TY  - JOUR
A1  - Sree, K. Sowjanya
A1  - Keresztes, Aron
A1  - Müller-Röber, Bernd
A1  - Brandt, Ronny
A1  - Eberius, Matthias
A1  - Fischer, Wolfgang
A1  - Appenroth, Klaus-J.
T1  - Phytotoxicity of cobalt ions on the duckweed Lemna minor - Morphology, ion uptake, and starch accumulation
JF  - Chemosphere : chemistry, biology and toxicology as related to environmental problems
N2  - Cobalt (Co2+) inhibits vegetative growth of Lemna minor gradually from 1 mu M to 100 mu M. Fronds accumulated up to 21 mg Co2+ g(-1) dry weight at 10 mu M external Co2+ indicating hyperaccumulation. Interestingly, accumulation of Co2+ did not decrease the iron (Fe) content in fronds, highlighting L. minor as a suitable system for studying effects of Co2+ undisturbed by Fe deficiency symptoms unlike most other plants. Digital image analysis revealed the size distribution of fronds after Co2+ treatment and also a reduction in pigmentation of newly formed daughter fronds unlike the mother fronds during the 7-day treatment. Neither chlorophyll nor photosystem II fluorescence changed significantly during the initial 4 d, indicating effective photosynthesis. During the later phase of the 7-day treatment, however, chlorophyll content and photosynthetic efficiency decreased in the Co2+-treated daughter fronds, indicating that Co2+ inhibits the biosynthesis of chlorophyll rather than leading to the destruction of pre-existing pigment molecules. In addition, during the first 4 d of Co2+ treatment starch accumulated in the fronds and led to the transition of chloroplasts to chloro-amyloplasts and amylo-chloroplasts, while starch levels strongly decreased thereafter. (C) 2015 Elsevier Ltd. All rights reserved.
KW  - Chloroplast
KW  - Cobalt
KW  - Lemnaceae
KW  - Lemna minor
KW  - Phytotoxicity
KW  - Starch accumulation
Y1  - 2015
U6  - https://doi.org/10.1016/j.chemosphere.2015.03.008
SN  - 0045-6535
SN  - 1879-1298
VL  - 131
SP  - 149
EP  - 156
PB  - Elsevier
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Ralevski, Alexandra
A1  - Apelt, Federico
A1  - Olas, Justyna Jadwiga
A1  - Müller-Röber, Bernd
A1  - Rugarli, Elena I.
A1  - Kragler, Friedrich
A1  - Horvath, Tamas L.
T1  - Plant mitochondrial FMT and its mammalian homolog CLUH controls development and behavior in Arabidopsis and locomotion in mice
JF  - Cellular and molecular life sciences
N2  - Mitochondria in animals are associated with development, as well as physiological and pathological behaviors. Several conserved mitochondrial genes exist between plants and higher eukaryotes. Yet, the similarities in mitochondrial function between plant and animal species is poorly understood. Here, we show that FMT (FRIENDLY MITOCHONDRIA) from Arabidopsis thaliana, a highly conserved homolog of the mammalian CLUH (CLUSTERED MITOCHONDRIA) gene family encoding mitochondrial proteins associated with developmental alterations and adult physiological and pathological behaviors, affects whole plant morphology and development under both stressed and normal growth conditions. FMT was found to regulate mitochondrial morphology and dynamics, germination, and flowering time. It also affects leaf expansion growth, salt stress responses and hyponastic behavior, including changes in speed of hyponastic movements. Strikingly, Cluh(+/-) heterozygous knockout mice also displayed altered locomotive movements, traveling for shorter distances and had slower average and maximum speeds in the open field test. These observations indicate that homologous mitochondrial genes may play similar roles and affect homologous functions in both plants and animals.
KW  - Arabidopsis thaliana
KW  - Mitochondria
KW  - FMT
KW  - Hyponasty
KW  - Mice
KW  - CLUH;
KW  - Locomotion
Y1  - 2022
U6  - https://doi.org/10.1007/s00018-022-04382-3
SN  - 1420-682X
SN  - 1420-9071
VL  - 79
IS  - 6
PB  - Springer International Publishing AG
CY  - Cham (ZG)
ER  - 
TY  - JOUR
A1  - Naseri, Gita
A1  - Balazadeh, Salma
A1  - Machens, Fabian
A1  - Kamranfar, Iman
A1  - Messerschmidt, Katrin
A1  - Müller-Röber, Bernd
T1  - Plant-Derived Transcription Factors for Orthologous Regulation of Gene Expression in the Yeast Saccharomyces cerevisiae
JF  - ACS synthetic biology
N2  - Control of gene expression by transcription factors (TFs) is central in many synthetic biology projects for which a tailored expression of one or multiple genes is often needed. As TFs from evolutionary distant organisms are unlikely to affect gene expression in a host of choice, they represent excellent candidates for establishing orthogonal control systems. To establish orthogonal regulators for use in yeast (Saccharomyces cerevisiae), we chose TFs from the plant Arabidopsis thaliana. We established a library of 106 different combinations of chromosomally integrated TFs, activation domains (yeast GAL4 AD, herpes simplex virus VP64, and plant EDLL) and synthetic promoters harboring cognate cis regulatory motifs driving a yEGFP reporter. Transcriptional output of the different driver/reporter combinations varied over a wide spectrum, with EDLL being a considerably stronger transcription activation domain in yeast than the GAL4 activation domain, in particular when fused to Arabidopsis NAC TFs. Notably, the strength of several NAC-EDLL fusions exceeded that of the strong yeast TDH3 promoter by 6- to 10-fold. We furthermore show that plant TFs can be used to build regulatory systems encoded by centromeric or episomal plasmids. Our library of TF-DNA binding site combinations offers an excellent tool for diverse synthetic biology applications in yeast.
KW  - Arabidopsis thaliana
KW  - artificial transcription factor
KW  - NAC transcription factor
KW  - synthetic biology
KW  - plant
Y1  - 2017
U6  - https://doi.org/10.1021/acssynbio.7b00094
SN  - 2161-5063
VL  - 6
SP  - 1742
EP  - 1756
PB  - American Chemical Society
CY  - Washington
ER  - 
TY  - JOUR
A1  - Proost, Sebastian
A1  - Van Bel, Michiel
A1  - Vaneechoutte, Dries
A1  - Van de Peer, Yves
A1  - Inze, Dirk
A1  - Müller-Röber, Bernd
A1  - Vandepoele, Klaas
T1  - PLAZA 3.0: an access point for plant comparative genomics
JF  - Nucleic acids research
N2  - Comparative sequence analysis has significantly altered our view on the complexity of genome organization and gene functions in different kingdoms. PLAZA 3.0 is designed to make comparative genomics data for plants available through a user-friendly web interface. Structural and functional annotation, gene families, protein domains, phylogenetic trees and detailed information about genome organization can easily be queried and visualized. Compared with the first version released in 2009, which featured nine organisms, the number of integrated genomes is more than four times higher, and now covers 37 plant species. The new species provide a wider phylogenetic range as well as a more in-depth sampling of specific clades, and genomes of additional crop species are present. The functional annotation has been expanded and now comprises data from Gene Ontology, MapMan, UniProtKB/Swiss-Prot, PlnTFDB and PlantTFDB. Furthermore, we improved the algorithms to transfer functional annotation from well-characterized plant genomes to other species. The additional data and new features make PLAZA 3.0 (http://bioinformatics.psb.ugent.be/plaza/) a versatile and comprehensible resource for users wanting to explore genome information to study different aspects of plant biology, both in model and non-model organisms.
Y1  - 2015
U6  - https://doi.org/10.1093/nar/gku986
SN  - 0305-1048
SN  - 1362-4962
VL  - 43
IS  - D1
SP  - D974
EP  - D981
PB  - Oxford Univ. Press
CY  - Oxford
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  - Shubchynskyy, Volodymyr
A1  - Boniecka, Justyna
A1  - Schweighofer, Alois
A1  - Simulis, Justinas
A1  - Kvederaviciute, Kotryna
A1  - Stumpe, Michael
A1  - Mauch, Felix
A1  - Balazadeh, Salma
A1  - Müller-Röber, Bernd
A1  - Boutrot, Freddy
A1  - Zipfel, Cyril
A1  - Meskiene, Irute
T1  - Protein phosphatase AP2C1 negatively regulates basal resistance and defense responses to Pseudomonas syringae
JF  - Journal of experimental botany
N2  - Mitogen-activated protein kinases (MAPKs) mediate plant immune responses to pathogenic bacteria. However, less is known about the cell autonomous negative regulatory mechanism controlling basal plant immunity. We report the biological role of Arabidopsis thaliana MAPK phosphatase AP2C1 as a negative regulator of plant basal resistance and defense responses to Pseudomonas syringae. AP2C2, a closely related MAPK phosphatase, also negatively controls plant resistance. Loss of AP2C1 leads to enhanced pathogen-induced MAPK activities, increased callose deposition in response to pathogen-associated molecular patterns or to P. syringae pv. tomato (Pto) DC3000, and enhanced resistance to bacterial infection with Pto. We also reveal the impact of AP2C1 on the global transcriptional reprogramming of transcription factors during Pto infection. Importantly, ap2c1 plants show salicylic acid-independent transcriptional reprogramming of several defense genes and enhanced ethylene production in response to Pto. This study pinpoints the specificity of MAPK regulation by the different MAPK phosphatases AP2C1 and MKP1, which control the same MAPK substrates, nevertheless leading to different downstream events. We suggest that precise and specific control of defined MAPKs by MAPK phosphatases during plant challenge with pathogenic bacteria can strongly influence plant resistance.
KW  - Callose
KW  - defense genes
KW  - MAPK
KW  - MAPK phosphatase
KW  - PAMP
KW  - PP2C phosphatase
KW  - Pseudomonas syringae
KW  - salicylic acid
KW  - transcription factors
Y1  - 2017
U6  - https://doi.org/10.1093/jxb/erw485
SN  - 0022-0957
SN  - 1460-2431
VL  - 68
IS  - 5
SP  - 1169
EP  - 1183
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Faisal, Muhammad B.
A1  - Gechev, Tsanko S.
A1  - Müller-Röber, Bernd
A1  - Dijkwel, Paul P.
T1  - Putative alternative translation start site-encoding nucleotides of CPR5 regulate growth and resistance
JF  - BMC plant biology
N2  - Background
The Arabidopsis CONSTITUTIVE EXPRESSER of PATHOGENESIS-RELATED GENES 5 (CPR5) has recently been shown to play a role in gating as part of the nuclear pore complex (NPC). Mutations in CPR5 cause multiple defects, including aberrant trichomes, reduced ploidy levels, reduced growth and enhanced resistance to bacterial and fungal pathogens. The pleiotropic nature of cpr5 mutations implicates that the CPR5 protein affects multiple pathways. However, little is known about the structural features that allow CPR5 to affect the different pathways.

Results
Our in silico studies suggest that in addition to three clusters of putative nuclear localization signals and four or five transmembrane domains, CPR5 contains two putative alternative translation start sites. To test the role of the methionine-encoding nucleotides implicated in those sites, metCPR5 cDNAs, in which the relevant nucleotides were changed to encode glutamine, were fused to the CPR5 native promoter and the constructs transformed to cpr5-2 plants to complement cpr5-compromised phenotypes. The control and metCPR5 constructs were able to complement all cpr5 phenotypes, although the extent of complementation depended on the specific complementing plant lines. Remarkably, plants transformed with metCPR5 constructs showed larger leaves and displayed reduced resistance when challenged to Pseudomonas syringae pv Pst DC3000, as compared to control plants. Thus, the methionine-encoding nucleotides regulate growth and resistance. We propose that structural features of the CPR5 N-terminus are implicated in selective gating of proteins involved in regulating the balance between growth and resistance.

Conclusion
Plants need to carefully balance the amount of resources used for growth and resistance. The Arabidopsis CPR5 protein regulates plant growth and immunity. Here we show that N-terminal features of CPR5 are involved in the regulation of the balance between growth and resistance. These findings may benefit efforts to improve plant yield, while maintaining optimal levels of disease resistance.
KW  - CPR5
KW  - plant growth
KW  - disease resistance
KW  - cell death
KW  - arabidopsis thaliana
KW  - endoreduplication
Y1  - 2020
U6  - https://doi.org/10.1186/s12870-020-02485-2
SN  - 1471-2229
VL  - 20
IS  - 1
PB  - BMC
CY  - London
ER  - 
TY  - JOUR
A1  - Kreft, Oliver
A1  - Georgieva, Radostina
A1  - Bäumler, Hans
A1  - Steup, Martin
A1  - Müller-Röber, Bernd
A1  - Sukhorukov, Gleb B.
A1  - Möhwald, Helmuth
T1  - Red blood cell templated polyelectrolyte capsules : a novel vehicle for the stable encapsulation of DNA and proteins
N2  - A novel method for the encapsulation of biomacromolecules, such as nucleic acids and proteins, into polyelectrolyte microcapsules is described. Fluorescence-labelled double-stranded DNA and human serum albumin (HSA) are used as model substances for encapsulation in hollow microcapsules templated on human erythrocytes. The encapsulation procedure involves an intermediate drying C, step. The accumulation of DNA and HSA in the capsules is observed by confocal laser scanning microscopy, UV spectroscopy, and flourimetry. The mechanism of encapsulation is discussed
Y1  - 2006
UR  - http://www3.interscience.wiley.com/cgi-bin/jhome/10003270
U6  - https://doi.org/10.1002/marc.200500777
SN  - 1022-1336
ER  - 
TY  - JOUR
A1  - John, Sheeba
A1  - Olas, Justyna Jadwiga
A1  - Müller-Röber, Bernd
T1  - Regulation of alternative splicing in response to temperature variation in plants
JF  - Journal of experimental botany
N2  - Plants have evolved numerous molecular strategies to cope with perturbations in environmental temperature, and to adjust growth and physiology to limit the negative effects of extreme temperature. One of the strategies involves alternative splicing of primary transcripts to encode alternative protein products or transcript variants destined for degradation by nonsense-mediated decay. Here, we review how changes in environmental temperature-cold, heat, and moderate alterations in temperature-affect alternative splicing in plants, including crops. We present examples of the mode of action of various temperature-induced splice variants and discuss how these alternative splicing events enable favourable plant responses to altered temperatures. Finally, we point out unanswered questions that should be addressed to fully utilize the endogenous mechanisms in plants to adjust their growth to environmental temperature. We also indicate how this knowledge might be used to enhance crop productivity in the future.
KW  - alternative splicing
KW  - ambient temperature
KW  - cold
KW  - heat
KW  - plants
KW  - stress
KW  - adaptation
Y1  - 2021
U6  - https://doi.org/10.1093/jxb/erab232
SN  - 0022-0957
SN  - 1460-2431
VL  - 72
IS  - 18
SP  - 6150
EP  - 6163
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Parlitz, Steffi
A1  - Kunze, Reinhard
A1  - Müller-Röber, Bernd
A1  - Balazadeh, Salma
T1  - Regulation of photosynthesis and transcription factor expression by leaf shading and re-illumination in Arabidopsis thaliana leaves
JF  - Journal of plant physiology : biochemistry, physiology, molecular biology and biotechnology of plants
N2  - Leaf senescence of annual plants is a genetically programmed developmental phase. The onset of leaf senescence is however not exclusively determined by tissue age but is modulated by various environmental factors. Shading of individual attached leaves evokes dark-induced senescence. The initiation and progression of dark-induced senescence depend on the plant and the age of the affected leaf, however. In several plant species dark-induced senescence is fully reversible upon re-illumination and the leaves can regreen, but the regreening ability depends on the duration of dark incubation. We studied the ability of Arabidopsis thaliana leaves to regreen after dark-incubation with the aim to identify transcription factors (TFs) that are involved in the regulation of early dark-induced senescence and regreening. Two days shading of individual attached leaves triggers the transition into a pre-senescence state from which the leaves can largely recover. Longer periods of darkness result in irreversible senescence. Large scale qRT-PCR analysis of 1872 TF genes revealed that 649 of them are regulated in leaves during normal development, upon shading or re-illumination. Leaf shading triggered upregulation of 150 TF genes, some of which are involved in controlling senescence. Of those, 39 TF genes were upregulated after two days in the dark and regained pre-shading expression level after two days of re-illumination. Furthermore, a larger number of 422 TF genes were down regulated upon shading. In TF gene clusters with different expression patterns certain TF families are over-represented.
KW  - Arabidopsis thaliana
KW  - Dark-induced senescence
KW  - Expression profiling
KW  - Regreening
KW  - Transcription factor
Y1  - 2011
U6  - https://doi.org/10.1016/j.jplph.2011.02.001
SN  - 0176-1617
VL  - 168
IS  - 12
SP  - 1311
EP  - 1319
PB  - Elsevier
CY  - Jena
ER  - 
TY  - JOUR
A1  - Fichtner, Franziska
A1  - Barbier, Francois F.
A1  - Annunziata, Maria Grazia
A1  - Feil, Regina
A1  - Olas, Justyna Jadwiga
A1  - Müller-Röber, Bernd
A1  - Stitt, Mark
A1  - Beveridge, Christine A.
A1  - Lunn, John Edward
T1  - Regulation of shoot branching in arabidopsis by trehalose 6-phosphate
JF  - New phytologist : international journal of plant science
N2  - Trehalose 6-phosphate (Tre6P) is a sucrose signalling metabolite that has been implicated in regulation of shoot branching, but its precise role is not understood. 

We expressed tagged forms of TREHALOSE-6-PHOSPHATE SYNTHASE1 (TPS1) to determine where Tre6P is synthesized in arabidopsis (Arabidopsis thaliana), and investigated the impact of localized changes in Tre6P levels, in axillary buds or vascular tissues, on shoot branching in wild-type and branching mutant backgrounds.

TPS1 is expressed in axillary buds and the subtending vasculature, as well as in the leaf and stem vasculature. Expression of a heterologous Tre6P phosphatase (TPP) to lower Tre6P in axillary buds strongly delayed bud outgrowth in long days and inhibited branching in short days. TPP expression in the vasculature also delayed lateral bud outgrowth and decreased branching. Increased Tre6P in the vasculature enhanced branching and was accompanied by higher expression of FLOWERING LOCUS T (FT) and upregulation of sucrose transporters. Increased vascular Tre6P levels enhanced branching in branched1 but not in ft mutant backgrounds. 

These results provide direct genetic evidence of a local role for Tre6P in regulation of axillary bud outgrowth within the buds themselves, and also connect Tre6P with systemic regulation of shoot branching via FT.
KW  - Arabidopsis thaliana (arabidopsis)
KW  - axillary bud
KW  - branching
KW  - sucrose
KW  - sugar signalling
KW  - trehalose 6‐ phosphate (Tre6P)
Y1  - 2020
U6  - https://doi.org/10.1111/nph.17006
SN  - 0028-646X
SN  - 1469-8137
VL  - 229
IS  - 4
SP  - 2135
EP  - 2151
PB  - Wiley
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Kohler, B.
A1  - Müller-Röber, Bernd
T1  - Remote control - cell and organ communication within plants
Y1  - 2004
ER  - 
TY  - JOUR
A1  - Balazadeh, Salma
A1  - Schildhauer, Joerg
A1  - Araujo, Wagner L.
A1  - Munne-Bosch, Sergi
A1  - Fernie, Alisdair R.
A1  - Proost, Sebastian
A1  - Humbeck, Klaus
A1  - Müller-Röber, Bernd
T1  - Reversal of senescence by N resupply to N-starved Arabidopsis thaliana: transcriptomic and metabolomic consequences
JF  - Journal of experimental botany
N2  - Leaf senescence is a developmentally controlled process, which is additionally modulated by a number of adverse environmental conditions. Nitrogen shortage is a well-known trigger of precocious senescence in many plant species including crops, generally limiting biomass and seed yield. However, leaf senescence induced by nitrogen starvation may be reversed when nitrogen is resupplied at the onset of senescence. Here, the transcriptomic, hormonal, and global metabolic rearrangements occurring during nitrogen resupply-induced reversal of senescence in Arabidopsis thaliana were analysed. The changes induced by senescence were essentially in keeping with those previously described; however, these could, by and large, be reversed. The data thus indicate that plants undergoing senescence retain the capacity to sense and respond to the availability of nitrogen nutrition. The combined data are discussed in the context of the reversibility of the senescence programme and the evolutionary benefit afforded thereby. Future prospects for understanding and manipulating this process in both Arabidopsis and crop plants are postulated.
KW  - Arabidopsis
KW  - gene expression
KW  - metabolomics
KW  - nitrogen limitation
KW  - senescence
KW  - transcriptome
Y1  - 2014
U6  - https://doi.org/10.1093/jxb/eru119
SN  - 0022-0957
SN  - 1460-2431
VL  - 65
IS  - 14
SP  - 3975
EP  - 3992
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Wang, Wei-Hong
A1  - Köhler, Barbara
A1  - Cao, Feng-Qiu
A1  - Liu, Guo-Wei
A1  - Gong, Yuan-Yong
A1  - Sheng, Song
A1  - Song, Qi-Chao
A1  - Cheng, Xiao-Yuan
A1  - Garnett, Trevor
A1  - Okamoto, Mamoru
A1  - Qin, Rui
A1  - Müller-Röber, Bernd
A1  - Tester, Mark
A1  - Liu, Lai-Hua
T1  - Rice DUR3 mediates high-affinity urea transport and plays an effective role in improvement of urea acquisition and utilization when expressed in Arabidopsis
JF  - New phytologist : international journal of plant science
N2  - Despite the great agricultural and ecological importance of efficient use of urea-containing nitrogen fertilizers by crops, molecular and physiological identities of urea transport in higher plants have been investigated only in Arabidopsis. We performed short-time urea-influx assays which have identified a low-affinity and high-affinity (Km of 7.55 mu M) transport system for urea-uptake by rice roots (Oryza sativa). A high-affinity urea transporter OsDUR3 from rice was functionally characterized here for the first time among crops. OsDUR3 encodes an integral membrane-protein with 721 amino acid residues and 15 predicted transmembrane domains. Heterologous expression demonstrated that OsDUR3 restored yeast dur3-mutant growth on urea and facilitated urea import with a Km of c. 10 mu M in Xenopus oocytes. Quantitative reverse-transcription polymerase chain reaction (qPCR) analysis revealed upregulation of OsDUR3 in rice roots under nitrogen-deficiency and urea-resupply after nitrogen-starvation. Importantly, overexpression of OsDUR3 complemented the Arabidopsis atdur3-1 mutant, improving growth on low urea and increasing root urea-uptake markedly. Together with its plasma membrane localization detected by green fluorescent protein (GFP)-tagging and with findings that disruption of OsDUR3 by T-DNA reduces rice growth on urea and urea uptake, we suggest that OsDUR3 is an active urea transporter that plays a significant role in effective urea acquisition and utilisation in rice.
KW  - high-affinity transporter
KW  - leaf senescence
KW  - nitrogen remobilization
KW  - OsDUR3
KW  - overexpression
KW  - rice plant
KW  - urea transport and utilization
Y1  - 2012
U6  - https://doi.org/10.1111/j.1469-8137.2011.03929.x
SN  - 0028-646X
VL  - 193
IS  - 2
SP  - 432
EP  - 444
PB  - Wiley-Blackwell
CY  - Malden
ER  - 
TY  - JOUR
A1  - Voelker, Camilla
A1  - Gomez-Porras, Judith Lucia
A1  - Becker, Dirk
A1  - Hamamoto, Shin
A1  - Uozumi, Nobuyuki
A1  - Gambale, Franco
A1  - Müller-Röber, Bernd
A1  - Czempinski, Katrin
A1  - Dreyer, Ingo
T1  - Roles of tandem-pore K plus channels in plants : a puzzle still to be solved
N2  - The group of voltage-independent K+ channels in Arabidopsis thaliana consists of six members, five tandem-pore channels (TPK1-TPK5) and a single K-ir-like channel (KCO3). All TPK/KCO channels are located at the vacuolar membrane except for TPK4, which was shown to be a plasma membrane channel in pollen. The vacuolar channels interact with 14-3-3 proteins (also called General Regulating Factors, GRFs), indicating regulation at the level of protein-protein interactions. Here we review current knowledge about these ion channels and their genes, and highlight open questions that need to be urgently addressed in future studies to fully appreciate the physiological functions of these ion channels.
Y1  - 2010
UR  - http://www3.interscience.wiley.com/cgi-bin/issn?DESCRIPTOR=PRINTISSN&VALUE=1435-8603
U6  - https://doi.org/10.1111/j.1438-8677.2010.00353.x
SN  - 1435-8603
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  - 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  - 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  - Machens, Fabian
A1  - Balazadeh, Salma
A1  - Müller-Röber, Bernd
A1  - Messerschmidt, Katrin
T1  - Synthetic Promoters and Transcription Factors for Heterologous Protein Expression in Saccharomyces cerevisiae
JF  - Frontiers in Bioengineering and Biotechnology
N2  - Orthogonal systems for heterologous protein expression as well as for the engineering of synthetic gene regulatory circuits in hosts like Saccharomyces cerevisiae depend on synthetic transcription factors (synTFs) and corresponding cis-regulatory binding sites. We have constructed and characterized a set of synTFs based on either transcription activator-like effectors or CRISPR/Cas9, and corresponding small synthetic promoters (synPs) with minimal sequence identity to the host’s endogenous promoters. The resulting collection of functional synTF/synP pairs confers very low background expression under uninduced conditions, while expression output upon induction of the various synTFs covers a wide range and reaches induction factors of up to 400. The broad spectrum of expression strengths that is achieved will be useful for various experimental setups, e.g., the transcriptional balancing of expression levels within heterologous pathways or the construction of artificial regulatory networks. Furthermore, our analyses reveal simple rules that enable the tuning of synTF expression output, thereby allowing easy modification of a given synTF/synP pair. This will make it easier for researchers to construct tailored transcriptional control systems.
KW  - JUB1
KW  - synthetic biology
KW  - transcriptional regulation
KW  - gene expression
KW  - synthetic circuits
KW  - dead Cas9
KW  - chimeric transcription factors
Y1  - 2017
U6  - https://doi.org/10.3389/fbioe.2017.00063
SN  - 2296-4185
VL  - 5
SP  - 1
EP  - 11
PB  - Frontiers
CY  - Lausanne
ER  - 
TY  - JOUR
A1  - Mettler, Tabea
A1  - Mühlhaus, Timo
A1  - Hemme, Dorothea
A1  - Schöttler, Mark Aurel
A1  - Rupprecht, Jens
A1  - Idoine, Adam
A1  - Veyel, Daniel
A1  - Pal, Sunil Kumar
A1  - Yaneva-Roder, Liliya
A1  - Winck, Flavia Vischi
A1  - Sommer, Frederik
A1  - Vosloh, Daniel
A1  - Seiwert, Bettina
A1  - Erban, Alexander
A1  - Burgos, Asdrubal
A1  - Arvidsson, Samuel Janne
A1  - Schoenfelder, Stephanie
A1  - Arnold, Anne
A1  - Guenther, Manuela
A1  - Krause, Ursula
A1  - Lohse, Marc
A1  - Kopka, Joachim
A1  - Nikoloski, Zoran
A1  - Müller-Röber, Bernd
A1  - Willmitzer, Lothar
A1  - Bock, Ralph
A1  - Schroda, Michael
A1  - Stitt, Mark
T1  - Systems analysis of the response of photosynthesis, metabolism, and growth to an increase in irradiance in the photosynthetic model organism chlamydomonas reinhardtii
JF  - The plant cell
N2  - We investigated the systems response of metabolism and growth after an increase in irradiance in the nonsaturating range in the algal model Chlamydomonas reinhardtii. In a three-step process, photosynthesis and the levels of metabolites increased immediately, growth increased after 10 to 15 min, and transcript and protein abundance responded by 40 and 120 to 240 min, respectively. In the first phase, starch and metabolites provided a transient buffer for carbon until growth increased. This uncouples photosynthesis from growth in a fluctuating light environment. In the first and second phases, rising metabolite levels and increased polysome loading drove an increase in fluxes. Most Calvin-Benson cycle (CBC) enzymes were substrate-limited in vivo, and strikingly, many were present at higher concentrations than their substrates, explaining how rising metabolite levels stimulate CBC flux. Rubisco, fructose-1,6-biosphosphatase, and seduheptulose-1,7-bisphosphatase were close to substrate saturation in vivo, and flux was increased by posttranslational activation. In the third phase, changes in abundance of particular proteins, including increases in plastidial ATP synthase and some CBC enzymes, relieved potential bottlenecks and readjusted protein allocation between different processes. Despite reasonable overall agreement between changes in transcript and protein abundance (R-2 = 0.24), many proteins, including those in photosynthesis, changed independently of transcript abundance.
Y1  - 2014
U6  - https://doi.org/10.1105/tpc.114.124537
SN  - 1040-4651
SN  - 1532-298X
VL  - 26
IS  - 6
SP  - 2310
EP  - 2350
PB  - American Society of Plant Physiologists
CY  - Rockville
ER  -