conditions. Nuclear proteins are often underrepresented in proteomic studies due to the frequently low abundance of proteins involved in regulatory processes. So far, only few studies describing the nuclear proteome of plant species have been published. Recently, the genome sequence of the unicellular green alga Chlamydomonas reinhardtii has been obtained and annotated, allowing the development of further detailed studies for this organism. However, a detailed description of its nuclear proteome has not been reported so far. Here, we present an analysis of the nuclear proteome of the sequenced Chlamydomonas strain cc503. Using LC-MS/MS, we identified 672 proteins from nuclei isolates with a maximum 1% peptide spectrum false discovery rate. Besides well-known proteins (e.g. histones), transcription factors and other transcriptional regulators (e.g. tubby and HMG) were identified. The presence of protein motifs in nuclear proteins was investigated by computational tools, and specific over-represented protein motifs were identified. This study provides new insights into the complexity of the nuclear environment and reveals novel putative protein targets for further studies of nuclear mechanisms.
KW  - Nuclear proteomics
KW  - Plant proteomics
KW  - Systems biology
KW  - Transcription factor
Y1  - 2012
U6  - https://doi.org/10.1002/pmic.201000782
SN  - 1615-9853
VL  - 12
IS  - 1
SP  - 95
EP  - 100
PB  - Wiley-Blackwell
CY  - Malden
ER  - 
TY  - JOUR
A1  - Dortay, Hakan
A1  - Schmöckel, Sandra M.
A1  - Fettke, Jörg
A1  - Müller-Röber, Bernd
T1  - Expression of human c-reactive protein in different systems and its purification from Leishmania tarentolae
JF  - Protein expression and purification
N2  - With its homo-pentameric structure and calcium-dependent specificity for phosphocholine (PCh), human c-reactive protein (CRP) is produced by the liver and secreted in elevated quantities in response to inflammation. CRP is widely accepted as a cardiac marker, e.g. in point-of-care diagnostics, however, its heterologous expression has proven difficult. Here, we demonstrate the expression of CRP in different Escherichia coli strains as well as by in vitro transcription/translation. Although expression in these systems was straightforward, most of the protein that accumulated was insoluble. We therefore expanded our study to include the expression of CRP in two eukaryotic hosts, namely the yeast Kluyveromyces lactis and the protozoon Leishmania tarentolae. Both expression systems are optimized for secretion of recombinant proteins and here allowed successful expression of soluble CRP. We also demonstrate the purification of recombinant CRP from Leishmania growth medium; the purification of protein expressed from K. lactis was not successful. Functional and intact CRP pentamer is known to interact with PCh in Ca(2+)-dependent manner. In this report we verify the binding specificity of recombinant CRP from L tarentolae (2 mu g/mL culture medium) for PCh.
KW  - C-reactive protein
KW  - Protein expression
KW  - Leishmania
KW  - In vitro expression
KW  - Protein purification
Y1  - 2011
U6  - https://doi.org/10.1016/j.pep.2011.03.010
SN  - 1046-5928
VL  - 78
IS  - 1
SP  - 55
EP  - 60
PB  - Elsevier
CY  - San Diego
ER  - 
TY  - JOUR
A1  - Schmidt, Romy
A1  - Schippers, Jos H. M.
A1  - Welker, Annelie
A1  - Mieulet, Delphine
A1  - Guiderdoni, Emmanuel
A1  - Müller-Röber, Bernd
T1  - Transcription factor OsHsfC1b regulates salt tolerance and development in Oryza sativa ssp japonica
JF  - AoB PLANTS
N2  - Background and aims Salt stress leads to attenuated growth and productivity in rice. Transcription factors like heat shock factors (HSFs) represent central regulators of stress adaptation. Heat shock factors of the classes A and B are well established as regulators of thermal and non-thermal stress responses in plants; however, the role of class C HSFs is unknown. Here we characterized the function of the OsHsfC1b (Os01g53220) transcription factor from rice.
 Methodology We analysed the expression of OsHsfC1b in the rice japonica cultivars Dongjin and Nipponbare exposed to salt stress as well as after mannitol, abscisic acid (ABA) and H2O2 treatment. For functional characterization of OsHsfC1b, we analysed the physiological response of a T-DNA insertion line (hsfc1b) and two artificial micro-RNA (amiRNA) knock-down lines to salt, mannitol and ABA treatment. In addition, we quantified the expression of small Heat Shock Protein (sHSP) genes and those related to signalling and ion homeostasis by quantitative real-time polymerase chain reaction in roots exposed to salt. The subcellular localization of OsHsfC1b protein fused to green fluorescent protein (GFP) was determined in Arabidopsis mesophyll cell protoplasts.
 Principal results Expression of OsHsfC1b was induced by salt, mannitol and ABA, but not by H2O2. Impaired function of OsHsfC1b in the hsfc1b mutant and the amiRNA lines led to decreased salt and osmotic stress tolerance, increased sensitivity to ABA, and temporal misregulation of salt-responsive genes involved in signalling and ion homeostasis. Furthermore, sHSP genes showed enhanced expression in knock-down plants under salt stress. We observed retarded growth of hsfc1b and knock-down lines in comparison with control plants under non-stress conditions. Transient expression of OsHsfC1b fused to GFP in protoplasts revealed nuclear localization of the transcription factor.
 Conclusions OsHsfC1b plays a role in ABA-mediated salt stress tolerance in rice. Furthermore, OsHsfC1b is involved in the response to osmotic stress and is required for plant growth under non-stress conditions.
Y1  - 2012
U6  - https://doi.org/10.1093/aobpla/pls011
SN  - 2041-2851
IS  - 3
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Scarpeci, Telma E.
A1  - Zanor, Maria I.
A1  - Müller-Röber, Bernd
A1  - Valle, Estela M.
T1  - Overexpression of AtWRKY30 enhances abiotic stress tolerance during
 early growth stages in Arabidopsis thaliana
JF  - PLANT MOLECULAR BIOLOGY
N2  - AtWRKY30 belongs to a higher plant transcription factor superfamily, which responds to pathogen attack. In previous studies, the AtWRKY30 gene was found to be highly and rapidly induced in Arabidopsis thaliana leaves after oxidative stress treatment. In this study, electrophoretic mobility shift assays showed that AtWRKY30 binds with high specificity and affinity to the WRKY consensus sequence (W-box), and also to its own promoter. Analysis of the AtWRKY30 expression pattern by qPCR and using transgenic Arabidopsis lines carrying AtWRKY30 promoter-beta-glucuronidase fusions showed transcriptional activity in leaves subjected to biotic or abiotic stress. Transgenic Arabidopsis plants constitutively overexpressing AtWRKY30 (35S::W30 lines) were more tolerant than wild-type plants to oxidative and salinity stresses during seed germination. The results presented here show that AtWRKY30 is responsive to several stress conditions either from abiotic or biotic origin, suggesting that AtWRKY30 could have a role in the activation of defence responses at early stages of Arabidopsis growth by binding to W-boxes found in promoters of many stress/developmentally regulated genes.
KW  - Antioxidant response
KW  - Chloroplast
KW  - Germination
KW  - Oxidative stress
KW  - Stress signaling
Y1  - 2013
U6  - https://doi.org/10.1007/s11103-013-0090-8
SN  - 0167-4412
VL  - 83
IS  - 3
SP  - 265
EP  - 277
PB  - SPRINGER
CY  - DORDRECHT
ER  - 
TY  - JOUR
A1  - Benina, Maria
A1  - Ribeiro, Dimas Mendes
A1  - Gechev, Tsanko S.
A1  - Müller-Röber, Bernd
A1  - Schippers, Jos H. M.
T1  - A cell type-specific view on the translation of mRNAs from ROS-responsive genes upon paraquat treatment of Arabidopsis thaliana leaves
JF  - Plant, cell & environment : cell physiology, whole-plant physiology, community physiology
N2  - Oxidative stress causes dramatic changes in the expression levels of many genes. The formation of a functional protein through successful mRNA translation is central to a coordinated cellular response. To what extent the response towards reactive oxygen species (ROS) is regulated at the translational level is poorly understood. Here we analysed leaf- and tissue-specific translatomes using a set of transgenic Arabidopsis thaliana lines expressing a FLAG-tagged ribosomal protein to immunopurify polysome-bound mRNAs before and after oxidative stress. We determined transcript levels of 171 ROS-responsive genes upon paraquat treatment, which causes formation of superoxide radicals, at the whole-organ level. Furthermore, the translation of mRNAs was determined for five cell types: mesophyll, bundle sheath, phloem companion, epidermal and guard cells. Mesophyll and bundle sheath cells showed the strongest response to paraquat treatment. Interestingly, several ROS-responsive transcription factors displayed cell type-specific translation patterns, while others were translated in all cell types. In part, cell type-specific translation could be explained by the length of the 5-untranslated region (5-UTR) and the presence of upstream open reading frames (uORFs). Our analysis reveals insights into the translational regulation of ROS-responsive genes, which is important to understanding cell-specific responses and functions during oxidative stress.
 The study illustrates the response of different Arabidopsis thaliana leaf cells and tissues to oxidative stress at the translational level, an aspect of reactive oxygen species (ROS) biology that has been little studied in the past. Our data reveal insights into how translational regulation of ROS-responsive genes is fine-tuned at the cellular level, a phenomenon contributing to the integrated physiological response of leaves to stresses involving changes in ROS levels.
KW  - Arabidopsis
KW  - gene regulation
KW  - oxidative stress
KW  - tissue-specific
KW  - translation
Y1  - 2015
U6  - https://doi.org/10.1111/pce.12355
SN  - 0140-7791
SN  - 1365-3040
VL  - 38
IS  - 2
SP  - 349
EP  - 363
PB  - Wiley-Blackwell
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Lu, Dandan
A1  - Wang, Ting
A1  - Persson, Staffan
A1  - Müller-Röber, Bernd
A1  - Schippers, Jos H. M.
T1  - Transcriptional control of ROS homeostasis by KUODA1 regulates cell expansion during leaf development
JF  - Nature Communications
N2  - The final size of an organism, or of single organs within an organism, depends on an intricate coordination of cell proliferation and cell expansion. Although organism size is of fundamental importance, the molecular and genetic mechanisms that control it remain far from understood. Here we identify a transcription factor, KUODA1 (KUA1), which specifically controls cell expansion during leaf development in Arabidopsis thaliana. We show that KUA1 expression is circadian regulated and depends on an intact clock. Furthermore, KUA1 directly represses the expression of a set of genes encoding for peroxidases that control reactive oxygen species (ROS) homeostasis in the apoplast. Disruption of KUA1 results in increased peroxidase activity and smaller leaf cells. Chemical or genetic interference with the ROS balance or peroxidase activity affects cell size in a manner consistent with the identified KUA1 function. Thus, KUA1 modulates leaf cell expansion and final organ size by controlling ROS homeostasis.
Y1  - 2014
U6  - https://doi.org/10.1038/ncomms4767
SN  - 2041-1723
VL  - 5
PB  - Nature Publ. Group
CY  - London
ER  - 
TY  - JOUR
A1  - Omidbakhshfard, Mohammad Amin
A1  - Winck, Flavia Vischi
A1  - Arvidsson, Samuel Janne
A1  - Riano-Pachon, Diego M.
A1  - Müller-Röber, Bernd
T1  - A step-by-step protocol for formaldehyde-assisted isolation of regulatory elements from Arabidopsis thaliana
JF  - Journal of integrative plant biology
N2  - The control of gene expression by transcriptional regulators and other types of functionally relevant DNA transactions such as chromatin remodeling and replication underlie a vast spectrum of biological processes in all organisms. DNA transactions require the controlled interaction of proteins with DNA sequence motifs which are often located in nucleosome-depleted regions (NDRs) of the chromatin. Formaldehyde-assisted isolation of regulatory elements (FAIRE) has been established as an easy-to-implement method for the isolation of NDRs from a number of eukaryotic organisms, and it has been successfully employed for the discovery of new regulatory segments in genomic DNA from, for example, yeast, Drosophila, and humans. Until today, however, FAIRE has only rarely been employed in plant research and currently no detailed FAIRE protocol for plants has been published. Here, we provide a step-by-step FAIRE protocol for NDR discovery in Arabidopsis thaliana. We demonstrate that NDRs isolated from plant chromatin are readily amenable to quantitative polymerase chain reaction and next-generation sequencing. Only minor modification of the FAIRE protocol will be needed to adapt it to other plants, thus facilitating the global inventory of regulatory regions across species.
KW  - Arabidopsis thaliana
KW  - chromatin
KW  - cis-regulatory elements
KW  - epigenomics
KW  - FAIRE-qPCR
KW  - FAIRE-seq
KW  - gene expression
KW  - gene regulatory network
KW  - transcription factor
Y1  - 2014
U6  - https://doi.org/10.1111/jipb.12151
SN  - 1672-9072
SN  - 1744-7909
VL  - 56
IS  - 6
SP  - 527
EP  - 538
PB  - Wiley-Blackwell
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Schmidt, Romy
A1  - Schippers, Jos H. M.
A1  - Mieulet, Delphine
A1  - Watanabe, Mutsumi
A1  - Hoefgen, Rainer
A1  - Guiderdoni, Emmanuel
A1  - Müller-Röber, Bernd
T1  - Salt-Rresponsive ERF1 is a negative regulator of grain filling and gibberellin-mediated seedling establishment in rice
JF  - Molecular plant
N2  - Grain quality is an important agricultural trait that is mainly determined by grain size and composition. Here, we characterize the role of the rice transcription factor (TF) SALT-RESPONSIVE ERF1 (SERF1) during grain development. Through genome-wide expression profiling and chromatin immunoprecipitation, we found that SERF1 directly regulates RICE PROLAMIN-BOX BINDING FACTOR (RPBF), a TF that functions as a positive regulator of grain filling. Loss of SERF1 enhances RPBF expression resulting in larger grains with increased starch content, while SERF1 overexpression represses RPBF resulting in smaller grains. Consistently, during grain filling, starch biosynthesis genes such as GRANULE-BOUND STARCH SYNTHASEI (GBSSI), STARCH SYNTHASEI (SSI), SSIIIa, and ADP-GLUCOSE PYROPHOSPHORYLASE LARGE SUBUNIT2 (AGPL2) are up-regulated in SERF1 knockout grains. Moreover, SERF1 is a direct upstream regulator of GBSSI. In addition, SERF1 negatively regulates germination by controlling RPBF expression, which mediates the gibberellic acid (GA)-induced expression of RICE AMYLASE1A (RAmy1A). Loss of SERF1 results in more rapid seedling establishment, while SERF1 overexpression has the opposite effect. Our study reveals that SERF1 represents a negative regulator of grain filling and seedling establishment by timing the expression of RPBF.
KW  - RPBF
KW  - rice
KW  - grain filling
KW  - germination
KW  - SERF1
KW  - gibberellic acid
Y1  - 2014
U6  - https://doi.org/10.1093/mp/sst131
SN  - 1674-2052
SN  - 1752-9867
VL  - 7
IS  - 2
SP  - 404
EP  - 421
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Alshareef, Nouf Owdah
A1  - Otterbach, Sophie L.
A1  - Allu, Annapurna Devi
A1  - Woo, Yong H.
A1  - de Werk, Tobias
A1  - Kamranfar, Iman
A1  - Müller-Röber, Bernd
A1  - Tester, Mark
A1  - Balazadeh, Salma
A1  - Schmöckel, Sandra M.
T1  - NAC transcription factors ATAF1 and ANAC055 affect the heat stress response in Arabidopsis
JF  - Scientific reports
N2  - Pre-exposing (priming) plants to mild, non-lethal elevated temperature improves their tolerance to a later higher-temperature stress (triggering stimulus), which is of great ecological importance. 'Thermomemory' is maintaining this tolerance for an extended period of time. NAM/ATAF1/2/ CUC2 (NAC) proteins are plant-specific transcription factors (TFs) that modulate responses to abiotic stresses, including heat stress (HS). Here, we investigated the potential role of NACs for thermomemory. We determined the expression of 104 Ara bidopsis NAC genes after priming and triggering heat stimuli, and found ATAF1 expression is strongly induced right after priming and declines below control levels thereafter during thermorecovery. Knockout mutants of ATAF1 show better thermomemory than wild type, revealing a negative regulatory role. Differential expression analyses of RNA-seq data from ATAF1 overexpressor, ataf1 mutant and wild-type plants after heat priming revealed five genes that might be priming-associated direct targets of ATAF1: AT2G31260 (ATG9), AT2G41640 (GT61), AT3G44990 (XTH31), AT4G27720 and AT3G23540. Based on co-expression analyses applied to the aforementioned RNA-seq profiles, we identified ANAC055 to be transcriptionally co-regulated with ATAF1. Like atafl, anac055 mutants show improved thermomemory, revealing a potential co-control of both NACTFs over thermomemory. Our data reveals a core importance of two NAC transcription factors, ATAF1 and ANAC055, for thermomemory.
Y1  - 2022
U6  - https://doi.org/10.1038/s41598-022-14429-x
SN  - 2045-2322
VL  - 12
IS  - 1
PB  - Nature Research
CY  - Berlin
ER  - 
TY  - JOUR
A1  - Gechev, Tsanko S.
A1  - Benina, Maria
A1  - Obata, Toshihiro
A1  - Tohge, Takayuki
A1  - Neerakkal, Sujeeth
A1  - Minkov, Ivan
A1  - Hille, Jacques
A1  - Temanni, Mohamed-Ramzi
A1  - Marriott, Andrew S.
A1  - Bergström, Ed
A1  - Thomas-Oates, Jane
A1  - Antonio, Carla
A1  - Müller-Röber, Bernd
A1  - Schippers, Jos H. M.
A1  - Fernie, Alisdair R.
A1  - Toneva, Valentina
T1  - Molecular mechanisms of desiccation tolerance in the resurrection glacial relic Haberlea rhodopensis
JF  - Cellular and molecular life sciences
N2  - Haberlea rhodopensis is a resurrection plant with remarkable tolerance to desiccation. Haberlea exposed to drought stress, desiccation, and subsequent rehydration showed no signs of damage or severe oxidative stress compared to untreated control plants. Transcriptome analysis by next-generation sequencing revealed a drought-induced reprogramming, which redirected resources from growth towards cell protection. Repression of photosynthetic and growth-related genes during water deficiency was concomitant with induction of transcription factors (members of the NAC, NF-YA, MADS box, HSF, GRAS, and WRKY families) presumably acting as master switches of the genetic reprogramming, as well as with an upregulation of genes related to sugar metabolism, signaling, and genes encoding early light-inducible (ELIP), late embryogenesis abundant (LEA), and heat shock (HSP) proteins. At the same time, genes encoding other LEA, HSP, and stress protective proteins were constitutively expressed at high levels even in unstressed controls. Genes normally involved in tolerance to salinity, chilling, and pathogens were also highly induced, suggesting a possible cross-tolerance against a number of abiotic and biotic stress factors. A notable percentage of the genes highly regulated in dehydration and subsequent rehydration were novel, with no sequence homology to genes from other plant genomes. Additionally, an extensive antioxidant gene network was identified with several gene families possessing a greater number of antioxidant genes than most other species with sequenced genomes. Two of the transcripts most abundant during all conditions encoded catalases and five more catalases were induced in water-deficient samples. Using the pharmacological inhibitor 3-aminotriazole (AT) to compromise catalase activity resulted in increased sensitivity to desiccation. Metabolome analysis by GC or LC-MS revealed accumulation of sucrose, verbascose, spermidine, and gamma-aminobutyric acid during drought, as well as particular secondary metabolites accumulating during rehydration. This observation, together with the complex antioxidant system and the constitutive expression of stress protective genes suggests that both constitutive and inducible mechanisms contribute to the extreme desiccation tolerance of H. rhodopensis.
KW  - Antioxidant genes
KW  - Catalase
KW  - Desiccation tolerance
KW  - Drought stress
KW  - Metabolome analysis
KW  - Resurrection plants
Y1  - 2013
U6  - https://doi.org/10.1007/s00018-012-1155-6
SN  - 1420-682X
VL  - 70
IS  - 4
SP  - 689
EP  - 709
PB  - Springer
CY  - Basel
ER  - 
TY  - JOUR
A1  - Schmidt, Romy
A1  - Mieulet, Delphine
A1  - Hubberten, Hans-Michael
A1  - Obata, Toshihiro
A1  - Höfgen, Rainer
A1  - Fernie, Alisdair R.
A1  - Fisahn, Joachim
A1  - Segundo, Blanca San
A1  - Guiderdoni, Emmanuel
A1  - Schippers, Jos H. M.
A1  - Müller-Röber, Bernd
T1  - Salt-responsive ERF1 regulates reactive oxygen species-dependent signaling during the initial response to salt stress in rice
JF  - The plant cell
N2  - Early detection of salt stress is vital for plant survival and growth. Still, the molecular processes controlling early salt stress perception and signaling are not fully understood. Here, we identified SALT-RESPONSIVE ERF1 (SERF1), a rice (Oryza sativa) transcription factor (TF) gene that shows a root-specific induction upon salt and hydrogen peroxide (H2O2) treatment. Loss of SERF1 impairs the salt-inducible expression of genes encoding members of a mitogen-activated protein kinase (MAPK) cascade and salt tolerance-mediating TFs. Furthermore, we show that SERF1-dependent genes are H2O2 responsive and demonstrate that SERF1 binds to the promoters of MAPK KINASE KINASE6 (MAP3K6), MAPK5, DEHYDRATION-RESPONSIVE ELEMENT BINDING2A (DREB2A), and ZINC FINGER PROTEIN179 (ZFP179) in vitro and in vivo. SERF1 also directly induces its own gene expression. In addition, SERF1 is a phosphorylation target of MAPK5, resulting in enhanced transcriptional activity of SERF1 toward its direct target genes. In agreement, plants deficient for SERF1 are more sensitive to salt stress compared with the wild type, while constitutive overexpression of SERF1 improves salinity tolerance. We propose that SERF1 amplifies the reactive oxygen species-activated MAPK cascade signal during the initial phase of salt stress and translates the salt-induced signal into an appropriate expressional response resulting in salt tolerance.
Y1  - 2013
U6  - https://doi.org/10.1105/tpc.113.113068
SN  - 1040-4651
VL  - 25
IS  - 6
SP  - 2115
EP  - 2131
PB  - American Society of Plant Physiologists
CY  - Rockville
ER  - 
TY  - JOUR
A1  - Schmidt, Romy
A1  - Schippers, Jos H. M.
A1  - Mieulet, Delphine
A1  - Obata, Toshihiro
A1  - Fernie, Alisdair R.
A1  - Guiderdoni, Emmanuel
A1  - Müller-Röber, Bernd
T1  - Multipass, a rice R2R3-type MYB transcription factor, regulates adaptive growth by integrating multiple hormonal pathways
JF  - The plant journal
N2  - Growth regulation is an important aspect of plant adaptation during environmental perturbations. Here, the role of MULTIPASS (OsMPS), an R2R3-type MYB transcription factor of rice, was explored. OsMPS is induced by salt stress and expressed in vegetative and reproductive tissues. Over-expression of OsMPS reduces growth under non-stress conditions, while knockdown plants display increased biomass. OsMPS expression is induced by abscisic acid and cytokinin, but is repressed by auxin, gibberellin and brassinolide. Growth retardation caused by OsMPS over-expression is partially restored by auxin application. Expression profiling revealed that OsMPS negatively regulates the expression of EXPANSIN (EXP) and cell-wall biosynthesis as well as phytohormone signaling genes. Furthermore, the expression of OsMPS-dependent genes is regulated by auxin, cytokinin and abscisic acid. Moreover, we show that OsMPS is a direct upstream regulator of OsEXPA4, OsEXPA8, OsEXPB2, OsEXPB3, OsEXPB6 and the endoglucanase genes OsGLU5 and OsGLU14. The multiple responses of OsMPS and its target genes to various hormones suggest an integrative function of OsMPS in the cross-talk between phytohormones and the environment to regulate adaptive growth.
KW  - development
KW  - expansin
KW  - transcription
KW  - Oryza sativa
KW  - hormone
KW  - abiotic stress
Y1  - 2013
U6  - https://doi.org/10.1111/tpj.12286
SN  - 0960-7412
SN  - 1365-313X
VL  - 76
IS  - 2
SP  - 258
EP  - 273
PB  - Wiley-Blackwell
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Wang, Ting
A1  - Tohge, Takayuki
A1  - Ivakov, Alexander
A1  - Müller-Röber, Bernd
A1  - Fernie, Alisdair R.
A1  - Mutwil, Marek
A1  - Schippers, Jos H. M.
A1  - Persson, Staffan
T1  - Salt-Related MYB1 Coordinates Abscisic Acid Biosynthesis and Signaling during Salt Stress in Arabidopsis
JF  - Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants
N2  - Abiotic stresses, such as salinity, cause global yield loss of all major crop plants. Factors and mechanisms that can aid in plant breeding for salt stress tolerance are therefore of great importance for food and feed production. Here, we identified a MYB-like transcription factor, Salt-Related MYB1 (SRM1), that negatively affects Arabidopsis (Arabidopsis thaliana) seed germination under saline conditions by regulating the levels of the stress hormone abscisic acid (ABA). Accordingly, several ABA biosynthesis and signaling genes act directly downstream of SRM1, including SALT TOLERANT1/NINE-CIS-EPOXYCAROTENOID DIOXYGENASE3, RESPONSIVE TO DESICCATION26, and Arabidopsis NAC DOMAIN CONTAINING PROTEIN19. Furthermore, SRM1 impacts vegetative growth and leaf shape. We show that SRM1 is an important transcriptional regulator that directly targets ABA biosynthesis and signaling-related genes and therefore may be regarded as an important regulator of ABA-mediated salt stress tolerance.
Y1  - 2015
U6  - https://doi.org/10.1104/pp.15.00962
SN  - 0032-0889
SN  - 1532-2548
VL  - 169
IS  - 2
SP  - 1027
EP  - +
PB  - American Society of Plant Physiologists
CY  - Rockville
ER  - 
TY  - JOUR
A1  - Engqvist, Martin K. M.
A1  - Schmitz, Jessica
A1  - Gertzmann, Anke
A1  - Florian, Alexandra
A1  - Jaspert, Nils
A1  - Arif, Muhammad
A1  - Balazadeh, Salma
A1  - Müller-Röber, Bernd
A1  - Fernie, Alisdair R.
A1  - Maurino, Veronica G.
T1  - GLYCOLATE OXIDASE3, a Glycolate Oxidase Homolog of Yeast L-Lactate Cytochrome c Oxidoreductase, Supports L-Lactate Oxidation in Roots of Arabidopsis
JF  - Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants
N2  - In roots of Arabidopsis (Arabidopsis thaliana), L-lactate is generated by the reduction of pyruvate via L-lactate dehydrogenase, but this enzyme does not efficiently catalyze the reverse reaction. Here, we identify the Arabidopsis glycolate oxidase (GOX) paralogs GOX1, GOX2, and GOX3 as putative L-lactate-metabolizing enzymes based on their homology to CYB2, the L-lactate cytochrome c oxidoreductase from the yeast Saccharomyces cerevisiae. We found that GOX3 uses L-lactate with a similar efficiency to glycolate; in contrast, the photorespiratory isoforms GOX1 and GOX2, which share similar enzymatic properties, use glycolate with much higher efficiencies than L-lactate. The key factor making GOX3 more efficient with L-lactate than GOX1 and GOX2 is a 5- to 10-fold lower Km for the substrate. Consequently, only GOX3 can efficiently metabolize L-lactate at low intracellular concentrations. Isotope tracer experiments as well as substrate toxicity tests using GOX3 loss-of-function and overexpressor plants indicate that L-lactate is metabolized in vivo by GOX3. Moreover, GOX3 rescues the lethal growth phenotype of a yeast strain lacking CYB2, which cannot grow on L-lactate as a sole carbon source. GOX3 is predominantly present in roots and mature to aging leaves but is largely absent from young photosynthetic leaves, indicating that it plays a role predominantly in heterotrophic rather than autotrophic tissues, at least under standard growth conditions. In roots of plants grown under normoxic conditions, loss of function of GOX3 induces metabolic rearrangements that mirror wild-type responses under hypoxia. Thus, we identified GOX3 as the enzyme that metabolizes L-lactate to pyruvate in vivo and hypothesize that it may ensure the sustainment of low levels of L-lactate after its formation under normoxia.
Y1  - 2015
U6  - https://doi.org/10.1104/pp.15.01003
SN  - 0032-0889
SN  - 1532-2548
VL  - 169
IS  - 2
SP  - 1042
EP  - 1061
PB  - American Society of Plant Physiologists
CY  - Rockville
ER  -