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Das A, Rushton PJ, Rohila JS. Metabolomic Profiling of Soybeans (Glycine max L.) Reveals the Importance of Sugar and Nitrogen Metabolism under Drought and Heat Stress. PLANTS (BASEL, SWITZERLAND) 2017; 6:E21. [PMID: 28587097 PMCID: PMC5489793 DOI: 10.3390/plants6020021] [Citation(s) in RCA: 88] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/20/2017] [Revised: 05/15/2017] [Accepted: 05/22/2017] [Indexed: 02/01/2023]
Abstract
Soybean is an important crop that is continually threatened by abiotic stresses, especially drought and heat stress. At molecular levels, reduced yields due to drought and heat stress can be seen as a result of alterations in metabolic homeostasis of vegetative tissues. At present an incomplete understanding of abiotic stress-associated metabolism and identification of associated metabolites remains a major gap in soybean stress research. A study with a goal to profile leaf metabolites under control conditions (28/24 °C), drought [28/24 °C, 10% volumetric water content (VWC)], and heat stress (43/35 °C) was conducted in a controlled environment. Analyses of non-targeted metabolomic data showed that in response to drought and heat stress, key metabolites (carbohydrates, amino acids, lipids, cofactors, nucleotides, peptides and secondary metabolites) were differentially accumulated in soybean leaves. The metabolites for various cellular processes, such as glycolysis, the tricarboxylic acid (TCA) cycle, the pentose phosphate pathway, and starch biosynthesis, that regulate carbohydrate metabolism, amino acid metabolism, peptide metabolism, and purine and pyrimidine biosynthesis, were found to be affected by drought as well as heat stress. Computationally based regulatory networks predicted additional compounds that address the possibility of other metabolites and metabolic pathways that could also be important for soybean under drought and heat stress conditions. Metabolomic profiling demonstrated that in soybeans, keeping up with sugar and nitrogen metabolism is of prime significance, along with phytochemical metabolism under drought and heat stress conditions.
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Affiliation(s)
- Aayudh Das
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD 57007, USA.
- Department of Plant Biology, University of Vermont, Burlington, VT 05405, USA.
| | - Paul J Rushton
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD 57007, USA.
- 22nd Century Group Inc., Clarence, NY 14031, USA.
| | - Jai S Rohila
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD 57007, USA.
- Dale Bumpers National Rice Research Center, USDA-ARS, Stuttgart, AR 72160, USA.
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152
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Tarancón C, González-Grandío E, Oliveros JC, Nicolas M, Cubas P. A Conserved Carbon Starvation Response Underlies Bud Dormancy in Woody and Herbaceous Species. FRONTIERS IN PLANT SCIENCE 2017; 8:788. [PMID: 28588590 PMCID: PMC5440562 DOI: 10.3389/fpls.2017.00788] [Citation(s) in RCA: 60] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2017] [Accepted: 04/27/2017] [Indexed: 05/18/2023]
Abstract
Plant shoot systems give rise to characteristic above-ground plant architectures. Shoots are formed from axillary meristems and buds, whose growth and development is modulated by systemic and local signals. These cues convey information about nutrient and water availability, light quality, sink/source organ activity and other variables that determine the timeliness and competence to maintain development of new shoots. This information is translated into a local response, in meristems and buds, of growth or quiescence. Although some key genes involved in the onset of bud latency have been identified, the gene regulatory networks (GRNs) controlled by these genes are not well defined. Moreover, it has not been determined whether bud dormancy induced by environmental cues, such as a low red-to-far-red light ratio, shares genetic mechanisms with bud latency induced by other causes, such as apical dominance or a short-day photoperiod. Furthermore, the evolution and conservation of these GRNs throughout angiosperms is not well established. We have reanalyzed public transcriptomic datasets that compare quiescent and active axillary buds of Arabidopsis, with datasets of axillary buds of the woody species Vitis vinifera (grapevine) and apical buds of Populus tremula x Populus alba (poplar) during the bud growth-to-dormancy transition. Our aim was to identify potentially common GRNs induced during the process that leads to bud para-, eco- and endodormancy. In Arabidopsis buds that are entering eco- or paradormancy, we have identified four induced interrelated GRNs that correspond to a carbon (C) starvation syndrome, typical of tissues undergoing low C supply. This response is also detectable in poplar and grapevine buds before and during the transition to dormancy. In all eukaryotes, C-limiting conditions are coupled to growth arrest and latency like that observed in dormant axillary buds. Bud dormancy might thus be partly a consequence of the underlying C starvation syndrome triggered by environmental and endogenous cues that anticipate or signal conditions unfavorable for sustained shoot growth.
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Affiliation(s)
- Carlos Tarancón
- Plant Molecular Genetics Department, Centro Nacional de Biotecnología (Consejo Superior de Investigaciones Científicas), Campus Universidad Autónoma de MadridMadrid, Spain
| | - Eduardo González-Grandío
- Plant Molecular Genetics Department, Centro Nacional de Biotecnología (Consejo Superior de Investigaciones Científicas), Campus Universidad Autónoma de MadridMadrid, Spain
| | - Juan C. Oliveros
- Bioinformatics for Genomics and Proteomics Unit, Centro Nacional de Biotecnología (Consejo Superior de Investigaciones Científicas), Campus Universidad Autónoma de MadridMadrid, Spain
| | - Michael Nicolas
- Plant Molecular Genetics Department, Centro Nacional de Biotecnología (Consejo Superior de Investigaciones Científicas), Campus Universidad Autónoma de MadridMadrid, Spain
| | - Pilar Cubas
- Plant Molecular Genetics Department, Centro Nacional de Biotecnología (Consejo Superior de Investigaciones Científicas), Campus Universidad Autónoma de MadridMadrid, Spain
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153
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Liu XJ, An XH, Liu X, Hu DG, Wang XF, You CX, Hao YJ. MdSnRK1.1 interacts with MdJAZ18 to regulate sucrose-induced anthocyanin and proanthocyanidin accumulation in apple. JOURNAL OF EXPERIMENTAL BOTANY 2017; 68:2977-2990. [PMID: 28549152 PMCID: PMC5853841 DOI: 10.1093/jxb/erx150] [Citation(s) in RCA: 79] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2016] [Accepted: 04/09/2017] [Indexed: 05/19/2023]
Abstract
Sugars induce anthocyanin biosynthesis in plants. As a conserved energy sensor, SnRK1 (SNF1-related kinase 1) is involved in sucrose-induced anthocyanin accumulation. However, the exact molecular mechanism by which SnRK1 regulates the biosynthesis of anthocyanins and proanthocyanidins (PAs) in response to sucrose in plants is not clear. In this study, it was found that MdSnRK1.1 interacted with MdJAZ18 protein which acts as a repressor in the jasmonate (JA) signaling pathway. MdSnRK1.1 then phosphorylated MdJAZ18 to facilitate its 26S proteasome-mediated degradation, which released MdbHLH3 thereby activating the expression of the regulatory and structural genes, thus finally promoting the biosynthesis of anthocyanins and PAs. Taken together, these results demonstrate the involvement of MdSnRK1.1 in sucrose-induced accumulation of anthocyanins and PAs. For the first time, our findings shed light on the molecular mechanism by which the crosstalk of sucrose and JA signaling regulates flavonoid biosynthesis.
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Affiliation(s)
- Xiao-Juan Liu
- State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, China
| | - Xiu-Hong An
- State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, China
- Research Institute of Pomology, CAAS, Xingcheng, China
| | - Xin Liu
- State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, China
| | - Da-Gang Hu
- State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, China
| | - Xiao-Fei Wang
- State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, China
| | - Chun-Xiang You
- State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, China
| | - Yu-Jin Hao
- State Key Laboratory of Crop Biology, National Research Center for Apple Engineering and Technology, College of Horticulture Science and Engineering, Shandong Agricultural University, Tai-An, Shandong, China
- Correspondence:
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154
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Kabbage M, Kessens R, Bartholomay LC, Williams B. The Life and Death of a Plant Cell. ANNUAL REVIEW OF PLANT BIOLOGY 2017; 68:375-404. [PMID: 28125285 DOI: 10.1146/annurev-arplant-043015-111655] [Citation(s) in RCA: 95] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Like all eukaryotic organisms, plants possess an innate program for controlled cellular demise termed programmed cell death (PCD). Despite the functional conservation of PCD across broad evolutionary distances, an understanding of the molecular machinery underpinning this fundamental program in plants remains largely elusive. As in mammalian PCD, the regulation of plant PCD is critical to development, homeostasis, and proper responses to stress. Evidence is emerging that autophagy is key to the regulation of PCD in plants and that it can dictate the outcomes of PCD execution under various scenarios. Here, we provide a broad and comparative overview of PCD processes in plants, with an emphasis on stress-induced PCD. We also discuss the implications of the paradox that is functional conservation of apoptotic hallmarks in plants in the absence of core mammalian apoptosis regulators, what that means, and whether an equivalent form of death occurs in plants.
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Affiliation(s)
- Mehdi Kabbage
- Department of Plant Pathology, University of Wisconsin-Madison, Madison, Wisconsin 53706;
| | - Ryan Kessens
- Department of Plant Pathology, University of Wisconsin-Madison, Madison, Wisconsin 53706;
| | - Lyric C Bartholomay
- Department of Pathobiological Sciences, University of Wisconsin-Madison, Madison, Wisconsin 53706
| | - Brett Williams
- Centre for Tropical Crops and Biocommodities, Queensland University of Technology, Brisbane, Queensland 4001, Australia;
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155
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Zhai Z, Liu H, Shanklin J. Phosphorylation of WRINKLED1 by KIN10 Results in Its Proteasomal Degradation, Providing a Link between Energy Homeostasis and Lipid Biosynthesis. THE PLANT CELL 2017; 29:871-889. [PMID: 28314829 PMCID: PMC5435435 DOI: 10.1105/tpc.17.00019] [Citation(s) in RCA: 45] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2017] [Revised: 02/26/2017] [Accepted: 03/16/2017] [Indexed: 05/18/2023]
Abstract
WRINKLED1 (WRI1), a member of the APETALA2 (AP2) class of transcription factors, positively regulates glycolysis and lipid biosynthesis in Arabidopsis thaliana Here, we identify mechanistic links between KIN10, the major SUCROSE NON-FERMENTATION1-RELATED KINASE1 involved in sugar/energy homeostasis, and the posttranslational regulation of WRI1. Transient expression of WRI1 with OLEOSIN1 in Nicotiana benthamiana stimulates triacylglycerol accumulation, but their coexpression with KIN10 abrogates this effect by inducing proteasomal degradation of WRI1. While WRI1 lacks canonical KIN10 target sequences, we demonstrated direct KIN10-dependent phosphorylation of WRI1 using purified Escherichia coli-expressed components. The resulting phosphorylated WRI1 was more rapidly degraded than native WRI1 in cell-free degradation assays. WRI1 phosphorylation was localized to two variants of the canonical KIN10 recognition sequence, one in each of its two AP2 DNA binding domains. Conversion of the phosphorylation sites at Thr-70 and Ser-166 to Ala resulted in a loss of KIN10-dependent phosphorylation, and when coexpressed with KIN10 the WRI1 double mutant accumulated to 2- to 3-fold higher levels than native WRI1. KIN10-dependent degradation of WRI1 provides a homeostatic mechanism that favors lipid biosynthesis when intracellular sugar levels are elevated and KIN10 is inhibited; conversely, glycolysis and lipid biosynthesis are curtailed as sugar levels decrease and KIN10 regains activity.
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Affiliation(s)
- Zhiyang Zhai
- Biology Department, Brookhaven National Laboratory, Upton, New York 11973
| | - Hui Liu
- Biology Department, Brookhaven National Laboratory, Upton, New York 11973
| | - John Shanklin
- Biology Department, Brookhaven National Laboratory, Upton, New York 11973
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156
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Guo P, Qi YP, Yang LT, Lai NW, Ye X, Yang Y, Chen LS. Root Adaptive Responses to Aluminum-Treatment Revealed by RNA-Seq in Two Citrus Species With Different Aluminum-Tolerance. FRONTIERS IN PLANT SCIENCE 2017; 8:330. [PMID: 28337215 PMCID: PMC5340773 DOI: 10.3389/fpls.2017.00330] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Accepted: 02/24/2017] [Indexed: 05/02/2023]
Abstract
Seedlings of aluminum (Al)-tolerant Citrus sinensis and Al-intolerant Citrus grandis were fertigated daily with nutrient solution containing 0 and 1.0 mM AlCl3●6H2O for 18 weeks. The Al-induced decreases of biomass and root total soluble proteins only occurred in C. grandis, demonstrating that C. sinensis had higher Al-tolerance than C. grandis. Under Al-treatment, C. sinensis roots secreted more citrate and malate than C. grandis ones; less Al was accumulated in C. sinenis than in C. grandis leaves. The Al-induced reduction of phosphorus was lesser in C. sinensis roots and leaves than in C. grandis ones, whereas the Al-induced increase of sulfur was greater in C. sinensis roots and leaves. Using RNA-seq, we isolated 1905 and 2670 differentially expressed genes (DEGs) from Al-treated C. sinensis than C. grandis roots, respectively. Among these DEGs, only 649 DEGs were shared by the two species. Further analysis suggested that the following several aspects conferred C. sinensis higher Al-tolerance: (a) Al-treated C. sinensis seedlings had a higher external Al detoxification capacity via enhanced Al-induced secretion of organic acid anions, a higher antioxidant capacity and a more efficient chelation system in roots; (b) Al-treated C. sinensis seedlings displayed a higher level of sulfur in roots and leaves possibly due to increased uptake and decreased export of sulfur and a higher capacity to maintain the cellular phosphorus homeostasis by enhancing phosphorus acquisition and utilization; (c) Cell wall and cytoskeleton metabolism, energy and carbohydrate metabolism and signal transduction displayed higher adaptative responses to Al in C. sinensis than in C. grandis roots; (d) More upregulated than downregulated genes related to fatty acid and amino acid metabolisms were isolated from Al-treated C. sinensis roots, but the reverse was the case for Al-treated C. grandis roots. These results provide a platform for further investigating the roles of genes possibly responsible for citrus Al-tolerance.
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Affiliation(s)
- Peng Guo
- Institute of Plant Nutritional Physiology and Molecular Biology, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Yi-Ping Qi
- Institute of Materia Medica, Fujian Academy of Medical SciencesFuzhou, China
| | - Lin-Tong Yang
- Institute of Plant Nutritional Physiology and Molecular Biology, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Ning-Wei Lai
- Institute of Plant Nutritional Physiology and Molecular Biology, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Xin Ye
- Institute of Plant Nutritional Physiology and Molecular Biology, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Yi Yang
- Institute of Plant Nutritional Physiology and Molecular Biology, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
| | - Li-Song Chen
- Institute of Plant Nutritional Physiology and Molecular Biology, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
- The Higher Educational Key Laboratory of Fujian Province for Soil Ecosystem Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry UniversityFuzhou, China
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157
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158
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Weiste C, Pedrotti L, Selvanayagam J, Muralidhara P, Fröschel C, Novák O, Ljung K, Hanson J, Dröge-Laser W. The Arabidopsis bZIP11 transcription factor links low-energy signalling to auxin-mediated control of primary root growth. PLoS Genet 2017; 13:e1006607. [PMID: 28158182 PMCID: PMC5315408 DOI: 10.1371/journal.pgen.1006607] [Citation(s) in RCA: 79] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2016] [Revised: 02/17/2017] [Accepted: 01/26/2017] [Indexed: 01/02/2023] Open
Abstract
Plants have to tightly control their energy homeostasis to ensure survival and fitness under constantly changing environmental conditions. Thus, it is stringently required that energy-consuming stress-adaptation and growth-related processes are dynamically tuned according to the prevailing energy availability. The evolutionary conserved SUCROSE NON-FERMENTING1 RELATED KINASES1 (SnRK1) and the downstream group C/S1 basic leucine zipper (bZIP) transcription factors (TFs) are well-characterised central players in plants’ low-energy management. Nevertheless, mechanistic insights into plant growth control under energy deprived conditions remains largely elusive. In this work, we disclose the novel function of the low-energy activated group S1 bZIP11-related TFs as regulators of auxin-mediated primary root growth. Whereas transgenic gain-of-function approaches of these bZIPs interfere with the activity of the root apical meristem and result in root growth repression, root growth of loss-of-function plants show a pronounced insensitivity to low-energy conditions. Based on ensuing molecular and biochemical analyses, we propose a mechanistic model, in which bZIP11-related TFs gain control over the root meristem by directly activating IAA3/SHY2 transcription. IAA3/SHY2 is a pivotal negative regulator of root growth, which has been demonstrated to efficiently repress transcription of major auxin transport facilitators of the PIN-FORMED (PIN) gene family, thereby restricting polar auxin transport to the root tip and in consequence auxin-driven primary root growth. Taken together, our results disclose the central low-energy activated SnRK1-C/S1-bZIP signalling module as gateway to integrate information on the plant’s energy status into root meristem control, thereby balancing plant growth and cellular energy resources. Being in competition for reproductive success, plants use most of their photosynthetically produced energy resources to promote growth. However, under unfavourable environmental conditions plants also need to finance adaptive responses to ensure their survival. For this purpose a growth regulatory system is required to dynamically tune plant growth according to the plants’ prevailing energy status. Here, we characterize crucial components of this system that link plants’ energy management with root growth control. In detail, we demonstrate that a highly homologous group of energy-controlled regulators of the basic leucine zipper (bZIP) transcription factor family redundantly operate under energy deprivation to control expression of a determinant of hormonally-controlled meristematic root growth. By these means these regulators constitute a central hub to integrate detrimental environmental stress conditions, which converge on energy limitation, into plant growth. Understanding the interplay between the plants’ energy homeostasis and growth control are of major importance for future strategies to engineer efficient crop plants.
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Affiliation(s)
- Christoph Weiste
- Julius-von-Sachs-Institut, Pharmazeutische Biologie, Julius-Maximilians-Universität Würzburg, Würzburg, Germany
| | - Lorenzo Pedrotti
- Julius-von-Sachs-Institut, Pharmazeutische Biologie, Julius-Maximilians-Universität Würzburg, Würzburg, Germany
| | | | - Prathibha Muralidhara
- Julius-von-Sachs-Institut, Pharmazeutische Biologie, Julius-Maximilians-Universität Würzburg, Würzburg, Germany
| | - Christian Fröschel
- Julius-von-Sachs-Institut, Pharmazeutische Biologie, Julius-Maximilians-Universität Würzburg, Würzburg, Germany
| | - Ondřej Novák
- Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Karin Ljung
- Umeå Plant Science Centre, Department of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Johannes Hanson
- Umeå Plant Science Centre, Department of Plant Physiology, Umeå University, Umeå, Sweden
| | - Wolfgang Dröge-Laser
- Julius-von-Sachs-Institut, Pharmazeutische Biologie, Julius-Maximilians-Universität Würzburg, Würzburg, Germany
- * E-mail:
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159
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Baena-González E, Hanson J. Shaping plant development through the SnRK1-TOR metabolic regulators. CURRENT OPINION IN PLANT BIOLOGY 2017; 35:152-157. [PMID: 28027512 DOI: 10.1016/j.pbi.2016.12.004] [Citation(s) in RCA: 104] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2016] [Revised: 12/05/2016] [Accepted: 12/07/2016] [Indexed: 05/20/2023]
Abstract
SnRK1 (Snf1-related protein kinase 1) and TOR (target of rapamycin) are evolutionarily conserved protein kinases that lie at the heart of energy sensing, playing central and antagonistic roles in the regulation of metabolism and gene expression. Increasing evidence links these metabolic regulators to numerous aspects of plant development, from germination to flowering and senescence. This prompts the hypothesis that SnRK1 and TOR modify developmental programs according to the metabolic status to adjust plant growth to a specific environment. The aim of this review is to provide support to this hypothesis and to incentivize further studies on this topic by summarizing the work that establishes a genetic connection between SnRK1-TOR and plant development.
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Affiliation(s)
- Elena Baena-González
- Instituto Gulbenkian de Ciência, Rua da Quinta Grande 6, 2780-156 Oeiras, Portugal.
| | - Johannes Hanson
- Umeå Plant Science Center, Department of Plant Physiology, Umeå University, 90187 Umeå, Sweden.
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160
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Leprince O, Pellizzaro A, Berriri S, Buitink J. Late seed maturation: drying without dying. JOURNAL OF EXPERIMENTAL BOTANY 2017; 68:827-841. [PMID: 28391329 DOI: 10.1093/jxb/erw363] [Citation(s) in RCA: 85] [Impact Index Per Article: 12.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Besides the deposition of storage reserves, seed maturation is characterized by the acquisition of functional traits including germination, desiccation tolerance, dormancy, and longevity. After seed filling, seed longevity increases up to 30-fold, concomitant with desiccation that brings the embryo to a quiescent state. The period that we define as late maturation phase can represent 10-78% of total seed development time, yet it remains overlooked. Its importance is underscored by the fact that in the seed production chain, the stage of maturity at harvest is the primary factor that influences seed longevity and seedling establishment. This review describes the major events and regulatory pathways underlying the acquisition of seed longevity, focusing on key indicators of maturity such as chlorophyll degradation, accumulation of raffinose family oligosaccharides, late embryogenesis abundant proteins, and heat shock proteins. We discuss how these markers are correlated with or contribute to seed longevity, and highlight questions that merit further attention. We present evidence suggesting that molecular players involved in biotic defence also have a regulatory role in seed longevity. We also explore how the concept of plasticity can help understand the acquisition of longevity.
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Affiliation(s)
- Olivier Leprince
- IRHS, Agrocampus-Ouest, INRA, Université d'Angers, SFR 4207 Quasav, 42 rue George Morel, 49071 Beaucouzé, France
| | - Anthoni Pellizzaro
- IRHS, Agrocampus-Ouest, INRA, Université d'Angers, SFR 4207 Quasav, 42 rue George Morel, 49071 Beaucouzé, France
| | - Souha Berriri
- IRHS, Agrocampus-Ouest, INRA, Université d'Angers, SFR 4207 Quasav, 42 rue George Morel, 49071 Beaucouzé, France
| | - Julia Buitink
- IRHS, Agrocampus-Ouest, INRA, Université d'Angers, SFR 4207 Quasav, 42 rue George Morel, 49071 Beaucouzé, France
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161
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Borek S, Paluch-Lubawa E, Pukacka S, Pietrowska-Borek M, Ratajczak L. Asparagine slows down the breakdown of storage lipid and degradation of autophagic bodies in sugar-starved embryo axes of germinating lupin seeds. JOURNAL OF PLANT PHYSIOLOGY 2017; 209:51-67. [PMID: 28013171 DOI: 10.1016/j.jplph.2016.10.016] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2016] [Revised: 10/20/2016] [Accepted: 10/21/2016] [Indexed: 06/06/2023]
Abstract
The research was conducted on embryo axes of yellow lupin (Lupinus luteus L.), white lupin (Lupinus albus L.) and Andean lupin (Lupinus mutabilis Sweet), which were isolated from imbibed seeds and cultured for 96h in vitro under different conditions of carbon and nitrogen nutrition. Isolated embryo axes were fed with 60mM sucrose or were sugar-starved. The effect of 35mM asparagine (a central amino acid in the metabolism of germinating lupin seeds) and 35mM nitrate (used as an inorganic kind of nitrogen) on growth, storage lipid breakdown and autophagy was investigated. The sugar-starved isolated embryo axes contained more total lipid than axes fed with sucrose, and the content of this storage compound was even higher in sugar-starved isolated embryo axes fed with asparagine. Ultrastructural observations showed that asparagine significantly slowed down decomposition of autophagic bodies, and this allowed detailed analysis of their content. We found peroxisomes inside autophagic bodies in cells of sugar-starved Andean lupin embryo axes fed with asparagine, which led us to conclude that peroxisomes may be degraded during autophagy in sugar-starved isolated lupin embryo axes. One reason for the slower degradation of autophagic bodies was the markedly lower lipolytic activity in axes fed with asparagine.
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Affiliation(s)
- Sławomir Borek
- Department of Plant Physiology, Adam Mickiewicz University, ul. Umultowska 89, 61-614 Poznań, Poland.
| | - Ewelina Paluch-Lubawa
- Department of Plant Physiology, Adam Mickiewicz University, ul. Umultowska 89, 61-614 Poznań, Poland.
| | - Stanisława Pukacka
- Institute of Dendrology, Polish Academy of Sciences, ul. Parkowa 5, 62-035 Kórnik, Poland.
| | - Małgorzata Pietrowska-Borek
- Department of Biochemistry and Biotechnology, Poznan University of Life Sciences, ul. Dojazd 11, 60-632 Poznań, Poland.
| | - Lech Ratajczak
- Department of Plant Physiology, Adam Mickiewicz University, ul. Umultowska 89, 61-614 Poznań, Poland.
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162
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Ingram GC. Dying to live: cell elimination as a developmental strategy in angiosperm seeds. JOURNAL OF EXPERIMENTAL BOTANY 2017; 68:785-796. [PMID: 27702990 DOI: 10.1093/jxb/erw364] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
The complete elimination of unwanted cells during development is a repeated theme in both multicellular animals and in plants. In plants, such events have been extensively studied and reviewed in terms of their molecular regulation, of marker genes and proteins expressed, and in terms of cellular changes associated with their progression. This review will take a slightly different view of developmental cell elimination and will concentrate specifically on the numerous elimination events that occur during ovule and seed development (here grouped together as seed development). It asks why this cell elimination occurs in specific seed tissues, in order to understand something about the commonalities underlying how seemingly disparate events are triggered and regulated. Finally, by placing the seed in its broader evolutionary context, the question of why cell elimination may have emerged as such a key component of the seed developmental toolbox will be considered.
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Affiliation(s)
- Gwyneth C Ingram
- Laboratoire Reproduction et Développement des Plantes, Université de Lyon, CNRS (UMR 5667), INRA (UMR 0879), UCB Lyon 1, Ecole Normale Supérieure de Lyon, F-69342 Lyon, France
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Zhong X, Wang ZQ, Xiao R, Wang Y, Xie Y, Zhou X. iTRAQ analysis of the tobacco leaf proteome reveals that RNA-directed DNA methylation (RdDM) has important roles in defense against geminivirus-betasatellite infection. J Proteomics 2017; 152:88-101. [PMID: 27989946 DOI: 10.1016/j.jprot.2016.10.015] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2016] [Revised: 10/10/2016] [Accepted: 10/27/2016] [Indexed: 11/22/2022]
Abstract
Geminiviruses have caused serious losses in crop production. To investigate the mechanisms underlying host defenses against geminiviruses, an isobaric tags for relative and absolute quantification (iTRAQ)-based quantitative proteomic approach was used to explore the expression profiles of proteins in Nicotiana benthamiana (N. benthamiana) leaves in response to tomato yellow leaf curl China virus (TYLCCNV) with its betasatellite (TYLCCNB) at an early phase. In total, 4155 proteins were identified and 272 proteins were changed differentially in response to TYLCCNV/TYLCCNB infection. Bioinformatics analysis indicated that S-adenosyl-l-methionine cycle II was the most significantly up-regulated biochemical process during TYLCCNV/TYLCCNB infection. The mRNA levels of three proteins in S-adenosyl-l-methionine cycle II were further analyzed by qPCR, each was found significantly up-regulated in TYLCCNV/TYLCCNB-infected N. benthamiana. This result suggested a strong promotion of the biosynthesis of available methyl groups during geminivirus infections. We further tested the potential role of RdDM in N. benthamiana by virus-induced gene silencing (VIGS) and found that a disruption in RdDM resulted in more severe infectious symptoms and higher accumulation of viral DNA after TYLCCNV/TYLCCNB infection. Although the precise functions of these proteins still need to be determined, our proteomic results enhance the understanding of plant antiviral mechanisms. BIOLOGICAL SIGNIFICANCE One of the major limitations to crop growth in the worldwide is the prevalence of geminiviruses. They are able to infect food and cash crops and cause serious crop failures and economic losses worldwide, especially in Africa and Asia. Tomato yellow leaf curl China virus (TYLCCNV), which causes severe viral diseases in China, is a monopartite geminivirus associated with the betasatellite (TYLCCNB). However, the mechanisms underlying the TYLCCNV/TYLCCNB defense in plants are still not fully understood at the molecular level. In this study, the combined proteomic, bioinformatic and VIGS analyses revealed that TYLCCNV/TYLCCNB invasion caused complex proteomic alterations in the leaves of N. benthamiana involving the processes of stress and defense, energy production, photosynthesis, protein homeostasis, metabolism, cell structure, signal transduction, transcription, transportation, and cell growth/division. Promotion of available methyl groups via the S-adenosyl-l-methionine cycle II pathway in N. benthamiana appeared crucial for antiviral responses. These findings enhance our understanding in the proteomic aspects of host antiviral defenses against geminiviruses, and also demonstrate that the combination of proteomics with bioinformatics and VIGS analysis is an effective approach to investigate systemic plant responses to geminiviruses and to shed light on plant-virus interactions.
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Affiliation(s)
- Xueting Zhong
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Zhan Qi Wang
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Ruyuan Xiao
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Yaqin Wang
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Yan Xie
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China.
| | - Xueping Zhou
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China.
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164
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Chen L, Su ZZ, Huang L, Xia FN, Qi H, Xie LJ, Xiao S, Chen QF. The AMP-Activated Protein Kinase KIN10 Is Involved in the Regulation of Autophagy in Arabidopsis. FRONTIERS IN PLANT SCIENCE 2017; 8:1201. [PMID: 28740502 PMCID: PMC5502289 DOI: 10.3389/fpls.2017.01201] [Citation(s) in RCA: 94] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2016] [Accepted: 06/26/2017] [Indexed: 05/18/2023]
Abstract
Autophagy is a highly conserved system in eukaryotes for the bulk degradation and recycling of intracellular components. Autophagy is involved in many physiological processes including development, senescence, and responses to abiotic and biotic stress. The adenosine 5'-monophosphate (AMP)-activated protein kinase AMPK positively regulates autophagy in mammals; however, the potential function of AMPK in plant autophagy remains largely unknown. Here, we identified KIN10, a plant ortholog of the mammalian AMPK, as a positive regulator of plant autophagy and showed that it acts by affecting the phosphorylation of ATG1 (AUTOPHAGY-RELATED GENE 1) proteins in Arabidopsis. Transgenic Arabidopsis lines overexpressing KIN10 (KIN10-OE) showed delays in leaf senescence, and increased tolerance to nutrient starvation, these phenotypes required a functional autophagy pathway. Consistent with KIN10 having a potential role in autophagy, the nutrient starvation-induced formation of autophagosomes and cleavage of GFP-ATG8e were accelerated in the KIN10-OE lines compared to the wild type. Moreover, the KIN10-OE lines were less sensitive to drought and hypoxia treatments, compared with wild type. Carbon starvation enhanced the level of phosphorylated YFP-ATG1a in the KIN10-OE lines compared to that of wild type. Together, these findings suggest that KIN10 is involved in positive regulation of autophagy, possibly by affecting the phosphorylation of ATG1s in Arabidopsis.
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Affiliation(s)
- Liang Chen
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
- College of Life Sciences, South China Agricultural UniversityGuangzhou, China
| | - Ze-Zhuo Su
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
| | - Li Huang
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
| | - Fan-Nv Xia
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
| | - Hua Qi
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
| | - Li-Juan Xie
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
| | - Shi Xiao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
- *Correspondence: Shi Xiao, Qin-Fang Chen,
| | - Qin-Fang Chen
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-sen UniversityGuangzhou, China
- *Correspondence: Shi Xiao, Qin-Fang Chen,
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165
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Ma W, Wu F, Sheng P, Wang X, Zhang Z, Zhou K, Zhang H, Hu J, Lin Q, Cheng Z, Wang J, Zhu S, Zhang X, Guo X, Wang H, Wu C, Zhai H, Wan J. The LBD12-1 Transcription Factor Suppresses Apical Meristem Size by Repressing Argonaute 10 Expression. PLANT PHYSIOLOGY 2017; 173:801-811. [PMID: 27895202 PMCID: PMC5210715 DOI: 10.1104/pp.16.01699] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/03/2016] [Accepted: 11/27/2016] [Indexed: 05/20/2023]
Abstract
The shoot apical meristem (SAM) consists of a population of multipotent cells that generates all aerial structures and regenerates itself. SAM maintenance and lateral organ development are regulated by several complex signaling pathways, in which the Argonaute gene-mediated pathway plays a key role. One Argonaute gene, AGO10, functions as a microRNA locker that attenuates miR165/166 activity and positively regulates shoot apical meristem development, but little is known about when and how AGO10 is regulated at the transcriptional level. In this work, we showed that transgenic rice plants overexpressing LBD12-1, an LBD family transcription factor, exhibited stunted growth, twisted leaves, abnormal anthers, and reduced SAM size. Further research revealed that LBD12-1 directly binds to the promoter region and represses the expression of AGO10. Overexpression of AGO10 in an LBD12-1 overexpression background rescued the growth defect phenotype of LBD12-1-overexpressing plants. The expression of LBD12-1 and its binding ability to the AGO10 promoter is induced by stress. lbd12-1 loss-of-function mutants showed similar phenotypes and SAM size to the wild type under normal conditions, but lbd12-1 had a larger SAM under salt stress. Our findings provide novel insights into the regulatory mechanism of AGO10 by which SAM size is controlled under stress conditions.
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Affiliation(s)
- Weiwei Ma
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Fuqing Wu
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Peike Sheng
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Xiaole Wang
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Zhe Zhang
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Kunneng Zhou
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Huan Zhang
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Jinlong Hu
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Qibin Lin
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Zhijun Cheng
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Jiulin Wang
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Shanshan Zhu
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Xin Zhang
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Xiuping Guo
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Haiyang Wang
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Chuanyin Wu
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Huqu Zhai
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
| | - Jianmin Wan
- National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China (W.M., F.W., P.S., X.W., Z.Z., Q.L., Z.C., J. Wang, S.Z., X.Z., X.G., H.W., C.W., H.Z., J. Wan); and
- State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China (K.Z., H.Z., J.H., J. Wan)
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Kazmi RH, Willems LAJ, Joosen RVL, Khan N, Ligterink W, Hilhorst HWM. Metabolomic analysis of tomato seed germination. Metabolomics 2017; 13:145. [PMID: 29104520 PMCID: PMC5653705 DOI: 10.1007/s11306-017-1284-x] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/27/2017] [Accepted: 10/13/2017] [Indexed: 01/19/2023]
Abstract
INTRODUCTION Seed germination is inherently related to seed metabolism, which changes throughout its maturation, desiccation and germination processes. The metabolite content of a seed and its ability to germinate are determined by underlying genetic architecture and environmental effects during development. OBJECTIVE This study aimed to assess an integrative approach to explore genetics modulating seed metabolism in different developmental stages and the link between seed metabolic- and germination traits. METHODS We have utilized gas chromatography-time-of-flight/mass spectrometry (GC-TOF/MS) metabolite profiling to characterize tomato seeds during dry and imbibed stages. We describe, for the first time in tomato, the use of a so-called generalized genetical genomics (GGG) model to study the interaction between genetics, environment and seed metabolism using 100 tomato recombinant inbred lines (RILs) derived from a cross between Solanum lycopersicum and Solanum pimpinellifolium. RESULTS QTLs were found for over two-thirds of the metabolites within several QTL hotspots. The transition from dry to 6 h imbibed seeds was associated with programmed metabolic switches. Significant correlations varied among individual metabolites and the obtained clusters were significantly enriched for metabolites involved in specific biochemical pathways. CONCLUSIONS Extensive genetic variation in metabolite abundance was uncovered. Numerous identified genetic regions that coordinate groups of metabolites were detected and these will contain plausible candidate genes. The combined analysis of germination phenotypes and metabolite profiles provides a strong indication for the hypothesis that metabolic composition is related to germination phenotypes and thus to seed performance.
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Affiliation(s)
- Rashid H. Kazmi
- 0000 0001 0791 5666grid.4818.5Wageningen Seed Lab, Lab. of Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Leo A. J. Willems
- 0000 0001 0791 5666grid.4818.5Wageningen Seed Lab, Lab. of Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Ronny V. L. Joosen
- 0000 0001 0791 5666grid.4818.5Wageningen Seed Lab, Lab. of Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Noorullah Khan
- 0000 0001 0791 5666grid.4818.5Wageningen Seed Lab, Lab. of Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Wilco Ligterink
- 0000 0001 0791 5666grid.4818.5Wageningen Seed Lab, Lab. of Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - Henk W. M. Hilhorst
- 0000 0001 0791 5666grid.4818.5Wageningen Seed Lab, Lab. of Plant Physiology, Wageningen University, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
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Broeckx T, Hulsmans S, Rolland F. The plant energy sensor: evolutionary conservation and divergence of SnRK1 structure, regulation, and function. JOURNAL OF EXPERIMENTAL BOTANY 2016; 67:6215-6252. [PMID: 27856705 DOI: 10.1093/jxb/erw416] [Citation(s) in RCA: 152] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
The SnRK1 (SNF1-related kinase 1) kinases are the plant cellular fuel gauges, activated in response to energy-depleting stress conditions to maintain energy homeostasis while also gatekeeping important developmental transitions for optimal growth and survival. Similar to their opisthokont counterparts (animal AMP-activated kinase, AMPK, and yeast Sucrose Non-Fermenting 1, SNF), they function as heterotrimeric complexes with a catalytic (kinase) α subunit and regulatory β and γ subunits. Although the overall configuration of the kinase complexes is well conserved, plant-specific structural modifications (including a unique hybrid βγ subunit) and associated differences in regulation reflect evolutionary divergence in response to fundamentally different lifestyles. While AMP is the key metabolic signal activating AMPK in animals, the plant kinases appear to be allosterically inhibited by sugar-phosphates. Their function is further fine-tuned by differential subunit expression, localization, and diverse post-translational modifications. The SnRK1 kinases act by direct phosphorylation of key metabolic enzymes and regulatory proteins, extensive transcriptional regulation (e.g. through bZIP transcription factors), and down-regulation of TOR (target of rapamycin) kinase signaling. Significant progress has been made in recent years. New tools and more directed approaches will help answer important fundamental questions regarding their structure, regulation, and function, as well as explore their potential as targets for selection and modification for improved plant performance in a changing environment.
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Affiliation(s)
- Tom Broeckx
- Laboratory for Molecular Plant Biology, Biology Department, University of Leuven-KU Leuven, Kasteelpark Arenberg 31, 3001 Heverlee-Leuven, Belgium
| | - Sander Hulsmans
- Laboratory for Molecular Plant Biology, Biology Department, University of Leuven-KU Leuven, Kasteelpark Arenberg 31, 3001 Heverlee-Leuven, Belgium
| | - Filip Rolland
- Laboratory for Molecular Plant Biology, Biology Department, University of Leuven-KU Leuven, Kasteelpark Arenberg 31, 3001 Heverlee-Leuven, Belgium
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Zhang X, Zheng X, Ke S, Zhu H, Liu F, Zhang Z, Peng X, Guo L, Zeng R, Hou P, Liu Z, Wu S, Song M, Yang J, Zhang G. ER-localized adenine nucleotide transporter ER-ANT1: an integrator of energy and stress signaling in rice. PLANT MOLECULAR BIOLOGY 2016; 92:701-715. [PMID: 27614468 DOI: 10.1007/s11103-016-0540-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2016] [Accepted: 08/31/2016] [Indexed: 06/06/2023]
Abstract
Most environmental perturbations have a direct or indirect deleterious impact on photosynthesis, and, in consequence, the overall energy status of the cell. Despite our increased understanding of convergent energy and stress signals, the connections between photosynthesis, energy and stress signals through putative common nodes are still unclear. Here we identified an endoplasmic reticulum (ER)-localized adenine nucleotide transporter1 (ER-ANT1), whose deficiency causes seedling lethality in air but viable under high CO2, exhibiting the typical photorespiratory phenotype. Metabolic analysis suggested that depletion of ER-ANT1 resulted in circadian rhythm disorders in sucrose synthesis and induced sucrose signaling pathways, indicating that the ER is involved in the regulation of vital energy metabolism in plants. In addition, the defect of ER-ANT1 triggers ER stress and activates the unfolded protein response in plant cells, suggesting ER stress and photorespiration are closely linked. These findings provide an important evidence for a key role of ER-localized ER-ANT1 in convergent energy and stress signals in rice. Our findings support the idea that ATP is a central signal involved in the plant response to a variety of stresses.
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Affiliation(s)
- Xiangqian Zhang
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China.
- Guangdong Engineering Research Center of Grassland Science, College of Forestry and Landscape Architecture, South China Agricultural University, Guangzhou, 510642, China.
| | - Xu Zheng
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Shanwen Ke
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China
| | - Haitao Zhu
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China
| | - Fang Liu
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China
| | - Zemin Zhang
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China
| | - Xinxiang Peng
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China
| | - Lin Guo
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Ruizhen Zeng
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China
| | - Pei Hou
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Ziqiang Liu
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China
| | - Suowei Wu
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Meifang Song
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Jianping Yang
- Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Guiquan Zhang
- The State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou, 510642, China.
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Hartmann L, Drewe-Boß P, Wießner T, Wagner G, Geue S, Lee HC, Obermüller DM, Kahles A, Behr J, Sinz FH, Rätsch G, Wachter A. Alternative Splicing Substantially Diversifies the Transcriptome during Early Photomorphogenesis and Correlates with the Energy Availability in Arabidopsis. THE PLANT CELL 2016; 28:2715-2734. [PMID: 27803310 PMCID: PMC5155347 DOI: 10.1105/tpc.16.00508] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2016] [Revised: 10/07/2016] [Accepted: 10/31/2016] [Indexed: 05/18/2023]
Abstract
Plants use light as source of energy and information to detect diurnal rhythms and seasonal changes. Sensing changing light conditions is critical to adjust plant metabolism and to initiate developmental transitions. Here, we analyzed transcriptome-wide alterations in gene expression and alternative splicing (AS) of etiolated seedlings undergoing photomorphogenesis upon exposure to blue, red, or white light. Our analysis revealed massive transcriptome reprogramming as reflected by differential expression of ∼20% of all genes and changes in several hundred AS events. For more than 60% of all regulated AS events, light promoted the production of a presumably protein-coding variant at the expense of an mRNA with nonsense-mediated decay-triggering features. Accordingly, AS of the putative splicing factor REDUCED RED-LIGHT RESPONSES IN CRY1CRY2 BACKGROUND1, previously identified as a red light signaling component, was shifted to the functional variant under light. Downstream analyses of candidate AS events pointed at a role of photoreceptor signaling only in monochromatic but not in white light. Furthermore, we demonstrated similar AS changes upon light exposure and exogenous sugar supply, with a critical involvement of kinase signaling. We propose that AS is an integration point of signaling pathways that sense and transmit information regarding the energy availability in plants.
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Affiliation(s)
- Lisa Hartmann
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - Philipp Drewe-Boß
- Computational Biology Center, Memorial Sloan Kettering Cancer Center, New York, New York 10065
- Berlin Institute for Medical Systems Biology, Max Delbrück Center for Molecular Medicine, 13092 Berlin, Germany
| | - Theresa Wießner
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - Gabriele Wagner
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - Sascha Geue
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - Hsin-Chieh Lee
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - Dominik M Obermüller
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
| | - André Kahles
- Computational Biology Center, Memorial Sloan Kettering Cancer Center, New York, New York 10065
| | - Jonas Behr
- Computational Biology Center, Memorial Sloan Kettering Cancer Center, New York, New York 10065
| | - Fabian H Sinz
- Institute for Neurobiology, University of Tübingen, 72076 Tübingen, Germany
| | - Gunnar Rätsch
- Computational Biology Center, Memorial Sloan Kettering Cancer Center, New York, New York 10065
- Department of Computer Science, ETH Zürich, 8006 Zürich, Switzerland
| | - Andreas Wachter
- Center for Plant Molecular Biology (ZMBP), University of Tübingen, 72076 Tübingen, Germany
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170
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Hasler-Sheetal H, Castorani MCN, Glud RN, Canfield DE, Holmer M. Metabolomics Reveals Cryptic Interactive Effects of Species Interactions and Environmental Stress on Nitrogen and Sulfur Metabolism in Seagrass. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2016; 50:11602-11609. [PMID: 27732781 DOI: 10.1021/acs.est.6b04647] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Eutrophication of estuaries and coastal seas is accelerating, increasing light stress on subtidal marine plants and changing their interactions with other species. To date, we have limited understanding of how such variations in environmental and biological stress modify the impact of interactions among foundational species and eventually affect ecosystem health. Here, we used metabolomics to assess the impact of light reductions on interactions between the seagrass Zostera marina, an important habitat-forming marine plant, and the abundant and commercially important blue mussel Mytilus edulis. Plant performance varied with light availability but was unaffected by the presence of mussels. Metabolomic analysis, on the other hand, revealed an interaction between light availability and presence of M. edulis on seagrass metabolism. Under high light, mussels stimulated seagrass nitrogen and energy metabolism. Conversely, in low light mussels impeded nitrogen and energy metabolism, and enhanced responses against sulfide toxicity, causing inhibited oxidative energy metabolism and tissue degradation. Metabolomic analysis thereby revealed cryptic changes to seagrass condition that could not be detected by traditional approaches. Our findings suggest that coastal eutrophication and associated reductions in light may shift seagrass-bivalve interactions from mutualistic to antagonistic, which is important for conservation management of seagrass meadows.
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Affiliation(s)
- Harald Hasler-Sheetal
- Department of Biology, University of Southern Denmark , Campusvej 55, Odense M Dk-5230, Denmark
- Nordic Center for Earth Evolution (NordCEE), University of Southern Denmark , Campusvej 55, Odense M Dk-5230, Denmark
- VILLUM Center for Bioanalytical Sciences, University of Southern Denmark , Odense M Dk-5230, Denmark
| | - Max C N Castorani
- Marine Science Institute, University of California , Santa Barbara, California 93106-6150, United States
| | - Ronnie N Glud
- Department of Biology, University of Southern Denmark , Campusvej 55, Odense M Dk-5230, Denmark
- Nordic Center for Earth Evolution (NordCEE), University of Southern Denmark , Campusvej 55, Odense M Dk-5230, Denmark
- Scottish Association for Marine Science , Oban PA37 1QA, U.K
- University of Aarhus , Arctic Research Centre, Building 1540, Ny Munkegade 114, 8000 Aarhus, Denmark
| | - Donald E Canfield
- Nordic Center for Earth Evolution (NordCEE), University of Southern Denmark , Campusvej 55, Odense M Dk-5230, Denmark
| | - Marianne Holmer
- Department of Biology, University of Southern Denmark , Campusvej 55, Odense M Dk-5230, Denmark
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171
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Jing C, Ma C, Zhang J, Jing S, Jiang X, Yang Y, Zhao Z. Effect of Debagging Time on Pigment Patterns in the Peel and Sugar and Organic Acid Contents in the Pulp of ‘Golden Delicious’ and ‘Qinguan’ Apple Fruit at Mid and Late Stages of Development. PLoS One 2016; 11:e0165050. [PMID: 27788164 PMCID: PMC5082798 DOI: 10.1371/journal.pone.0165050] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2016] [Accepted: 10/05/2016] [Indexed: 12/30/2022] Open
Abstract
This study examined the effect of debagging time on color and flavor / taste compounds in the non-red apple cultivar ‘Golden Delicious’ and red cultivar ‘Qinguan’ at mid and late stages of fruit development. Debagging briefly improved the red color in both cultivars, the peel of ‘Golden Delicious’ presenting pale-pink hue. However, rapid anthocyanin accumulation occurred in apple peel at a specific time (after 179 days after flowering (DAF) in ‘Qinguan’) and was unaltered by debagging time in the red cultivar ‘Qinguan’. Furthermore, untimely debagging had a detrimental effect on the content of anthocyanin. All sugars increased and organic acids decreased in apple pulp at mid to late stages of development. Bagging treatment reduced the content of most sugars and organic acids, as well as, the overall total. However, glucose and citric acid contents were higher in bagged fruit than non-bagged fruit; the maximum occurred in T7 treatment that was no-debagging at DAF 159 / 196 (‘Golden delicious’ / ‘Qinguan’), i.e., 24.35 and 0.07 mg g-1 FW in ‘Golden delicious’, and 38.86 and 0.06 mg g-1 FW in ‘Qinguan’, respectively. In a word, bagging treatment can alter the pattern of peel color development in apple fruit; however, it remains difficult to alter the timing of rapid anthocyanin accumulation as it is regulated solely by development. Moreover, bagging treatment reduced the total accumulation of sugars and organic acids, and even the over total in pulp, but increased the glucose and citric acid contents in apple pulp.
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Affiliation(s)
- Chenjuan Jing
- Department of Horticulture, Northwest A&F University, Yangling, Shaanxi, People’s Republic of China
- Shaanxi Research Center of Apple Engineering and Technology, Yangling, Shaanxi, People’s Republic of China
| | - Changqing Ma
- Department of Horticulture, Northwest A&F University, Yangling, Shaanxi, People’s Republic of China
- Shaanxi Research Center of Apple Engineering and Technology, Yangling, Shaanxi, People’s Republic of China
| | - Juan Zhang
- Department of Horticulture, Northwest A&F University, Yangling, Shaanxi, People’s Republic of China
- Shaanxi Research Center of Apple Engineering and Technology, Yangling, Shaanxi, People’s Republic of China
| | - Shujuan Jing
- Apple Experimental Farm of Northwest A&F University, Baishui, Shaanxi, People’s Republic of China
| | - Xiaobing Jiang
- Department of Horticulture, Northwest A&F University, Yangling, Shaanxi, People’s Republic of China
- Shaanxi Research Center of Apple Engineering and Technology, Yangling, Shaanxi, People’s Republic of China
| | - Yazhou Yang
- Department of Horticulture, Northwest A&F University, Yangling, Shaanxi, People’s Republic of China
- Shaanxi Research Center of Apple Engineering and Technology, Yangling, Shaanxi, People’s Republic of China
| | - Zhengyang Zhao
- Department of Horticulture, Northwest A&F University, Yangling, Shaanxi, People’s Republic of China
- Shaanxi Research Center of Apple Engineering and Technology, Yangling, Shaanxi, People’s Republic of China
- Apple Experimental Farm of Northwest A&F University, Baishui, Shaanxi, People’s Republic of China
- * E-mail: ,
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172
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Isobaric Tags for Relative and Absolute Quantitation (iTRAQ)-Based Comparative Proteome Analysis of the Response of Ramie under Drought Stress. Int J Mol Sci 2016; 17:ijms17101607. [PMID: 27689998 PMCID: PMC5085640 DOI: 10.3390/ijms17101607] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2016] [Revised: 08/17/2016] [Accepted: 09/15/2016] [Indexed: 12/20/2022] Open
Abstract
In this study, we conducted the first isobaric tags for relative and absolute quantitation (isobaric tags for relative and absolute quantitation (iTRAQ))-based comparative proteomic analysis of ramie plantlets after 0 (minor drought stress), 24 (moderate drought stress), and 72 h (severe drought stress) of treatment with 15% (w/v) poly (ethylene glycol)6000 (PEG6000) to simulate drought stress. In our study, the association analysis of proteins and transcript expression revealed 1244 and 968 associated proteins identified in leaves and roots, respectively. L1, L2, and L3 are leaf samples which were harvested at 0, 24, and 72 h after being treated with 15% PEG6000, respectively. Among those treatment groups, a total of 118, 216, and 433 unique proteins were identified as differentially expressed during L1 vs. L2, L2 vs. L3, and L1 vs. L3, respectively. R1, R2, and R3 are root samples which were harvested at 0, 24, and 72 h after being treated with 15% PEG6000, respectively. Among those treatment groups,a total of 124, 27, and 240 unique proteins were identified as differentially expressed during R1 vs. R2, R2 vs. R3, and R1 vs. R3, respectively. Bioinformatics analysis indicated that glycolysis/gluconeogenesis was significantly upregulated in roots in response to drought stress. This enhancement may result in more glycolytically generated adenosine triphosphate (ATP) in roots to adapt to adverse environmental conditions. To obtain complementary information related to iTRAQ data, the mRNA levels of 12 proteins related to glycolysis/gluconeogenesis in leaves and 7 in roots were further analyzed by qPCR. Most of their expression levels were higher in R3 than R1 and R2, suggesting that these compounds may promote drought tolerance by modulating the production of available energy.
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173
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Ye J, Zhang Z, You C, Zhang X, Lu J, Ma H. Abundant protein phosphorylation potentially regulates Arabidopsis anther development. JOURNAL OF EXPERIMENTAL BOTANY 2016; 67:4993-5008. [PMID: 27531888 PMCID: PMC5014169 DOI: 10.1093/jxb/erw293] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
As the male reproductive organ of flowering plants, the stamen consists of the anther and filament. Previous studies on stamen development mainly focused on single gene functions by genetic methods or gene expression changes using comparative transcriptomic approaches, especially in model plants such as Arabidopsis thaliana However, studies on Arabidopsis anther protein expression and post-translational modifications are still lacking. Here we report proteomic and phosphoproteomic studies on developing Arabidopsis anthers at stages 4-7 and 8-12. We identified 3908 high-confidence phosphorylation sites corresponding to 1637 phosphoproteins. Among the 1637 phosphoproteins, 493 were newly identified, with 952 phosphorylation sites. Phosphopeptide enrichment prior to LC-MS analysis facilitated the identification of low-abundance proteins and regulatory proteins, thereby increasing the coverage of proteomic analysis, and facilitated the analysis of more regulatory proteins. Thirty-nine serine and six threonine phosphorylation motifs were uncovered from the anther phosphoproteome and further analysis supports that phosphorylation of casein kinase II, mitogen-activated protein kinases, and 14-3-3 proteins is a key regulatory mechanism in anther development. Phosphorylated residues were preferentially located in variable protein regions among family members, but they were they were conserved across angiosperms in general. Moreover, phosphorylation might reduce activity of reactive oxygen species scavenging enzymes and hamper brassinosteroid signaling in early anther development. Most of the novel phosphoproteins showed tissue-specific expression in the anther according to previous microarray data. This study provides a community resource with information on the abundance and phosphorylation status of thousands of proteins in developing anthers, contributing to understanding post-translational regulatory mechanisms during anther development.
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Affiliation(s)
- Juanying Ye
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
| | - Zaibao Zhang
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
| | - Chenjiang You
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
| | - Xumin Zhang
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
| | - Jianan Lu
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
| | - Hong Ma
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai 200433, China
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174
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Parada F, Noriega X, Dantas D, Bressan-Smith R, Pérez FJ. Differences in respiration between dormant and non-dormant buds suggest the involvement of ABA in the development of endodormancy in grapevines. JOURNAL OF PLANT PHYSIOLOGY 2016; 201:71-78. [PMID: 27448722 DOI: 10.1016/j.jplph.2016.07.007] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2015] [Revised: 07/07/2016] [Accepted: 07/07/2016] [Indexed: 05/08/2023]
Abstract
Grapevine buds (Vitis vinifera L) enter endodormancy (ED) after perceiving the short-day (SD) photoperiod signal and undergo metabolic changes that allow them to survive the winter temperatures. In the present study, we observed an inverse relationship between the depth of ED and the respiration rate of grapevine buds. Moreover, the respiration of dormant and non-dormant buds differed in response to temperature and glucose, two stimuli that normally increase respiration in plant tissues. While respiration in non-dormant buds rose sharply in response to both stimuli, respiration in dormant buds was only slightly affected. This suggests that a metabolic inhibitor is present. Here, we propose that the plant hormone abscisic acid (ABA) could be this inhibitor. ABA inhibits respiration in non-dormant buds and represses the expression of respiratory genes, such as ALTERNATIVE NADH DEHYDROGENASE (VaND1, VvaND2), CYTOCHROME OXIDASE (VvCOX6) and CYTOCHROME C (VvCYTC), and induces the expression of VvSnRK1, a gene encoding a member of a highly conserved family of protein kinases that act as energy sensors and regulate gene expression in response to energy depletion. In addition to inducing ED the SD-photoperiod up-regulated the expression of VvNCED, a gene that encodes a key enzyme in ABA synthesis. Taken together, these results suggest that ABA through the mediation of VvSnRK1, could play a key role in the regulation of the metabolic changes accompanying the entry into ED of grapevine buds.
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Affiliation(s)
- Francisca Parada
- Universidad de Chile, Facultad de Ciencias, Laboratorio de Bioquímica Vegetal, Casilla 653, Santiago, Chile.
| | - Ximena Noriega
- Universidad de Chile, Facultad de Ciencias, Laboratorio de Bioquímica Vegetal, Casilla 653, Santiago, Chile.
| | - Débora Dantas
- Universidade Estadual do Norte Fluminense, Centro de Ciencias e Tecnologías Agropecuarias, Avda, Alberto Lamego 2000, Campos dos Goytacazes RJ, Brazil.
| | - Ricardo Bressan-Smith
- Universidade Estadual do Norte Fluminense, Centro de Ciencias e Tecnologías Agropecuarias, Avda, Alberto Lamego 2000, Campos dos Goytacazes RJ, Brazil.
| | - Francisco J Pérez
- Universidad de Chile, Facultad de Ciencias, Laboratorio de Bioquímica Vegetal, Casilla 653, Santiago, Chile.
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175
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Khan A, Sharma P, Khan F, Ajayakumar PV, Shanker K, Samad A. In silico and in vitro Studies on Begomovirus Induced Andrographolide Biosynthesis Pathway in Andrographis Paniculata for Combating Inflammation and Cancer. Mol Inform 2016; 35:253-61. [PMID: 27492239 DOI: 10.1002/minf.201501010] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2015] [Accepted: 04/06/2016] [Indexed: 11/09/2022]
Abstract
Andrographolide and neoandrographolide are major bioactive molecules of Andrographis paniculata, a well-known medicinal plant. These molecules exhibited varying degrees of anti-inflammatory and anticancer activities in-vitro and in-vivo. Role of begomovirus protein C2/TrAP in biosynthesis of andrographolide was identified through molecular modeling, docking and predicted results were substantiated by in vitro studies. Homology molecular modeling and molecular docking were performed to study the binding conformations and different bonding behaviors, in order to reveal the possible mechanism of action behind higher accumulation of andrographolide. It was concluded that C2/TrAP inhibit the activation of SNF1-Related Protein Kinase-1 (SnRK1) in terpenoid pathway and removes the negative regulation of 3-hydroxy-3-methylglutaryl-CoA reductase (HMGR) by SnRK1, leading to higher accumulation of andrographolide and neoandrographolide in begomovirus infected plants. The binding site residues of SnRK1 docked with C2/TrAP were found to be associated with ATP binding site, substrate binding site and activation loop. Predicted results were also validated by HPTLC. This study provides important insights into understanding the role of viral protein in altering the regulation of biosynthesis of andrographolide and could be used in future research to develop biomimetic methods for increasing the production of such phytometabolites having anti-cancerous and anti-inflammatory properties.
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Affiliation(s)
- Asifa Khan
- Plant Pathology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, U.P. - 226015, India
| | - Pooja Sharma
- Metabolic & Structural Biology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, U.P. - 226015, India
| | - Feroz Khan
- Metabolic & Structural Biology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, U.P. - 226015, India
| | - P V Ajayakumar
- Analytical Chemistry Department, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, U.P. - 226015, India
| | - Karuna Shanker
- Analytical Chemistry Department, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, U.P. - 226015, India
| | - Abdul Samad
- Plant Pathology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, U.P. - 226015, India.
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176
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Krasnoperova EE, Isayenkov SV, Yemets AI, Blume YB. Influence of protein kinase KIN10 gene expression on root phenotype of Arabidopsis thaliana root system under condition of energy stress. CYTOL GENET+ 2016. [DOI: 10.3103/s009545271604006x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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177
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Carvalho RF, Szakonyi D, Simpson CG, Barbosa ICR, Brown JWS, Baena-González E, Duque P. The Arabidopsis SR45 Splicing Factor, a Negative Regulator of Sugar Signaling, Modulates SNF1-Related Protein Kinase 1 Stability. THE PLANT CELL 2016; 28:1910-25. [PMID: 27436712 PMCID: PMC5006706 DOI: 10.1105/tpc.16.00301] [Citation(s) in RCA: 58] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2016] [Revised: 07/05/2016] [Accepted: 07/19/2016] [Indexed: 05/19/2023]
Abstract
The ability to sense and respond to sugar signals allows plants to cope with environmental and metabolic changes by adjusting growth and development accordingly. We previously reported that the SR45 splicing factor negatively regulates glucose signaling during early seedling development in Arabidopsis thaliana Here, we show that under glucose-fed conditions, the Arabidopsis sr45-1 loss-of-function mutant contains higher amounts of the energy-sensing SNF1-Related Protein Kinase 1 (SnRK1) despite unaffected SnRK1 transcript levels. In agreement, marker genes for SnRK1 activity are upregulated in sr45-1 plants, and the glucose hypersensitivity of sr45-1 is attenuated by disruption of the SnRK1 gene. Using a high-resolution RT-PCR panel, we found that the sr45-1 mutation broadly targets alternative splicing in vivo, including that of the SR45 pre-mRNA itself. Importantly, the enhanced SnRK1 levels in sr45-1 are suppressed by a proteasome inhibitor, indicating that SR45 promotes targeting of the SnRK1 protein for proteasomal destruction. Finally, we demonstrate that SR45 regulates alternative splicing of the Arabidopsis 5PTase13 gene, which encodes an inositol polyphosphate 5-phosphatase previously shown to interact with and regulate the stability of SnRK1 in vitro, thus providing a mechanistic link between SR45 function and the modulation of degradation of the SnRK1 energy sensor in response to sugars.
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Affiliation(s)
| | - Dóra Szakonyi
- Instituto Gulbenkian de Ciência, 2780-156 Oeiras, Portugal
| | - Craig G Simpson
- The James Hutton Institute, Invergowrie, Dundee DD2 5DA, Scotland, United Kingdom
| | | | - John W S Brown
- The James Hutton Institute, Invergowrie, Dundee DD2 5DA, Scotland, United Kingdom University of Dundee at The James Hutton Institute, Invergowrie, Dundee DD2 5DA, Scotland, United Kingdom
| | | | - Paula Duque
- Instituto Gulbenkian de Ciência, 2780-156 Oeiras, Portugal
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178
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Kumar A, Pathak RK, Gupta SM, Gaur VS, Pandey D. Systems Biology for Smart Crops and Agricultural Innovation: Filling the Gaps between Genotype and Phenotype for Complex Traits Linked with Robust Agricultural Productivity and Sustainability. OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY 2016; 19:581-601. [PMID: 26484978 DOI: 10.1089/omi.2015.0106] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
In recent years, rapid developments in several omics platforms and next generation sequencing technology have generated a huge amount of biological data about plants. Systems biology aims to develop and use well-organized and efficient algorithms, data structure, visualization, and communication tools for the integration of these biological data with the goal of computational modeling and simulation. It studies crop plant systems by systematically perturbing them, checking the gene, protein, and informational pathway responses; integrating these data; and finally, formulating mathematical models that describe the structure of system and its response to individual perturbations. Consequently, systems biology approaches, such as integrative and predictive ones, hold immense potential in understanding of molecular mechanism of agriculturally important complex traits linked to agricultural productivity. This has led to identification of some key genes and proteins involved in networks of pathways involved in input use efficiency, biotic and abiotic stress resistance, photosynthesis efficiency, root, stem and leaf architecture, and nutrient mobilization. The developments in the above fields have made it possible to design smart crops with superior agronomic traits through genetic manipulation of key candidate genes.
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Affiliation(s)
| | - Rajesh Kumar Pathak
- 2 Department of Biotechnology, G. B. Pant Engineering College , Pauri Garhwal-246194, Uttarakhand, India
| | - Sanjay Mohan Gupta
- 3 Molecular Biology and Genetic Engineering Laboratory, Defence Institute of Bio-Energy Research , DRDO, Haldwani, Uttarakhand, India
| | - Vikram Singh Gaur
- 4 College of Agriculture , Waraseoni, Balaghat, Madhya Pradesh, India
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179
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Aluminum Toxicity-Induced Alterations of Leaf Proteome in Two Citrus Species Differing in Aluminum Tolerance. Int J Mol Sci 2016; 17:ijms17071180. [PMID: 27455238 PMCID: PMC4964550 DOI: 10.3390/ijms17071180] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2016] [Revised: 07/13/2016] [Accepted: 07/13/2016] [Indexed: 11/17/2022] Open
Abstract
Seedlings of aluminum-tolerant ‘Xuegan’ (Citrus sinensis) and Al-intolerant ‘sour pummelo’ (Citrus grandis) were fertigated for 18 weeks with nutrient solution containing 0 and 1.2 mM AlCl3·6H2O. Al toxicity-induced inhibition of photosynthesis and the decrease of total soluble protein only occurred in C. grandis leaves, demonstrating that C. sinensis had higher Al tolerance than C. grandis. Using isobaric tags for relative and absolute quantification (iTRAQ), we obtained more Al toxicity-responsive proteins from C. sinensis than from C. grandis leaves, which might be responsible for the higher Al tolerance of C. sinensis. The following aspects might contribute to the Al tolerance of C. sinensis: (a) better maintenance of photosynthesis and energy balance via inducing photosynthesis and energy-related proteins; (b) less increased requirement for the detoxification of reactive oxygen species and other toxic compounds, such as aldehydes, and great improvement of the total ability of detoxification; and (c) upregulation of low-phosphorus-responsive proteins. Al toxicity-responsive proteins related to RNA regulation, protein metabolism, cellular transport and signal transduction might also play key roles in the higher Al tolerance of C. sinensis. We present the global picture of Al toxicity-induced alterations of protein profiles in citrus leaves, and identify some new Al toxicity-responsive proteins related to various biological processes. Our results provide some novel clues about plant Al tolerance.
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180
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Postles J, Curtis TY, Powers SJ, Elmore JS, Mottram DS, Halford NG. Changes in Free Amino Acid Concentration in Rye Grain in Response to Nitrogen and Sulfur Availability, and Expression Analysis of Genes Involved in Asparagine Metabolism. FRONTIERS IN PLANT SCIENCE 2016; 7:917. [PMID: 27446147 PMCID: PMC4916186 DOI: 10.3389/fpls.2016.00917] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2016] [Accepted: 06/09/2016] [Indexed: 05/23/2023]
Abstract
Free asparagine plays a central role in nitrogen storage and transport in many plant species due to its relatively high ratio of nitrogen to carbon. However, it is also a precursor for acrylamide, a Class 2a carcinogen that forms during high-temperature processing and cooking. The concentration of free asparagine was shown to increase by approximately 70% in rye grain in response to severe sulfur deficiency (F-test, p = 0.004), while the concentration of both free asparagine and free glutamine increased (by almost threefold and approximately 62%, respectively) in response to nitrogen application (F-test, p < 0.001 for free asparagine; p = 0.004 for free glutamine). There were also effects of nutrient supply on other free amino acids: The concentration of free proline, for example, showed a significant (F-test, p = 0.019) effect of nitrogen interacting with sulfur, with the highest concentration occurring when the plants were deprived of both nitrogen and sulfur. Polymerase chain reaction products for several genes involved in asparagine metabolism and its regulation were amplified from rye grain cDNA. These genes were asparagine synthetase-1 (ScASN1), glutamine synthetase-1 (ScGS1), potassium-dependent asparaginase (ScASP), aspartate kinase (ScASK), and general control non-derepressible-2 (ScGCN2). The expression of these genes and of a previously described sucrose non-fermenting-1-related protein kinase-1 gene (ScSnRK1) was analyzed in flag leaf and developing grain in response to nitrogen and sulfur supply, revealing a significant (F-test, p < 0.05) effect of nitrogen supply on ScGS1 expression in the grain at 21 days post-anthesis. There was also evidence of an effect of sulfur deficiency on ScASN1 gene expression. However, although this effect was large (almost 10-fold) it was only marginally statistically significant (F-test, 0.05 < p < 0.10). The study reinforced the conclusion that nutrient availability can have a profound impact on the concentrations of different free amino acids, something that is often overlooked by plant physiologists but which has important implications for flavor, color, and aroma development during cooking and processing, as well as the production of undesirable contaminants such as acrylamide.
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Affiliation(s)
- Jennifer Postles
- Plant Biology and Crop Science Department, Rothamsted ResearchHarpenden, UK
- Biotechnology and Biological Sciences Research CouncilSwindon, UK
| | - Tanya Y. Curtis
- Plant Biology and Crop Science Department, Rothamsted ResearchHarpenden, UK
| | - Stephen J. Powers
- Computational and Systems Biology Department, Rothamsted ResearchHarpenden, UK
| | - J. S. Elmore
- Department of Food and Nutritional Sciences, University of ReadingReading, UK
| | - Donald S. Mottram
- Department of Food and Nutritional Sciences, University of ReadingReading, UK
| | - Nigel G. Halford
- Plant Biology and Crop Science Department, Rothamsted ResearchHarpenden, UK
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Kotchoni SO, Gachomo EW, Slobodenko K, Shain DH. AMP deaminase suppression increases biomass, cold tolerance and oil content in green algae. ALGAL RES 2016. [DOI: 10.1016/j.algal.2016.04.007] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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182
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Van Dingenen J, De Milde L, Vermeersch M, Maleux K, De Rycke R, De Bruyne M, Storme V, Gonzalez N, Dhondt S, Inzé D. Chloroplasts Are Central Players in Sugar-Induced Leaf Growth. PLANT PHYSIOLOGY 2016; 171:590-605. [PMID: 26932234 PMCID: PMC4854676 DOI: 10.1104/pp.15.01669] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2015] [Accepted: 02/29/2016] [Indexed: 05/18/2023]
Abstract
Leaves are the plant's powerhouses, providing energy for all organs through sugar production during photosynthesis. However, sugars serve not only as a metabolic energy source for sink tissues but also as signaling molecules, affecting gene expression through conserved signaling pathways to regulate plant growth and development. Here, we describe an in vitro experimental assay, allowing one to alter the sucrose (Suc) availability during early Arabidopsis (Arabidopsis thaliana) leaf development, with the aim to identify the affected cellular and molecular processes. The transfer of seedlings to Suc-containing medium showed a profound effect on leaf growth by stimulating cell proliferation and postponing the transition to cell expansion. Furthermore, rapidly after transfer to Suc, mesophyll cells contained fewer and smaller plastids, which are irregular in shape and contain fewer starch granules compared with control mesophyll cells. Short-term transcriptional responses after transfer to Suc revealed the repression of well-known sugar-responsive genes and multiple genes encoded by the plastid, on the one hand, and up-regulation of a GLUCOSE-6-PHOSPHATE TRANSPORTER (GPT2), on the other hand. Mutant gpt2 seedlings showed no stimulation of cell proliferation and no repression of chloroplast-encoded transcripts when transferred to Suc, suggesting that GPT2 plays a critical role in the Suc-mediated effects on early leaf growth. Our findings, therefore, suggest that induction of GPT2 expression by Suc increases the import of glucose-6-phosphate into the plastids that would repress chloroplast-encoded transcripts, restricting chloroplast differentiation. Retrograde signaling from the plastids would then delay the transition to cell expansion and stimulate cell proliferation.
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Affiliation(s)
- Judith Van Dingenen
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Liesbeth De Milde
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Mattias Vermeersch
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Katrien Maleux
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Riet De Rycke
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Michiel De Bruyne
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Véronique Storme
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Nathalie Gonzalez
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Stijn Dhondt
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
| | - Dirk Inzé
- Department of Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.); andDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium (J.V.D., L.D.M., M.V., K.M., R.D.R., M.D.B., V.S., N.G., S.D., D.I.)
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Nath M, Tuteja N. NPKS uptake, sensing, and signaling and miRNAs in plant nutrient stress. PROTOPLASMA 2016; 253:767-786. [PMID: 26085375 DOI: 10.1007/s00709-015-0845-y] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2015] [Accepted: 06/08/2015] [Indexed: 05/24/2023]
Abstract
Sessile nature of higher plants consequently makes it highly adaptable for nutrient absorption and acquisition from soil. Plants require 17 essential elements for their growth and development which include 14 minerals (macronutrients: N, P, K, Mg, Ca, S; micronutrients: Cl, Fe, B, Mn, Zn, Cu, Ni, Mo) and 3 non-mineral (C, H, O) elements. The roots of higher plants must acquire these macronutrients and micronutrients from rhizosphere and further allocate to other plant parts for completing their life cycle. Plants evolved an intricate series of signaling and sensing cascades to maintain nutrient homeostasis and to cope with nutrient stress/availability. The specific receptors for nutrients in root, root system architecture, and internal signaling pathways help to develop plasticity in response to the nutrient starvation. Nitrogen (N), phosphorus (P), potassium (K), and sulfur (S) are essential for various metabolic processes, and their deficiency negatively effects the plant growth and yield. Genes coding for transporters and receptors for nutrients as well as some small non-coding RNAs have been implicated in nutrient uptake and signaling. This review summarizes the N, P, K, and S uptake, sensing and signaling events in nutrient stress condition especially in model plant Arabidopsis thaliana and involvement of microRNAs in nutrient deficiency. This article also provides a framework of uptake, sensing, signaling and to highlight the microRNA as an emerging major players in nutrient stress condition. Nutrient-plant-miRNA cross talk may help plant to cope up nutrient stress, and understanding their precise mechanism(s) will be necessary to develop high yielding smart crop with low nutrient input.
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Affiliation(s)
- Manoj Nath
- Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, 110067, New Delhi, India
| | - Narendra Tuteja
- Plant Molecular Biology Group, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, 110067, New Delhi, India.
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Dobrenel T, Caldana C, Hanson J, Robaglia C, Vincentz M, Veit B, Meyer C. TOR Signaling and Nutrient Sensing. ANNUAL REVIEW OF PLANT BIOLOGY 2016; 67:261-85. [PMID: 26905651 DOI: 10.1146/annurev-arplant-043014-114648] [Citation(s) in RCA: 243] [Impact Index Per Article: 30.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
All living organisms rely on nutrients to sustain cell metabolism and energy production, which in turn need to be adjusted based on available resources. The evolutionarily conserved target of rapamycin (TOR) protein kinase is a central regulatory hub that connects environmental information about the quantity and quality of nutrients to developmental and metabolic processes in order to maintain cellular homeostasis. TOR is activated by both nitrogen and carbon metabolites and promotes energy-consuming processes such as cell division, mRNA translation, and anabolism in times of abundance while repressing nutrient remobilization through autophagy. In animals and yeasts, TOR acts antagonistically to the starvation-induced AMP-activated kinase (AMPK)/sucrose nonfermenting 1 (Snf1) kinase, called Snf1-related kinase 1 (SnRK1) in plants. This review summarizes the immense knowledge on the relationship between TOR signaling and nutrients in nonphotosynthetic organisms and presents recent findings in plants that illuminate the crucial role of this pathway in conveying nutrient-derived signals and regulating many aspects of metabolism and growth.
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Affiliation(s)
- Thomas Dobrenel
- Institut Jean-Pierre Bourgin, UMR 1318 INRA AgroParisTech, ERL CNRS 3559, Saclay Plant Sciences, Versailles 78026, France;
- Umeå Plant Science Center, Department of Plant Physiology, Umeå University, Umeå 90187, Sweden
| | - Camila Caldana
- Molecular Physiology of Plant Biomass Production Group, Max Planck Partner Group, Brazilian Bioethanol Science and Technology Laboratory, CEP 13083-100 Campinas, São Paulo, Brazil
| | - Johannes Hanson
- Umeå Plant Science Center, Department of Plant Physiology, Umeå University, Umeå 90187, Sweden
| | - Christophe Robaglia
- Laboratoire de Génétique et Biophysique des Plantes, UMR 7265, DSV, IBEB, SBVME, CEA, CNRS, Aix Marseille Université, Faculté des Sciences de Luminy, Marseille 13009, France
| | - Michel Vincentz
- Laboratório de Genética de Plantas, Centro de Biologia Molecular e Engenharia Genética, Universidade Estadual de Campinas, CEP 13083-875 Campinas, São Paulo, Brazil
| | - Bruce Veit
- Forage Improvement, AgResearch, Institute of Fundamental Sciences, Massey University, Palmerston North 4442, New Zealand
| | - Christian Meyer
- Institut Jean-Pierre Bourgin, UMR 1318 INRA AgroParisTech, ERL CNRS 3559, Saclay Plant Sciences, Versailles 78026, France;
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185
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Shen L, Liu Z, Yang S, Yang T, Liang J, Wen J, Liu Y, Li J, Shi L, Tang Q, Shi W, Hu J, Liu C, Zhang Y, Lin W, Wang R, Yu H, Mou S, Hussain A, Cheng W, Cai H, He L, Guan D, Wu Y, He S. Pepper CabZIP63 acts as a positive regulator during Ralstonia solanacearum or high temperature-high humidity challenge in a positive feedback loop with CaWRKY40. JOURNAL OF EXPERIMENTAL BOTANY 2016; 67:2439-51. [PMID: 26936828 PMCID: PMC4809298 DOI: 10.1093/jxb/erw069] [Citation(s) in RCA: 56] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
CaWRKY40 is known to act as a positive regulator in the response of pepper (Capsicum annuum) to Ralstonia solanacearum inoculation (RSI) or high temperature-high humidity (HTHH), but the underlying mechanism remains elusive. Herein, we report that CabZIP63, a pepper bZIP family member, participates in this process by regulating the expression of CaWRKY40. CabZIP63 was found to localize in the nuclei, be up-regulated by RSI or HTHH, bind to promoters of both CabZIP63(pCabZIP63) and CaWRKY40(pCaWRKY40), and activate pCabZIP63- and pCaWRKY40-driven β-glucuronidase expression in a C- or G-box-dependent manner. Silencing of CabZIP63 by virus-induced gene silencing (VIGS) in pepper plants significantly attenuated their resistance to RSI and tolerance to HTHH, accompanied by down-regulation of immunity- or thermotolerance-associated CaPR1, CaNPR1, CaDEF1, and CaHSP24. Hypersensitive response-mediated cell death and expression of the tested immunity- and thermotolerance-associated marker genes were induced by transient overexpression (TOE) of CabZIP63, but decreased by that of CabZIP63-SRDX. Additionally, binding of CabZIP63 to pCaWRKY40 was up-regulated by RSI or HTHH, and the transcript level of CaWRKY40 and binding of CaWRKY40 to the promoters of CaPR1, CaNPR1, CaDEF1 and CaHSP24 were up-regulated by TOE of CabZIP63. On the other hand, CabZIP63 was also up-regulated transcriptionally by TOE of CaWRKY40. The data suggest collectively that CabZIP63 directly or indirectly regulates the expression of CaWRKY40 at both the transcriptional and post-transcriptional level, forming a positive feedback loop with CaWRKY40 during pepper's response to RSI or HTHH. Altogether, our data will help to elucidate the underlying mechanism of crosstalk between pepper's response to RSI and HTHH.
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Affiliation(s)
- Lei Shen
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Zhiqin Liu
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Sheng Yang
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Tong Yang
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Jiaqi Liang
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Jiayu Wen
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Yanyan Liu
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Jiazhi Li
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Lanping Shi
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Qian Tang
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Wei Shi
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Jiong Hu
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Cailing Liu
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Yangwen Zhang
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Wei Lin
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Rongzhang Wang
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Huanxin Yu
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Shaoliang Mou
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Ansar Hussain
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Wei Cheng
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Hanyang Cai
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Li He
- College of Life Science, Jinggang Shan University, Ji'an, Jiangxi 343000, PR China
| | - Deyi Guan
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
| | - Yang Wu
- College of Life Science, Jinggang Shan University, Ji'an, Jiangxi 343000, PR China
| | - Shuilin He
- National Education Minister, Key Laboratory of Plant Genetic Improvement and Comprehensive Utilization Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China College of Crop Science, Fujian Agriculture and Forestry University, Fuzhou, Fujian 350002, PR China
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Schulz-Raffelt M, Chochois V, Auroy P, Cuiné S, Billon E, Dauvillée D, Li-Beisson Y, Peltier G. Hyper-accumulation of starch and oil in a Chlamydomonas mutant affected in a plant-specific DYRK kinase. BIOTECHNOLOGY FOR BIOFUELS 2016; 9:55. [PMID: 26958078 PMCID: PMC4782384 DOI: 10.1186/s13068-016-0469-2] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2015] [Accepted: 02/19/2016] [Indexed: 05/08/2023]
Abstract
BACKGROUND Because of their high biomass productivity and their ability to accumulate high levels of energy-rich reserve compounds such as oils or starch, microalgae represent a promising feedstock for the production of biofuel. Accumulation of reserve compounds takes place when microalgae face adverse situations such as nutrient shortage, conditions which also provoke a stop in cell division, and down-regulation of photosynthesis. Despite growing interest in microalgal biofuels, little is known about molecular mechanisms controlling carbon reserve formation. In order to discover new regulatory mechanisms, and identify genes of interest to boost the potential of microalgae for biofuel production, we developed a forward genetic approach in the model microalga Chlamydomonas reinhardtii. RESULTS By screening an insertional mutant library on the ability of mutants to accumulate and re-mobilize reserve compounds, we isolated a Chlamydomonas mutant (starch degradation 1, std1) deficient for a dual-specificity tyrosine-phosphorylation-regulated kinase (DYRK). The std1 mutant accumulates higher levels of starch and oil than wild-type and maintains a higher photosynthetic activity under nitrogen starvation. Phylogenetic analysis revealed that this kinase (named DYRKP) belongs to a plant-specific subgroup of the evolutionarily conserved DYRK kinase family. Furthermore, hyper-accumulation of storage compounds occurs in std1 mostly under low light in photoautotrophic condition, suggesting that the kinase normally acts under conditions of low energy status to limit reserve accumulation. CONCLUSIONS The DYRKP kinase is proposed to act as a negative regulator of the sink capacity of photosynthetic cells that integrates nutrient and energy signals. Inactivation of the kinase strongly boosts accumulation of reserve compounds under photoautotrophic nitrogen deprivation and allows maintaining high photosynthetic activity. The DYRKP kinase therefore represents an attractive target for improving the energy density of microalgae or crop plants.
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Affiliation(s)
- Miriam Schulz-Raffelt
- />CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, 13108 Saint-Paul-lez-Durance, France
- />CNRS, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13108 Saint-Paul-lez-Durance, France
- />Aix Marseille Université, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13284 Marseille, France
- />Molecular Biotechnology and Systems Biology, TU Kaiserslautern, Paul-Ehrlich-Straße 23, 67663 Kaiserslautern, Germany
| | - Vincent Chochois
- />CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, 13108 Saint-Paul-lez-Durance, France
- />CNRS, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13108 Saint-Paul-lez-Durance, France
- />Aix Marseille Université, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13284 Marseille, France
- />Research School of Biology College of Medicine, Biology and Environment, Linneaus Building 134, The Australian National University, Canberra, ACT 2601 Australia
| | - Pascaline Auroy
- />CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, 13108 Saint-Paul-lez-Durance, France
- />CNRS, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13108 Saint-Paul-lez-Durance, France
- />Aix Marseille Université, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13284 Marseille, France
| | - Stéphan Cuiné
- />CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, 13108 Saint-Paul-lez-Durance, France
- />CNRS, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13108 Saint-Paul-lez-Durance, France
- />Aix Marseille Université, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13284 Marseille, France
| | - Emmanuelle Billon
- />CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, 13108 Saint-Paul-lez-Durance, France
- />CNRS, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13108 Saint-Paul-lez-Durance, France
- />Aix Marseille Université, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13284 Marseille, France
| | - David Dauvillée
- />UMR8576, CNRS, Université des Sciences et Technologies de Lille, 59655 Villeneuve d’Ascq, France
| | - Yonghua Li-Beisson
- />CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, 13108 Saint-Paul-lez-Durance, France
- />CNRS, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13108 Saint-Paul-lez-Durance, France
- />Aix Marseille Université, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13284 Marseille, France
| | - Gilles Peltier
- />CEA, CNRS, Aix-Marseille Université, Institut de Biosciences et Biotechnologies Aix Marseille, Laboratoire de Bioénergétique et Biotechnologie des Bactéries et Microalgues, CEA Cadarache, 13108 Saint-Paul-lez-Durance, France
- />CNRS, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13108 Saint-Paul-lez-Durance, France
- />Aix Marseille Université, Biologie Végétale et Microbiologie Environnementale, UMR7265, 13284 Marseille, France
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Wang J, Yao L, Li B, Meng Y, Ma X, Lai Y, Si E, Ren P, Yang K, Shang X, Wang H. Comparative Proteomic Analysis of Cultured Suspension Cells of the Halophyte Halogeton glomeratus by iTRAQ Provides Insights into Response Mechanisms to Salt Stress. FRONTIERS IN PLANT SCIENCE 2016; 7:110. [PMID: 26904073 PMCID: PMC4746295 DOI: 10.3389/fpls.2016.00110] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2015] [Accepted: 01/21/2016] [Indexed: 05/23/2023]
Abstract
Soil salinity severely threatens land use capability and crop yields worldwide. An analysis of the molecular mechanisms of salt tolerance in halophytes will contribute to the development of salt-tolerant crops. In this study, a combination of physiological characteristics and iTRAQ-based proteomic approaches was conducted to investigate the molecular mechanisms underlying the salt response of suspension cell cultures of halophytic Halogeton glomeratus. These cells showed halophytic growth responses comparable to those of the whole plant. In total, 97 up-regulated proteins and 192 down-regulated proteins were identified as common to both 200 and 400 mM NaCl concentration treatments. Such salinity responsive proteins were mainly involved in energy, carbohydrate metabolism, stress defense, protein metabolism, signal transduction, cell growth, and cytoskeleton metabolism. Effective regulatory protein expression related to energy, stress defense, and carbohydrate metabolism play important roles in the salt-tolerance of H. glomeratus suspension cell cultures. However, known proteins regulating Na(+) efflux from the cytoplasm and its compartmentalization into the vacuole did not change significantly under salinity stress suggesting our existing knowledge concerning Na(+) extrusion and compartmentalization in halophytes needs to be evaluated further. Such data are discussed in the context of our current understandings of the mechanisms involved in the salinity response of the halophyte, H. glomeratus.
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Affiliation(s)
- Juncheng Wang
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Lirong Yao
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Baochun Li
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Botany, College of Life Science and Technology, Gansu Agricultural UniversityLanzhou, China
| | - Yaxiong Meng
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Xiaole Ma
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Yong Lai
- Department of Agriculture and Forestry, College of Agriculture and Animal Husbandry, Qinghai UniversityXining, China
| | - Erjing Si
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Panrong Ren
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Ke Yang
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Xunwu Shang
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
| | - Huajun Wang
- Gansu Provincial Key Lab of Aridland Crop Science/Gansu Key Lab of Crop Improvement and Germplasm EnhancementLanzhou, China
- Department of Crop Genetics and Breeding, College of Agronomy, Gansu Agricultural UniversityLanzhou, China
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188
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Domingos S, Fino J, Cardoso V, Sánchez C, Ramalho JC, Larcher R, Paulo OS, Oliveira CM, Goulao LF. Shared and divergent pathways for flower abscission are triggered by gibberellic acid and carbon starvation in seedless Vitis vinifera L. BMC PLANT BIOLOGY 2016; 16:38. [PMID: 26832927 PMCID: PMC4736245 DOI: 10.1186/s12870-016-0722-7] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2015] [Accepted: 01/21/2016] [Indexed: 05/03/2023]
Abstract
BACKGROUND Abscission is a highly coordinated developmental process by which plants control vegetative and reproductive organs load. Aiming at get new insights on flower abscission regulation, changes in the global transcriptome, metabolome and physiology were analyzed in 'Thompson Seedless' grapevine (Vitis vinifera L.) inflorescences, using gibberellic acid (GAc) spraying and shading as abscission stimuli, applied at bloom. RESULTS Natural flower drop rates increased from 63.1% in non-treated vines to 83% and 99% in response to GAc and shade treatments, respectively. Both treatments had a broad effect on inflorescences metabolism. Specific impacts from shade included photosynthesis inhibition, associated nutritional stress, carbon/nitrogen imbalance and cell division repression, whereas GAc spraying induced energetic metabolism simultaneously with induction of nucleotide biosynthesis and carbon metabolism, therefore, disclosing alternative mechanisms to regulate abscission. Regarding secondary metabolism, changes in flavonoid metabolism were the most represented metabolic pathways in the samples collected following GAc treatment while phenylpropanoid and stilbenoid related pathways were predominantly affected in the inflorescences by the shade treatment. However, both GAc and shade treated inflorescences revealed also shared pathways, that involved the regulation of putrescine catabolism, the repression of gibberellin biosynthesis, the induction of auxin biosynthesis and the activation of ethylene signaling pathways and antioxidant mechanisms, although often the quantitative changes occurred on specific transcripts and metabolites of the pathways. CONCLUSIONS Globally, the results suggest that chemical and environmental cues induced contrasting effects on inflorescence metabolism, triggering flower abscission by different mechanisms and pinpointing the participation of novel abscission regulators. Grapevine showed to be considered a valid model to study molecular pathways of flower abscission competence acquisition, noticeably responding to independent stimuli.
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Affiliation(s)
- Sara Domingos
- Linking Landscape, Environment, Agriculture and Food (LEAF), Instituto Superior de Agronomia (ISA), Universidade de Lisboa (ULisboa), Lisbon, Portugal.
- Instituto de Investigação Científica Tropical, I.P. (IICT), Lisbon, Portugal.
| | - Joana Fino
- Instituto de Investigação Científica Tropical, I.P. (IICT), Lisbon, Portugal.
- Computational Biology and Population Genomics Group, Centre for Ecology, Evolution and Environmental Changes (cE3c), Faculdade de Ciências, Universidade de Lisboa, Lisbon, Portugal.
| | - Vânia Cardoso
- Instituto de Investigação Científica Tropical, I.P. (IICT), Lisbon, Portugal.
| | - Claudia Sánchez
- Instituto Nacional de Investigação Agrária e Veterinária, I.P. (INIAV), Oeiras, Portugal.
| | - José C Ramalho
- Linking Landscape, Environment, Agriculture and Food (LEAF), Instituto Superior de Agronomia (ISA), Universidade de Lisboa (ULisboa), Lisbon, Portugal.
- Instituto de Investigação Científica Tropical, I.P. (IICT), Lisbon, Portugal.
- GeoBioTec, Faculdade de Ciências e Tecnolgia (FCT), Universidade Nova de Lisboa (UNL), Caparica, Portugal.
| | - Roberto Larcher
- FEM-IASMA, Fondazione Edmund Mach, Istituto Agrario di San Michele all'Adige, San Michele all'Adige, TN, Italy.
| | - Octávio S Paulo
- Computational Biology and Population Genomics Group, Centre for Ecology, Evolution and Environmental Changes (cE3c), Faculdade de Ciências, Universidade de Lisboa, Lisbon, Portugal.
| | - Cristina M Oliveira
- Linking Landscape, Environment, Agriculture and Food (LEAF), Instituto Superior de Agronomia (ISA), Universidade de Lisboa (ULisboa), Lisbon, Portugal.
| | - Luis F Goulao
- Instituto de Investigação Científica Tropical, I.P. (IICT), Lisbon, Portugal.
- Present address: Colégio Food, Farming and Forestry, Universidade de Lisboa (ULisboa), Lisbon, Portugal.
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189
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Dautel R, Wu XN, Heunemann M, Schulze WX, Harter K. The Sensor Histidine Kinases AHK2 and AHK3 Proceed into Multiple Serine/Threonine/Tyrosine Phosphorylation Pathways in Arabidopsis thaliana. MOLECULAR PLANT 2016; 9:182-186. [PMID: 26485051 DOI: 10.1016/j.molp.2015.10.002] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2015] [Revised: 09/03/2015] [Accepted: 10/09/2015] [Indexed: 05/07/2023]
Affiliation(s)
- Rebecca Dautel
- Department of Plant Physiology, Center for Plant Molecular Biology (ZMBP), University of Tübingen, Auf der Morgenstelle 32, 72076 Tübingen, Germany
| | - Xu Na Wu
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany
| | - Michael Heunemann
- Department of Plant Physiology, Center for Plant Molecular Biology (ZMBP), University of Tübingen, Auf der Morgenstelle 32, 72076 Tübingen, Germany
| | - Waltraud X Schulze
- Department of Plant Systems Biology, University of Hohenheim, 70593 Stuttgart, Germany
| | - Klaus Harter
- Department of Plant Physiology, Center for Plant Molecular Biology (ZMBP), University of Tübingen, Auf der Morgenstelle 32, 72076 Tübingen, Germany.
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190
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Crozet P, Margalha L, Butowt R, Fernandes N, Elias CA, Orosa B, Tomanov K, Teige M, Bachmair A, Sadanandom A, Baena-González E. SUMOylation represses SnRK1 signaling in Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2016; 85:120-133. [PMID: 26662259 PMCID: PMC4817235 DOI: 10.1111/tpj.13096] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2015] [Revised: 11/12/2015] [Accepted: 11/24/2015] [Indexed: 05/10/2023]
Abstract
The SnRK1 protein kinase balances cellular energy levels in accordance with extracellular conditions and is thereby key for plant stress tolerance. In addition, SnRK1 has been implicated in numerous growth and developmental processes from seed filling and maturation to flowering and senescence. Despite its importance, the mechanisms that regulate SnRK1 activity are poorly understood. Here, we demonstrate that the SnRK1 complex is SUMOylated on multiple subunits and identify SIZ1 as the E3 Small Ubiquitin-like Modifier (SUMO) ligase responsible for this modification. We further show that SnRK1 is ubiquitinated in a SIZ1-dependent manner, causing its degradation through the proteasome. In consequence, SnRK1 degradation is deficient in siz1-2 mutants, leading to its accumulation and hyperactivation of SnRK1 signaling. Finally, SnRK1 degradation is strictly dependent on its activity, as inactive SnRK1 variants are aberrantly stable but recover normal degradation when expressed as SUMO mimetics. Altogether, our data suggest that active SnRK1 triggers its own SUMOylation and degradation, establishing a negative feedback loop that attenuates SnRK1 signaling and prevents detrimental hyperactivation of stress responses.
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Affiliation(s)
- Pierre Crozet
- Rua da Quinta Grande 6, Instituto Gulbenkian de Ciência, Oeiras 2780-156, Portugal
| | - Leonor Margalha
- Rua da Quinta Grande 6, Instituto Gulbenkian de Ciência, Oeiras 2780-156, Portugal
| | - Rafal Butowt
- Rua da Quinta Grande 6, Instituto Gulbenkian de Ciência, Oeiras 2780-156, Portugal
| | - Noémia Fernandes
- Rua da Quinta Grande 6, Instituto Gulbenkian de Ciência, Oeiras 2780-156, Portugal
| | - Carlos A. Elias
- Rua da Quinta Grande 6, Instituto Gulbenkian de Ciência, Oeiras 2780-156, Portugal
| | - Beatriz Orosa
- School of Biological and Biomedical Sciences, University of Durham, Durham, UK
| | - Konstantin Tomanov
- Department of Biochemistry and Cell Biology, Max F. Perutz Laboratories, Vienna BioCenter, University of Vienna, Vienna A-1030, Austria
| | - Markus Teige
- Department of Ecogenomics and Systems Biology, University of Vienna, Althanstr. 14, Vienna A-1090, Austria
| | - Andreas Bachmair
- Department of Biochemistry and Cell Biology, Max F. Perutz Laboratories, Vienna BioCenter, University of Vienna, Vienna A-1030, Austria
| | - Ari Sadanandom
- School of Biological and Biomedical Sciences, University of Durham, Durham, UK
| | - Elena Baena-González
- Rua da Quinta Grande 6, Instituto Gulbenkian de Ciência, Oeiras 2780-156, Portugal
- For correspondence ()
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191
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Plant SnRK1 Kinases: Structure, Regulation, and Function. EXPERIENTIA SUPPLEMENTUM 2016; 107:403-438. [DOI: 10.1007/978-3-319-43589-3_17] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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192
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Sun CX, Li MQ, Gao XX, Liu LN, Wu XF, Zhou JH. Metabolic response of maize plants to multi-factorial abiotic stresses. PLANT BIOLOGY (STUTTGART, GERMANY) 2016; 18 Suppl 1:120-9. [PMID: 25622534 DOI: 10.1111/plb.12305] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2014] [Accepted: 01/08/2015] [Indexed: 05/09/2023]
Abstract
Clarification of the metabolic mechanisms underlying multi-stress responses in plants will allow further optimisation of crop breeding and cultivation to obtain high yields in an increasingly variable environment. Using NMR metabolomic techniques, we examined the metabolic responses of maize plants grown under different conditions: soil drought, soil salinity, heat and multiple concurrent stresses. A detailed time-course metabolic profile was also performed on maize plants sampled 1, 3 and 7 days after initiation of soil drought and heat stress. The metabolic profile of maize plants subjected to soil drought was more similar to plants exposed to salt stress than to heat-stressed plants. Drought-stressed maize plants subjected to salt or heat stress showed distinct integrated metabolic profiles compared with those exposed to either stressor individually. These differences show the considerable metabolic plasticity of maize in response to different growth conditions. Moreover, glucose, fructose, malate, citrate, proline, alanine, aspartate, asparagine, threonine and one unknown compound fluctuated obviously between maize plants grown in controlled growth cabinet and a natural regime. These changes were associated with the TCA cycle and core nitrogen metabolism, and could be related to their multiple functions during plant growth. The evident stress-induced trajectory of metabolic changes in maize indicated that the primary metabolic responses to soil drought, heat and combined drought and heat stresses occurred in a time-dependent manner. Plasticity at the metabolic level may allow maize plants to acclimatise their metabolic ranges in response to changing environmental conditions.
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Affiliation(s)
- C X Sun
- College of Life and Health Sciences, Northeastern University, Shenyang, China
| | - M Q Li
- College of Life and Health Sciences, Northeastern University, Shenyang, China
| | - X X Gao
- College of Life and Health Sciences, Northeastern University, Shenyang, China
| | - L N Liu
- College of Life and Health Sciences, Northeastern University, Shenyang, China
| | - X F Wu
- College of Life and Health Sciences, Northeastern University, Shenyang, China
| | - J H Zhou
- College of Life and Health Sciences, Northeastern University, Shenyang, China
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193
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Regulation of Leaf Traits in Canopy Gradients. CANOPY PHOTOSYNTHESIS: FROM BASICS TO APPLICATIONS 2016. [DOI: 10.1007/978-94-017-7291-4_5] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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194
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Hura K, Hura T, Rapacz M, Płażek A. Effects of low-temperature hardening on the biochemical response of winter oilseed rape seedlings inoculated with the spores of Leptosphaeria maculans. Biologia (Bratisl) 2015. [DOI: 10.1515/biolog-2015-0129] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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195
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Serra AA, Couée I, Heijnen D, Michon-Coudouel S, Sulmon C, Gouesbet G. Genome-Wide Transcriptional Profiling and Metabolic Analysis Uncover Multiple Molecular Responses of the Grass Species Lolium perenne Under Low-Intensity Xenobiotic Stress. FRONTIERS IN PLANT SCIENCE 2015; 6:1124. [PMID: 26734031 PMCID: PMC4681785 DOI: 10.3389/fpls.2015.01124] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2015] [Accepted: 11/27/2015] [Indexed: 05/26/2023]
Abstract
Lolium perenne, which is a major component of pastures, lawns, and grass strips, can be exposed to xenobiotic stresses due to diffuse and residual contaminations of soil. L. perenne was recently shown to undergo metabolic adjustments in response to sub-toxic levels of xenobiotics. To gain insight in such chemical stress responses, a de novo transcriptome analysis was carried out on leaves from plants subjected at the root level to low levels of xenobiotics, glyphosate, tebuconazole, and a combination of the two, leading to no adverse physiological effect. Chemical treatments influenced significantly the relative proportions of functional categories and of transcripts related to carbohydrate processes, to signaling, to protein-kinase cascades, such as Serine/Threonine-protein kinases, to transcriptional regulations, to responses to abiotic or biotic stimuli and to responses to phytohormones. Transcriptomics-based expressions of genes encoding different types of SNF1 (sucrose non-fermenting 1)-related kinases involved in sugar and stress signaling or encoding key metabolic enzymes were in line with specific qRT-PCR analysis or with the important metabolic and regulatory changes revealed by metabolomic analysis. The effects of pesticide treatments on metabolites and gene expression strongly suggest that pesticides at low levels, as single molecule or as mixture, affect cell signaling and functioning even in the absence of major physiological impact. This global analysis of L. perenne therefore highlighted the interactions between molecular regulation of responses to xenobiotics, and also carbohydrate dynamics, energy dysfunction, phytohormones and calcium signaling.
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Affiliation(s)
- Anne-Antonella Serra
- Centre National de la Recherche Scientifique, Université de Rennes 1, UMR 6553 ECOBIORennes, France
| | - Ivan Couée
- Centre National de la Recherche Scientifique, Université de Rennes 1, UMR 6553 ECOBIORennes, France
| | - David Heijnen
- Centre National de la Recherche Scientifique, Université de Rennes 1, UMR 6553 ECOBIORennes, France
| | - Sophie Michon-Coudouel
- Centre National de la Recherche Scientifique, Université de Rennes 1, UMS 3343 OSURRennes, France
| | - Cécile Sulmon
- Centre National de la Recherche Scientifique, Université de Rennes 1, UMR 6553 ECOBIORennes, France
| | - Gwenola Gouesbet
- Centre National de la Recherche Scientifique, Université de Rennes 1, UMR 6553 ECOBIORennes, France
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196
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Yu SM, Lo SF, Ho THD. Source-Sink Communication: Regulated by Hormone, Nutrient, and Stress Cross-Signaling. TRENDS IN PLANT SCIENCE 2015; 20:844-857. [PMID: 26603980 DOI: 10.1016/j.tplants.2015.10.009] [Citation(s) in RCA: 153] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2015] [Revised: 09/30/2015] [Accepted: 10/14/2015] [Indexed: 05/19/2023]
Abstract
Communication between source organs (exporters of photoassimilates) and sink organs (importers of fixed carbon) has a pivotal role in carbohydrate assimilation and partitioning during plant growth and development. Plant productivity is enhanced by sink strength and source activity, which are regulated by a complex signaling network encompassing sugars, hormones, and environmental factors. However, key components underlying the signaling pathways that regulate source-sink communication are only now beginning to be discovered. Here, we discuss recent advances in our understanding of the molecular mechanisms regulating sugar mobilization during seed development and seedling establishment in cereals, which provide the majority of nutrition for humans. Insights into these mechanisms may provide strategies for improving crop productivity.
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Affiliation(s)
- Su-May Yu
- Institute of Molecular Biology, Academia Sinica, Nankang, Taipei 115, Taiwan, ROC; Agricultural Biotechnology Center, National Chung Hsing University, Taichung 402, Taiwan, ROC; Department of Life Sciences, National Chung Hsing University, Taichung 402, Taiwan, ROC.
| | - Shuen-Fang Lo
- Institute of Molecular Biology, Academia Sinica, Nankang, Taipei 115, Taiwan, ROC; Agricultural Biotechnology Center, National Chung Hsing University, Taichung 402, Taiwan, ROC
| | - Tuan-Hua David Ho
- Agricultural Biotechnology Center, National Chung Hsing University, Taichung 402, Taiwan, ROC; Department of Life Sciences, National Chung Hsing University, Taichung 402, Taiwan, ROC; Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei 115, Taiwan, ROC
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197
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Sparvoli F, Cominelli E. Seed Biofortification and Phytic Acid Reduction: A Conflict of Interest for the Plant? PLANTS 2015; 4:728-55. [PMID: 27135349 PMCID: PMC4844270 DOI: 10.3390/plants4040728] [Citation(s) in RCA: 69] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/03/2015] [Accepted: 11/13/2015] [Indexed: 02/03/2023]
Abstract
Most of the phosphorus in seeds is accumulated in the form of phytic acid (myo-inositol-1,2,3,4,5,6-hexakisphosphate, InsP6). This molecule is a strong chelator of cations important for nutrition, such as iron, zinc, magnesium, and calcium. For this reason, InsP6 is considered an antinutritional factor. In recent years, efforts to biofortify seeds through the generation of low phytic acid (lpa) mutants have been noteworthy. Moreover, genes involved in the biosynthesis and accumulation of this molecule have been isolated and characterized in different species. Beyond its role in phosphorus storage, phytic acid is a very important signaling molecule involved in different regulatory processes during plant development and responses to different stimuli. Consequently, many lpa mutants show different negative pleitotropic effects. The strength of these pleiotropic effects depends on the specific mutated gene, possible functional redundancy, the nature of the mutation, and the spatio-temporal expression of the gene. Breeding programs or transgenic approaches aimed at development of new lpa mutants must take into consideration these different aspects in order to maximize the utility of these mutants.
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Affiliation(s)
- Francesca Sparvoli
- Institute of Agricultural Biology and Biotechnology, CNR, Via Bassini 15, 20133 Milan, Italy.
| | - Eleonora Cominelli
- Institute of Agricultural Biology and Biotechnology, CNR, Via Bassini 15, 20133 Milan, Italy.
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198
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Yamasaki S, Matsuura H, Demura T, Kato K. Changes in Polysome Association of mRNA Throughout Growth and Development in Arabidopsis thaliana. PLANT & CELL PHYSIOLOGY 2015; 56:2169-80. [PMID: 26412777 DOI: 10.1093/pcp/pcv133] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2015] [Accepted: 09/15/2015] [Indexed: 05/15/2023]
Abstract
Translational control is a key regulatory step in the expression of genes as proteins. In plant cells, the translational efficiency of mRNAs differs for different mRNA species, and the efficiency dynamically changes in various conditions. To gain a global view of translational control throughout growth and development, we performed genome-wide analysis of polysome association of mRNA during growth and leaf development in Arabidopsis thaliana by subjecting the mRNAs in polysomes to DNA microarray. This analysis revealed that the degree of polysome association of mRNA was different depending on the mRNA species, and the polysome association changed greatly throughout growth and development for each. In the growth stage, transcripts showed varying changes in polysome association from strongly depressed to unchanged, with the majority of transcripts showing dissociation from ribosomes. On the other hand, during leaf development, the polysome association of transcripts showed a normal distribution from repressed to activated mRNAs when comparing expanding and expanded leaves. In addition, functional category analysis of the microarray data suggested that translational control has a physiological significance in the plant growth and development process, especially in the categories of signaling and protein synthesis. In addition to this, we compared changes in polysome association of mRNAs between various conditions and characterized translational controls in each. This result suggested that mRNA translation might be controlled by complicated mechanisms for response to each condition. Our results highlight the importance of dynamic changes in mRNA translation in plant development and growth.
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Affiliation(s)
- Shotaro Yamasaki
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0192 Japan
| | - Hideyuki Matsuura
- Graduate School of Pharmaceutical Sciences, Osaka University, 1-6 Yamadaoka, Suita, Osaka, 565-0871 Japan
| | - Taku Demura
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0192 Japan
| | - Ko Kato
- Graduate School of Biological Sciences, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0192 Japan
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Ye J, Zhang Z, Long H, Zhang Z, Hong Y, Zhang X, You C, Liang W, Ma H, Lu P. Proteomic and phosphoproteomic analyses reveal extensive phosphorylation of regulatory proteins in developing rice anthers. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2015; 84:527-44. [PMID: 26360816 DOI: 10.1111/tpj.13019] [Citation(s) in RCA: 49] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2015] [Revised: 08/25/2015] [Accepted: 08/26/2015] [Indexed: 05/18/2023]
Abstract
Anther development, particularly around the time of meiosis, is extremely crucial for plant sexual reproduction. Meanwhile, cell-to-cell communication between somatic (especial tapetum) cells and meiocytes are important for both somatic anther development and meiosis. To investigate possible molecular mechanisms modulating protein activities during anther development, we applied high-resolution mass spectrometry-based proteomic and phosphoproteomic analyses for developing rice (Oryza sativa) anthers around the time of meiosis (RAM). In total, we identified 4984 proteins and 3203 phosphoproteins with 8973 unique phosphorylation sites (p-sites). Among those detected here, 1544 phosphoproteins are currently absent in the Plant Protein Phosphorylation DataBase (P3 DB), substantially enriching plant phosphorylation information. Mapman enrichment analysis showed that 'DNA repair','transcription regulation' and 'signaling' related proteins were overrepresented in the phosphorylated proteins. Ten genetically identified rice meiotic proteins were detected to be phosphorylated at a total of 25 p-sites; moreover more than 400 meiotically expressed proteins were revealed to be phosphorylated and their phosphorylation sites were precisely assigned. 163 putative secretory proteins, possibly functioning in cell-to-cell communication, are also phosphorylated. Furthermore, we showed that DNA synthesis, RNA splicing and RNA-directed DNA methylation pathways are extensively affected by phosphorylation. In addition, our data support 46 kinase-substrate pairs predicted by the rice Kinase-Protein Interaction Map, with SnRK1 substrates highly enriched. Taken together, our data revealed extensive protein phosphorylation during anther development, suggesting an important post-translational modification affecting protein activity.
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Affiliation(s)
- Juanying Ye
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Zaibao Zhang
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Haifei Long
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Zhimin Zhang
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Yue Hong
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Xumin Zhang
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Chenjiang You
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Wanqi Liang
- State Key Laboratory of Hybrid Rice, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, 200240, China
| | - Hong Ma
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
| | - Pingli Lu
- State Key Laboratory of Genetic Engineering and Collaborative Innovation Center of Genetics and Development, Institute of Plant Biology, School of Life Sciences, Fudan University, Shanghai, 200433, China
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Abstract
Although the eukaryotic TOR (target of rapamycin) kinase signalling pathway has emerged as a key player for integrating nutrient-, energy- and stress-related cues with growth and metabolic outputs, relatively little is known of how this ancient regulatory mechanism has been adapted in higher plants. Drawing comparisons with the substantial knowledge base around TOR kinase signalling in fungal and animal systems, functional aspects of this pathway in plants are reviewed. Both conserved and divergent elements are discussed in relation to unique aspects associated with an autotrophic mode of nutrition and adaptive strategies for multicellular development exhibited by plants.
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