TY  - JOUR
A1  - Allu, Annapurna Devi
A1  - Brotman, Yariv
A1  - Xue, Gang-Ping
A1  - Balazadeh, Salma
T1  - Transcription factor ANAC032 modulates JA/SA signalling in response to Pseudomonas syringae infection
JF  - EMBO reports
N2  - Responses to pathogens, including host transcriptional reprogramming, require partially antagonistic signalling pathways dependent on the phytohormones salicylic (SA) and jasmonic (JA) acids. However, upstream factors modulating the interplay of these pathways are not well characterized. Here, we identify the transcription factor ANAC032 from Arabidopsis thaliana as one such regulator in response to the bacterial pathogen Pseudomonas syringae pv. tomato DC3000 (Pst). ANAC032 directly represses MYC2 activation upon Pst attack, resulting in blockage of coronatine-mediated stomatal reopening which restricts entry of bacteria into plant tissue. Furthermore, ANAC032 activates SA signalling by repressing NIMIN1, a key negative regulator of SA-dependent defence. Finally, ANAC032 reduces expression of JA-responsive genes, including PDF1.2A. Thus, ANAC032 enhances resistance to Pst by generating an orchestrated transcriptional output towards key SA- and JA-signalling genes coordinated through direct binding of ANAC032 to the MYC2, NIMIN1 and PDF1.2A promoters.
KW  - Arabidopsis
KW  - jasmonic acid
KW  - pathogens
KW  - salicylic acid
KW  - transcription factor
Y1  - 2016
U6  - https://doi.org/10.15252/embr.201642197
SN  - 1469-221X
SN  - 1469-3178
VL  - 17
SP  - 1578
EP  - 1589
PB  - Wiley-Blackwell
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Brotman, Yariv
A1  - Landau, Udi
A1  - Pnini, Smadar
A1  - Lisec, Jan
A1  - Balazadeh, Salma
A1  - Müller-Röber, Bernd
A1  - Zilberstein, Aviah
A1  - Willmitzer, Lothar
A1  - Chet, Ilan
A1  - Viterbo, Ada
T1  - The LysM Receptor-Like Kinase LysM RLK1 is required to activate defense and abiotic-stress responses induced by overexpression of fungal chitinases in arabidopsis plants
JF  - Molecular plant
N2  - Application of crab shell chitin or pentamer chitin oligosaccharide to Arabidopsis seedlings increased tolerance to salinity in wild-type but not in knockout mutants of the LysM Receptor-Like Kinase1 (CERK1/LysM RLK1) gene, known to play a critical role in signaling defense responses induced by exogenous chitin. Arabidopsis plants overexpressing the endochitinase chit36 and hexoaminidase excy1 genes from the fungus Trichoderma asperelleoides T203 showed increased tolerance to salinity, heavy-metal stresses, and Botrytis cinerea infection. Resistant lines, overexpressing fungal chitinases at different levels, were outcrossed to lysm rlk1 mutants. Independent homozygous hybrids lost resistance to biotic and abiotic stresses, despite enhanced chitinase activity. Expression analysis of 270 stress-related genes, including those induced by reactive oxygen species (ROS) and chitin, revealed constant up-regulation (at least twofold) of 10 genes in the chitinase-overexpressing line and an additional 76 salt-induced genes whose expression was not elevated in the lysm rlk1 knockout mutant or the hybrids harboring the mutation. These findings elucidate that chitin-induced signaling mediated by LysM RLK1 receptor is not limited to biotic stress response but also encompasses abiotic-stress signaling and can be conveyed by ectopic expression of chitinases in plants.
KW  - abiotic stress
KW  - chitin-induced signaling
KW  - chitinases
KW  - LysM receptor kinase
KW  - Trichoderma
Y1  - 2012
U6  - https://doi.org/10.1093/mp/sss021
SN  - 1674-2052
VL  - 5
IS  - 5
SP  - 1113
EP  - 1124
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - de Abreu e Lima, Francisco Anastacio
A1  - Li, Kun
A1  - Wen, Weiwei
A1  - Yan, Jianbing
A1  - Nikoloski, Zoran
A1  - Willmitzer, Lothar
A1  - Brotman, Yariv
T1  - Unraveling lipid metabolism in maize with time-resolved multi-omics data
JF  - The plant journal
N2  - Maize is the cereal crop with the highest production worldwide, and its oil is a key energy resource. Improving the quantity and quality of maize oil requires a better understanding of lipid metabolism. To predict the function of maize genes involved in lipid biosynthesis, we assembled transcriptomic and lipidomic data sets from leaves of B73 and the high-oil line By804 in two distinct time-series experiments. The integrative analysis based on high-dimensional regularized regression yielded lipid-transcript associations indirectly validated by Gene Ontology and promoter motif enrichment analyses. The co-localization of lipid-transcript associations using the genetic mapping of lipid traits in leaves and seedlings of a B73 x By804 recombinant inbred line population uncovered 323 genes involved in the metabolism of phospholipids, galactolipids, sulfolipids and glycerolipids. The resulting association network further supported the involvement of 50 gene candidates in modulating levels of representatives from multiple acyl-lipid classes. Therefore, the proposed approach provides high-confidence candidates for experimental testing in maize and model plant species.
KW  - Zea mays
KW  - lipid metabolism
KW  - omics
KW  - GFLASSO
KW  - QTL
Y1  - 2018
U6  - https://doi.org/10.1111/tpj.13833
SN  - 0960-7412
SN  - 1365-313X
VL  - 93
IS  - 6
SP  - 1102
EP  - 1115
PB  - Wiley
CY  - Hoboken
ER  - 
TY  - GEN
A1  - Durgud, Meriem
A1  - Gupta, Saurabh
A1  - Ivanov, Ivan
A1  - Omidbakhshfard, Mohammad Amin
A1  - Benina, Maria
A1  - Alseekh, Saleh
A1  - Staykov, Nikola
A1  - Hauenstein, Mareike
A1  - Dijkwel, Paul P.
A1  - Hortensteiner, Stefan
A1  - Toneva, Valentina
A1  - Brotman, Yariv
A1  - Fernie, Alisdair R.
A1  - Müller-Röber, Bernd
A1  - Gechev, Tsanko S.
T1  - Molecular mechanisms preventing senescence in response to prolonged darkness in a desiccation-tolerant plant
T2  - Postprints der Universität Potsdam Mathematisch-Naturwissenschaftliche Reihe
N2  - The desiccation-tolerant plant Haberlea rhodopensis can withstand months of darkness without any visible senescence. Here, we investigated the molecular mechanisms of this adaptation to prolonged (30 d) darkness and subsequent return to light. H. rhodopensis plants remained green and viable throughout the dark treatment. Transcriptomic analysis revealed that darkness regulated several transcription factor (TF) genes. Stress-and autophagy-related TFs such as ERF8, HSFA2b, RD26, TGA1, and WRKY33 were up-regulated, while chloroplast-and flowering-related TFs such as ATH1, COL2, COL4, RL1, and PTAC7 were repressed. PHYTOCHROME INTERACTING FACTOR4, a negative regulator of photomorphogenesis and promoter of senescence, also was down-regulated. In response to darkness, most of the photosynthesis-and photorespiratory-related genes were strongly down-regulated, while genes related to autophagy were up-regulated. This occurred concomitant with the induction of SUCROSE NON-FERMENTING1-RELATED PROTEIN KINASES (SnRK1) signaling pathway genes, which regulate responses to stress-induced starvation and autophagy. Most of the genes associated with chlorophyll catabolism, which are induced by darkness in dark-senescing species, were either unregulated (PHEOPHORBIDE A OXYGENASE, PAO; RED CHLOROPHYLL CATABOLITE REDUCTASE, RCCR) or repressed (STAY GREEN-LIKE, PHEOPHYTINASE, and NON-YELLOW COLORING1). Metabolite profiling revealed increases in the levels of many amino acids in darkness, suggesting increased protein degradation. In darkness, levels of the chloroplastic lipids digalactosyldiacylglycerol, monogalactosyldiacylglycerol, phosphatidylglycerol, and sulfoquinovosyldiacylglycerol decreased, while those of storage triacylglycerols increased, suggesting degradation of chloroplast membrane lipids and their conversion to triacylglycerols for use as energy and carbon sources. Collectively, these data show a coordinated response to darkness, including repression of photosynthetic, photorespiratory, flowering, and chlorophyll catabolic genes, induction of autophagy and SnRK1 pathways, and metabolic reconfigurations that enable survival under prolonged darkness.
T3  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 778 
KW  - beta-oxidation
KW  - craterostigma-plantagineum
KW  - photosynthetic apparatus
KW  - transcription factors
KW  - lipid-metabolism
KW  - leaf senescence
KW  - fatty-acid
KW  - arabidopsis
KW  - chlorophyll
KW  - stress
Y1  - 2019
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-437588
IS  - 778
SP  - 1319
EP  - 1338
ER  - 
TY  - JOUR
A1  - Durgud, Meriem
A1  - Gupta, Saurabh
A1  - Ivanov, Ivan
A1  - Omidbakhshfard, Mohammad Amin
A1  - Benina, Maria
A1  - Alseekh, Saleh
A1  - Staykov, Nikola
A1  - Hauenstein, Mareike
A1  - Dijkwel, Paul P.
A1  - Hortensteiner, Stefan
A1  - Toneva, Valentina
A1  - Brotman, Yariv
A1  - Fernie, Alisdair R.
A1  - Müller-Röber, Bernd
A1  - Gechev, Tsanko S.
T1  - Molecular Mechanisms Preventing Senescence in Response to Prolonged Darkness in a Desiccation-Tolerant Plant
JF  - Plant physiology : an international journal devoted to physiology, biochemistry, cellular and molecular biology, biophysics and environmental biology of plants
N2  - The desiccation-tolerant plant Haberlea rhodopensis can withstand months of darkness without any visible senescence. Here, we investigated the molecular mechanisms of this adaptation to prolonged (30 d) darkness and subsequent return to light. H. rhodopensis plants remained green and viable throughout the dark treatment. Transcriptomic analysis revealed that darkness regulated several transcription factor (TF) genes. Stress-and autophagy-related TFs such as ERF8, HSFA2b, RD26, TGA1, and WRKY33 were up-regulated, while chloroplast-and flowering-related TFs such as ATH1, COL2, COL4, RL1, and PTAC7 were repressed. PHYTOCHROME INTERACTING FACTOR4, a negative regulator of photomorphogenesis and promoter of senescence, also was down-regulated. In response to darkness, most of the photosynthesis-and photorespiratory-related genes were strongly down-regulated, while genes related to autophagy were up-regulated. This occurred concomitant with the induction of SUCROSE NON-FERMENTING1-RELATED PROTEIN KINASES (SnRK1) signaling pathway genes, which regulate responses to stress-induced starvation and autophagy. Most of the genes associated with chlorophyll catabolism, which are induced by darkness in dark-senescing species, were either unregulated (PHEOPHORBIDE A OXYGENASE, PAO; RED CHLOROPHYLL CATABOLITE REDUCTASE, RCCR) or repressed (STAY GREEN-LIKE, PHEOPHYTINASE, and NON-YELLOW COLORING1). Metabolite profiling revealed increases in the levels of many amino acids in darkness, suggesting increased protein degradation. In darkness, levels of the chloroplastic lipids digalactosyldiacylglycerol, monogalactosyldiacylglycerol, phosphatidylglycerol, and sulfoquinovosyldiacylglycerol decreased, while those of storage triacylglycerols increased, suggesting degradation of chloroplast membrane lipids and their conversion to triacylglycerols for use as energy and carbon sources. Collectively, these data show a coordinated response to darkness, including repression of photosynthetic, photorespiratory, flowering, and chlorophyll catabolic genes, induction of autophagy and SnRK1 pathways, and metabolic reconfigurations that enable survival under prolonged darkness.
Y1  - 2018
U6  - https://doi.org/10.1104/pp.18.00055
SN  - 0032-0889
SN  - 1532-2548
VL  - 177
IS  - 3
SP  - 1319
EP  - 1338
PB  - American Society of Plant Physiologists
CY  - Rockville
ER  - 
TY  - JOUR
A1  - Jose Clemente-Moreno, Maria
A1  - Omranian, Nooshin
A1  - Saez, Patricia
A1  - Maria Figueroa, Carlos
A1  - Del-Saz, Nestor
A1  - Elso, Mhartyn
A1  - Poblete, Leticia
A1  - Orf, Isabel
A1  - Cuadros-Inostroza, Alvaro
A1  - Cavieres, Lohengrin
A1  - Bravo, Leon
A1  - Fernie, Alisdair R.
A1  - Ribas-Carbo, Miquel
A1  - Flexas, Jaume
A1  - Nikoloski, Zoran
A1  - Brotman, Yariv
A1  - Gago, Jorge
T1  - Cytochrome respiration pathway and sulphur metabolism sustain stress tolerance to low temperature in the Antarctic species Colobanthus quitensis
JF  - New phytologist : international journal of plant science
N2  - Understanding the strategies employed by plant species that live in extreme environments offers the possibility to discover stress tolerance mechanisms. We studied the physiological, antioxidant and metabolic responses to three temperature conditions (4, 15, and 23 degrees C) of Colobanthus quitensis (CQ), one of the only two native vascular species in Antarctica. We also employed Dianthus chinensis (DC), to assess the effects of the treatments in a non-Antarctic species from the same family. Using fused LASSO modelling, we associated physiological and biochemical antioxidant responses with primary metabolism. This approach allowed us to highlight the metabolic pathways driving the response specific to CQ. Low temperature imposed dramatic reductions in photosynthesis (up to 88%) but not in respiration (sustaining rates of 3.0-4.2 mu mol CO2 m(-2) s(-1)) in CQ, and no change in the physiological stress parameters was found. Its notable antioxidant capacity and mitochondrial cytochrome respiratory activity (20 and two times higher than DC, respectively), which ensure ATP production even at low temperature, was significantly associated with sulphur-containing metabolites and polyamines. Our findings potentially open new biotechnological opportunities regarding the role of antioxidant compounds and respiratory mechanisms associated with sulphur metabolism in stress tolerance strategies to low temperature.
KW  - Antarctica
KW  - antioxidant capacity
KW  - low temperature
KW  - photosynthesis
KW  - respiration
KW  - stress tolerance
KW  - sulphur metabolism
Y1  - 2019
U6  - https://doi.org/10.1111/nph.16167
SN  - 0028-646X
SN  - 1469-8137
VL  - 225
IS  - 2
SP  - 754
EP  - 768
PB  - Wiley
CY  - Hoboken
ER  - 
TY  - GEN
A1  - Omidbakhshfard, Mohammad Amin
A1  - Neerakkal, Sujeeth
A1  - Gupta, Saurabh
A1  - Omranian, Nooshin
A1  - Guinan, Kieran J.
A1  - Brotman, Yariv
A1  - Nikoloski, Zoran
A1  - Fernie, Alisdair R.
A1  - Mueller-Roeber, Bernd
A1  - Gechev, Tsanko S.
T1  - A Biostimulant Obtained from the Seaweed Ascophyllum nodosum Protects Arabidopsis thaliana from Severe Oxidative Stress
T2  - Postprints der Universität Potsdam : Mathematisch Naturwissenschaftliche Reihe
N2  - Abiotic stresses cause oxidative damage in plants. Here, we demonstrate that foliar application of an extract from the seaweed Ascophyllum nodosum, SuperFifty (SF), largely prevents paraquat (PQ)-induced oxidative stress in Arabidopsis thaliana. While PQ-stressed plants develop necrotic lesions, plants pre-treated with SF (i.e., primed plants) were unaffected by PQ. Transcriptome analysis revealed induction of reactive oxygen species (ROS) marker genes, genes involved in ROS-induced programmed cell death, and autophagy-related genes after PQ treatment. These changes did not occur in PQ-stressed plants primed with SF. In contrast, upregulation of several carbohydrate metabolism genes, growth, and hormone signaling as well as antioxidant-related genes were specific to SF-primed plants. Metabolomic analyses revealed accumulation of the stress-protective metabolite maltose and the tricarboxylic acid cycle intermediates fumarate and malate in SF-primed plants. Lipidome analysis indicated that those lipids associated with oxidative stress-induced cell death and chloroplast degradation, such as triacylglycerols (TAGs), declined upon SF priming. Our study demonstrated that SF confers tolerance to PQ-induced oxidative stress in A. thaliana, an effect achieved by modulating a range of processes at the transcriptomic, metabolic, and lipid levels.
T3  - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 823 
KW  - Ascophyllum nodosum
KW  - Arabidopsis thaliana
KW  - biostimulant
KW  - paraquat
KW  - priming
KW  - oxidative stress tolerance
KW  - reactive oxygen species
Y1  - 2020
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-445093
SN  - 1866-8372
IS  - 823
ER  - 
TY  - JOUR
A1  - Omidbakhshfard, Mohammad Amin
A1  - Neerakkal, Sujeeth
A1  - Gupta, Saurabh
A1  - Omranian, Nooshin
A1  - Guinan, Kieran J.
A1  - Brotman, Yariv
A1  - Nikoloski, Zoran
A1  - Fernie, Alisdair R.
A1  - Mueller-Roeber, Bernd
A1  - Gechev, Tsanko S.
T1  - A Biostimulant Obtained from the Seaweed Ascophyllum nodosum Protects Arabidopsis thaliana from Severe Oxidative Stress
JF  - International Journal of Molecular Sciences
N2  - Abiotic stresses cause oxidative damage in plants. Here, we demonstrate that foliar application of an extract from the seaweed Ascophyllum nodosum, SuperFifty (SF), largely prevents paraquat (PQ)-induced oxidative stress in Arabidopsis thaliana. While PQ-stressed plants develop necrotic lesions, plants pre-treated with SF (i.e., primed plants) were unaffected by PQ. Transcriptome analysis revealed induction of reactive oxygen species (ROS) marker genes, genes involved in ROS-induced programmed cell death, and autophagy-related genes after PQ treatment. These changes did not occur in PQ-stressed plants primed with SF. In contrast, upregulation of several carbohydrate metabolism genes, growth, and hormone signaling as well as antioxidant-related genes were specific to SF-primed plants. Metabolomic analyses revealed accumulation of the stress-protective metabolite maltose and the tricarboxylic acid cycle intermediates fumarate and malate in SF-primed plants. Lipidome analysis indicated that those lipids associated with oxidative stress-induced cell death and chloroplast degradation, such as triacylglycerols (TAGs), declined upon SF priming. Our study demonstrated that SF confers tolerance to PQ-induced oxidative stress in A. thaliana, an effect achieved by modulating a range of processes at the transcriptomic, metabolic, and lipid levels.
KW  - Ascophyllum nodosum
KW  - Arabidopsis thaliana
KW  - biostimulant
KW  - paraquat
KW  - priming
KW  - oxidative stress tolerance
KW  - reactive oxygen species
Y1  - 2019
U6  - https://doi.org/10.3390/ijms21020474
SN  - 1422-0067
VL  - 21
IS  - 2
PB  - Molecular Diversity Preservation International
CY  - Basel
ER  - 
TY  - JOUR
A1  - Tenenboim, Hezi
A1  - Smirnova, Julia
A1  - Willmitzer, Lothar
A1  - Steup, Martin
A1  - Brotman, Yariv
T1  - VMP1-deficient Chlamydomonas exhibits severely aberrant cell morphology and disrupted cytokinesies
JF  - BMC plant biology
N2  - Background: The versatile Vacuole Membrane Protein 1 (VMP1) has been previously investigated in six species. It has been shown to be essential in macroautophagy, where it takes part in autophagy initiation. In addition, VMP1 has been implicated in organellar biogenesis; endo-, exo- and phagocytosis, and protein secretion; apoptosis; and cell adhesion. These roles underly its proven involvement in pancreatitis, diabetes and cancer in humans.
 Results: In this study we analyzed a VMP1 homologue from the green alga Chlamydomonas reinhardtii. CrVMP1 knockdown lines showed severe phenotypes, mainly affecting cell division as well as the morphology of cells and organelles. We also provide several pieces of evidence for its involvement in macroautophagy.
KW  - VMP1
KW  - Autophagy
KW  - Cytokinesis
Y1  - 2014
U6  - https://doi.org/10.1186/1471-2229-14-121
SN  - 1471-2229
VL  - 14
PB  - BioMed Central
CY  - London
ER  -