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Dong Y, Gupta S, Wargent JJ, Putterill J, Macknight RC, Gechev TS, Mueller-Roeber B, Dijkwel PP. Comparative Transcriptomics of Multi-Stress Responses in Pachycladon cheesemanii and Arabidopsis thaliana. Int J Mol Sci 2023; 24:11323. [PMID: 37511083 PMCID: PMC10379395 DOI: 10.3390/ijms241411323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Revised: 06/26/2023] [Accepted: 07/06/2023] [Indexed: 07/30/2023] Open
Abstract
The environment is seldom optimal for plant growth and changes in abiotic and biotic signals, including temperature, water availability, radiation and pests, induce plant responses to optimise survival. The New Zealand native plant species and close relative to Arabidopsis thaliana, Pachycladon cheesemanii, grows under environmental conditions that are unsustainable for many plant species. Here, we compare the responses of both species to different stressors (low temperature, salt and UV-B radiation) to help understand how P. cheesemanii can grow in such harsh environments. The stress transcriptomes were determined and comparative transcriptome and network analyses discovered similar and unique responses within species, and between the two plant species. A number of widely studied plant stress processes were highly conserved in A. thaliana and P. cheesemanii. However, in response to cold stress, Gene Ontology terms related to glycosinolate metabolism were only enriched in P. cheesemanii. Salt stress was associated with alteration of the cuticle and proline biosynthesis in A. thaliana and P. cheesemanii, respectively. Anthocyanin production may be a more important strategy to contribute to the UV-B radiation tolerance in P. cheesemanii. These results allowed us to define broad stress response pathways in A. thaliana and P. cheesemanii and suggested that regulation of glycosinolate, proline and anthocyanin metabolism are strategies that help mitigate environmental stress.
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Affiliation(s)
- Yanni Dong
- School of Natural Sciences, Massey University, Tennent Drive, Palmerston North 4474, New Zealand
| | - Saurabh Gupta
- Department Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Straße 24-25, Haus 20, 14476 Potsdam, Germany
| | - Jason J Wargent
- School of Agriculture & Environment, Massey University, Palmerston North 4442, New Zealand
| | - Joanna Putterill
- School of Biological Sciences, University of Auckland, Auckland 1142, New Zealand
| | - Richard C Macknight
- Biochemistry Department, School of Biomedical Sciences, University of Otago, Dunedin 9016, New Zealand
| | - Tsanko S Gechev
- Center of Plant Systems Biology and Biotechnology (CPSBB), 139 Ruski Blvd., 4000 Plovdiv, Bulgaria
- Department of Plant Physiology and Plant Molecular Biology, University of Plovdiv, 24 Tsar Assen Str., 4000 Plovdiv, Bulgaria
| | - Bernd Mueller-Roeber
- Department Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Straße 24-25, Haus 20, 14476 Potsdam, Germany
- Center of Plant Systems Biology and Biotechnology (CPSBB), 139 Ruski Blvd., 4000 Plovdiv, Bulgaria
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam, Germany
| | - Paul P Dijkwel
- School of Natural Sciences, Massey University, Tennent Drive, Palmerston North 4474, New Zealand
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Faisal MB, Gechev TS, Mueller-Roeber B, Dijkwel PP. Putative alternative translation start site-encoding nucleotides of CPR5 regulate growth and resistance. BMC Plant Biol 2020; 20:295. [PMID: 32600419 PMCID: PMC7322872 DOI: 10.1186/s12870-020-02485-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/07/2020] [Accepted: 06/09/2020] [Indexed: 06/11/2023]
Abstract
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.
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Affiliation(s)
- Muhammad B Faisal
- School of Fundamental Sciences, Massey University, Palmerston North, New Zealand
| | - Tsanko S Gechev
- Center of Plant Systems Biology and Biotechnology, 4000, Plovdiv, Bulgaria
| | - Bernd Mueller-Roeber
- Center of Plant Systems Biology and Biotechnology, 4000, Plovdiv, Bulgaria
- Department of Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, 14476, Potsdam, Germany
| | - Paul P Dijkwel
- School of Fundamental Sciences, Massey University, Palmerston North, New Zealand.
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Sujeeth N, Mehterov N, Gupta S, Qureshi MK, Fischer A, Proost S, Omidbakhshfard MA, Obata T, Benina M, Staykov N, Balazadeh S, Walther D, Fernie AR, Mueller-Roeber B, Hille J, Gechev TS. A novel seed plants gene regulates oxidative stress tolerance in Arabidopsis thaliana. Cell Mol Life Sci 2020; 77:705-718. [PMID: 31250033 PMCID: PMC7040063 DOI: 10.1007/s00018-019-03202-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2018] [Revised: 05/27/2019] [Accepted: 06/19/2019] [Indexed: 11/30/2022]
Abstract
Oxidative stress can lead to plant growth retardation, yield loss, and death. The atr7 mutant of Arabidopsis thaliana exhibits pronounced tolerance to oxidative stress. Using positional cloning, confirmed by knockout and RNA interference (RNAi) lines, we identified the atr7 mutation and revealed that ATR7 is a previously uncharacterized gene with orthologs in other seed plants but with no homology to genes in lower plants, fungi or animals. Expression of ATR7-GFP fusion shows that ATR7 is a nuclear-localized protein. RNA-seq analysis reveals that transcript levels of genes encoding abiotic- and oxidative stress-related transcription factors (DREB19, HSFA2, ZAT10), chromatin remodelers (CHR34), and unknown or uncharacterized proteins (AT5G59390, AT1G30170, AT1G21520) are elevated in atr7. This indicates that atr7 is primed for an upcoming oxidative stress via pathways involving genes of unknown functions. Collectively, the data reveal ATR7 as a novel seed plants-specific nuclear regulator of oxidative stress response.
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Affiliation(s)
- Neerakkal Sujeeth
- BioAtlantis Ltd, Clash Industrial Estate, Tralee, Co. Kerry, V92 RWV5, Ireland
| | - Nikolay Mehterov
- Center of Plant Systems Biology and Biotechnology, 139 Ruski Blvd, 4000, Plovdiv, Bulgaria
| | - Saurabh Gupta
- Institute of Biochemistry and Biology, University of Potsdam, Karl Liebknecht Str., 24-25, 14476, Potsdam-Golm, Germany
| | - Muhammad K Qureshi
- Department of Plant Breeding & Genetics, Faculty of Agricultural Sciences & Technology, Bahauddin Zakariya University, Bosan Road, Multan, 60800, Punjab, Pakistan
| | - Axel Fischer
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Sebastian Proost
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - M Amin Omidbakhshfard
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Toshihiro Obata
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Maria Benina
- Center of Plant Systems Biology and Biotechnology, 139 Ruski Blvd, 4000, Plovdiv, Bulgaria
| | - Nikola Staykov
- Center of Plant Systems Biology and Biotechnology, 139 Ruski Blvd, 4000, Plovdiv, Bulgaria
| | - Salma Balazadeh
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Dirk Walther
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Alisdair R Fernie
- Center of Plant Systems Biology and Biotechnology, 139 Ruski Blvd, 4000, Plovdiv, Bulgaria
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Bernd Mueller-Roeber
- Center of Plant Systems Biology and Biotechnology, 139 Ruski Blvd, 4000, Plovdiv, Bulgaria
- Institute of Biochemistry and Biology, University of Potsdam, Karl Liebknecht Str., 24-25, 14476, Potsdam-Golm, Germany
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Potsdam-Golm, Germany
| | - Jacques Hille
- Department of Molecular Pharmacology, University of Groningen, Antonius Deusinglaan 1, 9713 AV, Groningen, The Netherlands
| | - Tsanko S Gechev
- Center of Plant Systems Biology and Biotechnology, 139 Ruski Blvd, 4000, Plovdiv, Bulgaria.
- Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen Str, 4000, Plovdiv, Bulgaria.
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Omidbakhshfard MA, Sujeeth N, Gupta S, Omranian N, Guinan KJ, Brotman Y, Nikoloski Z, Fernie AR, Mueller-Roeber B, Gechev TS. A Biostimulant Obtained from the Seaweed Ascophyllum nodosum Protects Arabidopsis thaliana from Severe Oxidative Stress. Int J Mol Sci 2020; 21:E474. [PMID: 31940839 PMCID: PMC7013732 DOI: 10.3390/ijms21020474] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Revised: 12/26/2019] [Accepted: 01/09/2020] [Indexed: 11/16/2022] Open
Abstract
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.
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Affiliation(s)
- Mohammad Amin Omidbakhshfard
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany; (M.A.O.); (S.G.); (N.O.); (Y.B.); (A.R.F.); (B.M.-R.)
| | - Neerakkal Sujeeth
- BioAtlantis Ltd., Clash Industrial Estate, Tralee, V92 RWV5 Co. Kerry, Ireland;
| | - Saurabh Gupta
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany; (M.A.O.); (S.G.); (N.O.); (Y.B.); (A.R.F.); (B.M.-R.)
- Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, Karl Liebknecht Str. 24-25, 14476 Potsdam-Golm, Germany
| | - Nooshin Omranian
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany; (M.A.O.); (S.G.); (N.O.); (Y.B.); (A.R.F.); (B.M.-R.)
- Bioinformatics, Institute of Biochemistry and Biology, University of Potsdam, Karl Liebknecht Str. 24-25, 14476 Potsdam-Golm, Germany;
| | - Kieran J. Guinan
- BioAtlantis Ltd., Clash Industrial Estate, Tralee, V92 RWV5 Co. Kerry, Ireland;
| | - Yariv Brotman
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany; (M.A.O.); (S.G.); (N.O.); (Y.B.); (A.R.F.); (B.M.-R.)
| | - Zoran Nikoloski
- Bioinformatics, Institute of Biochemistry and Biology, University of Potsdam, Karl Liebknecht Str. 24-25, 14476 Potsdam-Golm, Germany;
- Department of Molecular Stress Physiology, Center of Plant Systems Biology and Biotechnology, 139 Ruski blvd., 4000 Plovdiv, Bulgaria;
| | - Alisdair R. Fernie
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany; (M.A.O.); (S.G.); (N.O.); (Y.B.); (A.R.F.); (B.M.-R.)
- Department of Molecular Stress Physiology, Center of Plant Systems Biology and Biotechnology, 139 Ruski blvd., 4000 Plovdiv, Bulgaria;
| | - Bernd Mueller-Roeber
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany; (M.A.O.); (S.G.); (N.O.); (Y.B.); (A.R.F.); (B.M.-R.)
- Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, Karl Liebknecht Str. 24-25, 14476 Potsdam-Golm, Germany
- Department of Molecular Stress Physiology, Center of Plant Systems Biology and Biotechnology, 139 Ruski blvd., 4000 Plovdiv, Bulgaria;
| | - Tsanko S. Gechev
- Department of Molecular Stress Physiology, Center of Plant Systems Biology and Biotechnology, 139 Ruski blvd., 4000 Plovdiv, Bulgaria;
- Department of Plant Physiology and Molecular Biology, University of Plovdiv, 24 Tsar Assen Str., 4000 Plovdiv, Bulgaria
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5
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Durgud M, Gupta S, Ivanov I, Omidbakhshfard MA, Benina M, Alseekh S, Staykov N, Hauenstein M, Dijkwel PP, Hörtensteiner S, Toneva V, Brotman Y, Fernie AR, Mueller-Roeber B, Gechev TS. Molecular Mechanisms Preventing Senescence in Response to Prolonged Darkness in a Desiccation-Tolerant Plant. Plant Physiol 2018; 177:1319-1338. [PMID: 29789435 PMCID: PMC6053018 DOI: 10.1104/pp.18.00055] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2018] [Accepted: 05/09/2018] [Indexed: 05/28/2023]
Abstract
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.
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Affiliation(s)
- Meriem Durgud
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Institute of Molecular Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Department of Plant Physiology and Molecular Biology, University of Plovdiv, Plovdiv 4000, Bulgaria
| | - Saurabh Gupta
- Department Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, 14476 Potsdam, Germany
| | - Ivan Ivanov
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Institute of Molecular Biology and Biotechnology, Plovdiv 4000, Bulgaria
| | - M Amin Omidbakhshfard
- Department Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, 14476 Potsdam, Germany
- Department Willmitzer, Max Planck Institute of Molecular Plant Physiology, 14476 Potsdam, Germany
| | - Maria Benina
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
| | - Saleh Alseekh
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Department Willmitzer, Max Planck Institute of Molecular Plant Physiology, 14476 Potsdam, Germany
| | - Nikola Staykov
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Institute of Molecular Biology and Biotechnology, Plovdiv 4000, Bulgaria
| | - Mareike Hauenstein
- Department of Plant and Microbial Biology, University of Zurich, CH-8008 Zurich, Switzerland
| | - Paul P Dijkwel
- Institute of Fundamental Sciences, Massey University, 4474 Palmerston North, New Zealand
| | - Stefan Hörtensteiner
- Department of Plant and Microbial Biology, University of Zurich, CH-8008 Zurich, Switzerland
| | - Valentina Toneva
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Institute of Molecular Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Department of Plant Physiology and Molecular Biology, University of Plovdiv, Plovdiv 4000, Bulgaria
| | - Yariv Brotman
- Department of Life Sciences, Ben Gurion University of the Negev, Beersheva, Israel
| | - Alisdair R Fernie
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Department Willmitzer, Max Planck Institute of Molecular Plant Physiology, 14476 Potsdam, Germany
| | - Bernd Mueller-Roeber
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Department Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, 14476 Potsdam, Germany
| | - Tsanko S Gechev
- Center of Plant Systems Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Institute of Molecular Biology and Biotechnology, Plovdiv 4000, Bulgaria
- Department of Plant Physiology and Molecular Biology, University of Plovdiv, Plovdiv 4000, Bulgaria
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6
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Petrov V, Hille J, Mueller-Roeber B, Gechev TS. ROS-mediated abiotic stress-induced programmed cell death in plants. Front Plant Sci 2015; 6:69. [PMID: 25741354 PMCID: PMC4332301 DOI: 10.3389/fpls.2015.00069] [Citation(s) in RCA: 353] [Impact Index Per Article: 39.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2014] [Accepted: 01/26/2015] [Indexed: 05/18/2023]
Abstract
During the course of their ontogenesis plants are continuously exposed to a large variety of abiotic stress factors which can damage tissues and jeopardize the survival of the organism unless properly countered. While animals can simply escape and thus evade stressors, plants as sessile organisms have developed complex strategies to withstand them. When the intensity of a detrimental factor is high, one of the defense programs employed by plants is the induction of programmed cell death (PCD). This is an active, genetically controlled process which is initiated to isolate and remove damaged tissues thereby ensuring the survival of the organism. The mechanism of PCD induction usually includes an increase in the levels of reactive oxygen species (ROS) which are utilized as mediators of the stress signal. Abiotic stress-induced PCD is not only a process of fundamental biological importance, but also of considerable interest to agricultural practice as it has the potential to significantly influence crop yield. Therefore, numerous scientific enterprises have focused on elucidating the mechanisms leading to and controlling PCD in response to adverse conditions in plants. This knowledge may help develop novel strategies to obtain more resilient crop varieties with improved tolerance and enhanced productivity. The aim of the present review is to summarize the recent advances in research on ROS-induced PCD related to abiotic stress and the role of the organelles in the process.
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Affiliation(s)
- Veselin Petrov
- Institute of Molecular Biology and Biotechnology, PlovdivBulgaria
| | - Jacques Hille
- Department of Pharmacy, Faculty of Mathematics and Natural Sciences, University of Groningen, GroningenNetherlands
| | - Bernd Mueller-Roeber
- Department of Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, Potsdam-GolmGermany
| | - Tsanko S. Gechev
- Institute of Molecular Biology and Biotechnology, PlovdivBulgaria
- Department of Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, Potsdam-GolmGermany
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Benina M, Ribeiro DM, Gechev TS, Mueller-Roeber B, Schippers JHM. A cell type-specific view on the translation of mRNAs from ROS-responsive genes upon paraquat treatment of Arabidopsis thaliana leaves. Plant Cell Environ 2015; 38:349-63. [PMID: 24738758 DOI: 10.1111/pce.12355] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2013] [Revised: 03/21/2014] [Accepted: 03/24/2014] [Indexed: 05/10/2023]
Abstract
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.
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Affiliation(s)
- Maria Benina
- Department of Plant Physiology and Molecular Biology, University of Plovdiv, 4000, Plovdiv, Bulgaria; Institute of Molecular Biology and Biotechnology, 4000, Plovdiv, Bulgaria
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Gechev TS, Hille J, Woerdenbag HJ, Benina M, Mehterov N, Toneva V, Fernie AR, Mueller-Roeber B. Natural products from resurrection plants: Potential for medical applications. Biotechnol Adv 2014; 32:1091-101. [DOI: 10.1016/j.biotechadv.2014.03.005] [Citation(s) in RCA: 63] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2013] [Revised: 03/10/2014] [Accepted: 03/11/2014] [Indexed: 01/25/2023]
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9
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Benina M, Obata T, Mehterov N, Ivanov I, Petrov V, Toneva V, Fernie AR, Gechev TS. Comparative metabolic profiling of Haberlea rhodopensis, Thellungiella halophyla, and Arabidopsis thaliana exposed to low temperature. Front Plant Sci 2013; 4:499. [PMID: 24376451 PMCID: PMC3859123 DOI: 10.3389/fpls.2013.00499] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2013] [Accepted: 11/19/2013] [Indexed: 05/05/2023]
Abstract
Haberlea rhodopensis is a resurrection species with extreme resistance to drought stress and desiccation but also with ability to withstand low temperatures and freezing stress. In order to identify biochemical strategies which contribute to Haberlea's remarkable stress tolerance, the metabolic reconfiguration of H. rhodopensis during low temperature (4°C) and subsequent return to optimal temperatures (21°C) was investigated and compared with that of the stress tolerant Thellungiella halophyla and the stress sensitive Arabidopsis thaliana. Metabolic analysis by GC-MS revealed intrinsic differences in the metabolite levels of the three species even at 21°C. H. rhodopensis had significantly more raffinose, melibiose, trehalose, rhamnose, myo-inositol, sorbitol, galactinol, erythronate, threonate, 2-oxoglutarate, citrate, and glycerol than the other two species. A. thaliana had the highest levels of putrescine and fumarate, while T. halophila had much higher levels of several amino acids, including alanine, asparagine, beta-alanine, histidine, isoleucine, phenylalanine, serine, threonine, and valine. In addition, the three species responded differently to the low temperature treatment and the subsequent recovery, especially with regard to the sugar metabolism. Chilling induced accumulation of maltose in H. rhodopensis and raffinose in A. thaliana but the raffinose levels in low temperature exposed Arabidopsis were still much lower than these in unstressed Haberlea. While all species accumulated sucrose during chilling, that accumulation was transient in H. rhodopensis and A. thaliana but sustained in T. halophila after the return to optimal temperature. Thus, Haberlea's metabolome appeared primed for chilling stress but the low temperature acclimation induced additional stress-protective mechanisms. A diverse array of sugars, organic acids, and polyols constitute Haberlea's main metabolic defence mechanisms against chilling, while accumulation of amino acids and amino acid derivatives contribute to the low temperature acclimation in Arabidopsis and Thellungiella. Collectively, these results show inherent differences in the metabolomes under the ambient temperature and the strategies to respond to low temperature in the three species.
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Affiliation(s)
- Maria Benina
- Department of Plant Physiology and Plant Molecular Biology, University of PlovdivPlovdiv, Bulgaria
- Institute of Molecular Biology and BiotechnologyPlovdiv, Bulgaria
| | - Toshihiro Obata
- Department Willmitzer, Max Planck Institute of Molecular Plant PhysiologyPotsdam-Golm, Germany
| | - Nikolay Mehterov
- Department of Plant Physiology and Plant Molecular Biology, University of PlovdivPlovdiv, Bulgaria
- Institute of Molecular Biology and BiotechnologyPlovdiv, Bulgaria
| | - Ivan Ivanov
- Department of Plant Physiology and Plant Molecular Biology, University of PlovdivPlovdiv, Bulgaria
| | - Veselin Petrov
- Department of Plant Physiology and Plant Molecular Biology, University of PlovdivPlovdiv, Bulgaria
- Institute of Molecular Biology and BiotechnologyPlovdiv, Bulgaria
| | - Valentina Toneva
- Department of Plant Physiology and Plant Molecular Biology, University of PlovdivPlovdiv, Bulgaria
- Institute of Molecular Biology and BiotechnologyPlovdiv, Bulgaria
- *Correspondence: Valentina Toneva, Department of Plant Physiology and Plant Molecular Biology, University of Plovdiv, 24 Tsar Assen str., Plovdiv 4000, Bulgaria e-mail:
| | - Alisdair R. Fernie
- Department Willmitzer, Max Planck Institute of Molecular Plant PhysiologyPotsdam-Golm, Germany
| | - Tsanko S. Gechev
- Department of Plant Physiology and Plant Molecular Biology, University of PlovdivPlovdiv, Bulgaria
- Institute of Molecular Biology and BiotechnologyPlovdiv, Bulgaria
- Department of Molecular Biology, Institute of Biochemistry and Biology, University of PotsdamPotsdam, Germany
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10
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Affiliation(s)
- Tsanko S Gechev
- Department of Plant Physiology and Plant Molecular Biology, University of Plovdiv, Bulgaria.
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Petrov V, Vermeirssen V, De Clercq I, Van Breusegem F, Minkov I, Vandepoele K, Gechev TS. Identification of cis-regulatory elements specific for different types of reactive oxygen species in Arabidopsis thaliana. Gene 2012; 499:52-60. [DOI: 10.1016/j.gene.2012.02.035] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2011] [Revised: 02/09/2012] [Accepted: 02/19/2012] [Indexed: 10/28/2022]
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12
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Gadjev I, Stone JM, Gechev TS. Programmed cell death in plants: new insights into redox regulation and the role of hydrogen peroxide. Int Rev Cell Mol Biol 2008; 270:87-144. [PMID: 19081535 DOI: 10.1016/s1937-6448(08)01403-2] [Citation(s) in RCA: 206] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Programmed cell death (PCD), the highly regulated dismantling of cells, is essential for plant growth and survival. PCD plays key roles in embryo development, formation and maturation of many cell types and tissues, and plant reaction/adaptation to environmental conditions. Reactive oxygen species (ROS) are not only toxic by products of aerobic metabolism with strictly controlled cellular levels, but they also function as signaling agents regulating many biological processes and producing pleiotropic effects. Over the last decade, ROS have become recognized as important modulators of plant PCD. Molecular genetic approaches using plant mutants and transcriptome studies related to ROS-mediated PCD have revealed a wide array of plant-specific cell death regulators and have contributed to unraveling the elaborate redox signaling network. This review summarizes the biological processes, in which plant PCD participates and discusses the signaling functions of ROS with emphasis on hydrogen peroxide.
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Affiliation(s)
- Ilya Gadjev
- Department of Plant Physiology and Plant Molecular Biology, University of Plovdiv, Plovdiv 4000, Bulgaria
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Janknegt PJ, Rijstenbil JW, van de Poll WH, Gechev TS, Buma AGJ. A comparison of quantitative and qualitative superoxide dismutase assays for application to low temperature microalgae. Journal of Photochemistry and Photobiology B: Biology 2007; 87:218-26. [PMID: 17553689 DOI: 10.1016/j.jphotobiol.2007.04.002] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2006] [Revised: 03/28/2007] [Accepted: 04/02/2007] [Indexed: 10/23/2022]
Abstract
Antioxidant enzymes such as superoxide dismutase (SOD) play a key role in the removal of reactive oxygen species produced during visible and ultraviolet irradiance stress in microalgae and plants. However, little is known about the enzymatic antioxidative stress responses in ecologically important Antarctic marine microalgae. SOD in particular is difficult to analyze, possibly due to problems in obtaining sufficient quantities necessary for reliable and reproducible enzymatic assays. The aim of the present work was to create a sensitive, easy-to-use and reliable method for SOD determination in Antarctic microalgal material by comparing and optimizing existing protein extraction procedures and SOD assays in the marine Antarctic diatom Chaetoceros brevis. Optimization was achieved in cell disruption (sonication) and protein extraction procedures, extraction buffers, SOD assay methods (xanthine/xanthine oxidase and NBT/riboflavin photometric quantitative methods and native gel electrophoresis qualitative method) and the assay temperature. Protein extraction was optimal at low sonication amplitudes after a few pulses, irrespective of the type of buffer used. Extraction efficiency varied highly between the tested buffers; most protein was extracted in the presence of 1% of Triton X-100. SOD activity was best quantified using the NBT/riboflavin method in combination with a buffer containing potassium phosphate and Triton X-100. Moreover, the NBT/riboflavin method was demonstrated to be the most reliable and sensitive method at low temperatures (5 degrees C).
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Affiliation(s)
- Paul J Janknegt
- Department of Ocean Ecosystems, Centre for Ecological and Evolutionary Studies, University of Groningen, Kerklaan 30, 9750 AA Haren, The Netherlands.
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Gechev TS, Van Breusegem F, Stone JM, Denev I, Laloi C. Reactive oxygen species as signals that modulate plant stress responses and programmed cell death. Bioessays 2006; 28:1091-101. [PMID: 17041898 DOI: 10.1002/bies.20493] [Citation(s) in RCA: 556] [Impact Index Per Article: 30.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Reactive oxygen species (ROS) are known as toxic metabolic products in plants and other aerobic organisms. An elaborate and highly redundant plant ROS network, composed of antioxidant enzymes, antioxidants and ROS-producing enzymes, is responsible for maintaining ROS levels under tight control. This allows ROS to serve as signaling molecules that coordinate an astonishing range of diverse plant processes. The specificity of the biological response to ROS depends on the chemical identity of ROS, intensity of the signal, sites of production, plant developmental stage, previous stresses encountered and interactions with other signaling molecules such as nitric oxide, lipid messengers and plant hormones. Although many components of the ROS signaling network have recently been identified, the challenge remains to understand how ROS-derived signals are integrated to eventually regulate such biological processes as plant growth, development, stress adaptation and programmed cell death.
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Gadjev I, Vanderauwera S, Gechev TS, Laloi C, Minkov IN, Shulaev V, Apel K, Inzé D, Mittler R, Van Breusegem F. Transcriptomic footprints disclose specificity of reactive oxygen species signaling in Arabidopsis. Plant Physiol 2006; 141:436-45. [PMID: 16603662 PMCID: PMC1475436 DOI: 10.1104/pp.106.078717] [Citation(s) in RCA: 223] [Impact Index Per Article: 12.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Reactive oxygen species (ROS) are key players in the regulation of plant development, stress responses, and programmed cell death. Previous studies indicated that depending on the type of ROS (hydrogen peroxide, superoxide, or singlet oxygen) or its subcellular production site (plastidic, cytosolic, peroxisomal, or apoplastic), a different physiological, biochemical, and molecular response is provoked. We used transcriptome data generated from ROS-related microarray experiments to assess the specificity of ROS-driven transcript expression. Data sets obtained by exogenous application of oxidative stress-causing agents (methyl viologen, Alternaria alternata toxin, 3-aminotriazole, and ozone) and from a mutant (fluorescent) and transgenic plants, in which the activity of an individual antioxidant enzyme was perturbed (catalase, cytosolic ascorbate peroxidase, and copper/zinc superoxide dismutase), were compared. In total, the abundance of nearly 26,000 transcripts of Arabidopsis (Arabidopsis thaliana) was monitored in response to different ROS. Overall, 8,056, 5,312, and 3,925 transcripts showed at least a 3-, 4-, or 5-fold change in expression, respectively. In addition to marker transcripts that were specifically regulated by hydrogen peroxide, superoxide, or singlet oxygen, several transcripts were identified as general oxidative stress response markers because their steady-state levels were at least 5-fold elevated in most experiments. We also assessed the expression characteristics of all annotated transcription factors and inferred new candidate regulatory transcripts that could be responsible for orchestrating the specific transcriptomic signatures triggered by different ROS. Our analysis provides a framework that will assist future efforts to address the impact of ROS signals within environmental stress conditions and elucidate the molecular mechanisms of the oxidative stress response in plants.
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Affiliation(s)
- Ilya Gadjev
- Department of Plant Systems Biology, Flanders Interuniversity Institute for Biotechnology, Ghent University, B-9052 Gent, Belgium
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Gechev TS, Minkov IN, Hille J. Hydrogen peroxide-induced cell death in Arabidopsis: transcriptional and mutant analysis reveals a role of an oxoglutarate-dependent dioxygenase gene in the cell death process. IUBMB Life 2005; 57:181-8. [PMID: 16036580 DOI: 10.1080/15216540500090793] [Citation(s) in RCA: 80] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
Hydrogen peroxide is a major regulator of plant programmed cell death (PCD) but little is known about the downstream genes from the H(2)O(2)-signaling network that mediate the cell death. To address this question, a novel system for studying H(2)O(2)-induced programmed cell death in Arabidopsis thaliana was used. The catalase inhibitor aminotriazole (AT) reduced the catalase activity and caused endogenous accumulation of hydrogen peroxide that eventually triggered cell death. Microarray analysis with a DNA chip representing 21500 genes and subsequent comparison with other PCD-related expression studies revealed a set of new H(2)O(2)-responsive genes that were highly regulated in a common fashion during different types of PCD. These included an oxoglutarate-dependent dioxygenase and various oxidoreductases, the transcription factors Zat11, WRKY75 and NAM, proteasomal components, a heterologous group of genes with diverse functions, and genes encoding proteins with unknown functions. Knockout lines of the oxoglutarate-dependent dioxygenase exhibited significantly reduced death symptoms and chlorophyll loss upon H(2)O(2)-induced cell death, indicating a role for this gene in the cell death network.
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Affiliation(s)
- Tsanko S Gechev
- Department of Plant Physiology and Plant Molecular Biology, University of Plovdiv, Plovdiv, Bulgaria.
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Abstract
Hydrogen peroxide (H2O2) has established itself as a key player in stress and programmed cell death responses, but little is known about the signaling pathways leading from H2O2 to programmed cell death in plants. Recently, identification of key regulatory mutants and near-full genome coverage microarray analysis of H2O2-induced cell death have begun to unravel the complexity of the H2O2 network. This review also describes a novel link between H2O2 and sphingolipids, two signals that can interplay and regulate plant cell death.
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Affiliation(s)
- Tsanko S Gechev
- Department Molecular Biology of Plants, Researchschool GBB, University of Groningen, 9751 NN, Haren, Netherlands.
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Gechev TS, Gadjev IZ, Hille J. An extensive microarray analysis of AAL-toxin-induced cell death in Arabidopsis thaliana brings new insights into the complexity of programmed cell death in plants. Cell Mol Life Sci 2004; 61:1185-97. [PMID: 15141304 DOI: 10.1007/s00018-004-4067-2] [Citation(s) in RCA: 98] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
A T-DNA knockout of the Arabidopsis homologue of the tomato disease resistance gene Asc was obtained. The asc gene renders plants sensitive to programmed cell death (PCD) triggered by the fungal AAL toxin. To obtain more insights into the nature of AAL-toxin-induced cell death and to identify genes of potential importance for PCD, we carried out transcription profiling of AAL-toxin-induced cell death in this knockout with an oligonucleotide array representing 21,500 Arabidopsis genes. Genes responsive to reactive oxygen species (ROS) and ethylene were among the earliest to be upregulated, suggesting that an oxidative burst and production of ethylene played a role in the activation of the cell death. This notion was corroborated by induction of several genes encoding ROS-generating proteins, including a respiratory burst oxidase and germin oxalate oxidase. Cytochemical studies confirmed the oxidative burst and, in addition, showed synthesis of callose, a feature of the hypersensitive response. A diverse group of transcription factors was also induced. These events were followed by repression of most of the auxin-regulated genes known to be involved in growth and developmental responses. All photosynthesis-related genes were repressed. Blocking the synthesis of ethylene or NO significantly compromised cell death. In addition, we identified a heterogeneous group of early-induced genes, some of them never before associated with PCD. The group of early-induced genes included a number of proteases that were previously implicated in developmentally regulated types of PCD, suggesting a more principal role for these proteases in the PCD process. These findings provide new insights into the molecular mechanisms of plant PCD.
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Affiliation(s)
- T S Gechev
- Department Molecular Biology of Plants, Researchschool GBB, University of Groningen, Kerklaan 30, 9751 NN, Haren, The Netherlands.
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