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Devi J, Sagar V, Mishra GP, Jha PK, Gupta N, Dubey RK, Singh PM, Behera TK, Prasad PVV. Heat stress tolerance in peas ( Pisum sativum L.): Current status and way forward. FRONTIERS IN PLANT SCIENCE 2023; 13:1108276. [PMID: 36733601 PMCID: PMC9887200 DOI: 10.3389/fpls.2022.1108276] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/25/2022] [Accepted: 12/28/2022] [Indexed: 06/18/2023]
Abstract
In the era of climate change, the overall productivity of pea (Pisum sativum L.) is being threatened by several abiotic stresses including heat stress (HS). HS causes severe yield losses by adversely affecting several traits in peas. A reduction in pod yield has been reported from 11.1% to 17.5% when mean daily temperature increase from 1.4 to 2.2°C. High-temperature stress (30.5-33°C) especially during reproductive phase is known to drastically reduce both seed yield and germination. HS during germination and early vegetative stage resulted in poor emergence and stunted plant growth along with detrimental effects on physiological functions of the pea plant. To combat HS and continue its life cycle, plants use various defense strategies including heat escape, avoidance or tolerance mechanisms. Ironically, the threshold temperatures for pea plant and its responses are inconsistent and not yet clearly identified. Trait discovery through traditional breeding such as semi leaflessness (afila), upright growing habit, lodging tolerance, lower canopy temperature and small seeded nature has highlighted their utility for greater adaptation under HS in pea. Screening of crop gene pool and landraces for HS tolerance in a targeted environment is a simple approach to identify HS tolerant genotypes. Thus, precise phenotyping using modern phenomics tools could lead to increased breeding efficiency. The NGS (next generation sequencing) data can be associated to find the candidate genes responsible for the HS tolerance in pea. In addition, genomic selection, genome wide association studies (GWAS) and marker assisted selection (MAS) can be used for the development of HS tolerant pea genotypes. Additionally, development of transgenics could be an alternative strategy for the development of HS tolerant pea genotypes. This review comprehensively covers the various aspects of HS tolerance mechanisms in the pea plant, screening protocols, omic advances, and future challenges for the development of HS tolerant genotypes.
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Affiliation(s)
- Jyoti Devi
- Indian Council of Agricultural Research-Indian Institute of Vegetable Research, Jakhini, Varanasi, India
| | - Vidya Sagar
- Indian Council of Agricultural Research-Indian Institute of Vegetable Research, Jakhini, Varanasi, India
| | - Gyan P. Mishra
- Indian Council of Agricultural Research-Indian Agricultural Research Institute, Pusa, New Delhi, India
| | - Prakash Kumar Jha
- Feed the Future Innovation Lab for Collaborative Research on Sustainable Intensification, Kansas State University, Manhattan, KS, United States
| | - Nakul Gupta
- Indian Council of Agricultural Research-Indian Institute of Vegetable Research, Jakhini, Varanasi, India
| | - Rakesh K. Dubey
- Indian Council of Agricultural Research-Indian Institute of Vegetable Research, Jakhini, Varanasi, India
| | - Prabhakar M. Singh
- Indian Council of Agricultural Research-Indian Institute of Vegetable Research, Jakhini, Varanasi, India
| | - Tusar K. Behera
- Indian Council of Agricultural Research-Indian Institute of Vegetable Research, Jakhini, Varanasi, India
| | - P. V. Vara Prasad
- Feed the Future Innovation Lab for Collaborative Research on Sustainable Intensification, Kansas State University, Manhattan, KS, United States
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
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Kumar S, Singh VP, Saini DK, Sharma H, Saripalli G, Kumar S, Balyan HS, Gupta PK. Meta-QTLs, ortho-MQTLs, and candidate genes for thermotolerance in wheat ( Triticum aestivum L.). MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2021; 41:69. [PMID: 37309361 PMCID: PMC10236124 DOI: 10.1007/s11032-021-01264-7] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Accepted: 11/04/2021] [Indexed: 06/14/2023]
Abstract
Meta-QTL analysis for thermotolerance in wheat was conducted to identify robust meta-QTLs (MQTLs). In this study, 441 QTLs related to 31 heat-responsive traits were projected on the consensus map with 50,310 markers. This exercise resulted in the identification of 85 MQTLs with confidence interval (CI) ranging from 0.11 to 34.9 cM with an average of 5.6 cM. This amounted to a 2.96-fold reduction relative to the mean CI (16.5 cM) of the QTLs used. Seventy-seven (77) of these MQTLs were also compared and verified with the results of recent genome-wide association studies (GWAS). The 85 MQTLs included seven MQTLs that are particularly useful for breeding purposes (we called them breeders' MQTLs). Seven ortho-MQTLs between wheat and rice genomes were also identified using synteny and collinearity. The MQTLs were used for the identification of 1,704 candidate genes (CGs). In silico expression analysis of these CGs permitted identification of 182 differentially expressed genes (DEGs), which included 36 high confidence CGs with known functions previously reported to be important for thermotolerance. These high confidence CGs encoded proteins belonging to the following families: protein kinase, WD40 repeat, glycosyltransferase, ribosomal protein, SNARE associated Golgi protein, GDSL lipase/esterase, SANT/Myb domain, K homology domain, etc. Thus, the present study resulted in the identification of MQTLs (including breeders' MQTLs), ortho-MQTLs, and underlying CGs, which could prove useful not only for molecular breeding for the development of thermotolerant wheat cultivars but also for future studies focused on understanding the molecular basis of thermotolerance. Supplementary Information The online version contains supplementary material available at 10.1007/s11032-021-01264-7.
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Affiliation(s)
- Sourabh Kumar
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, UP India
| | - Vivudh Pratap Singh
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, UP India
| | - Dinesh Kumar Saini
- Department of Plant Breeding and Genetics, Punjab Agricultural University, Ludhiana, Punjab India
| | - Hemant Sharma
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, UP India
| | - Gautam Saripalli
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, UP India
| | - Sachin Kumar
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, UP India
| | - Harindra Singh Balyan
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, UP India
| | - Pushpendra Kumar Gupta
- Department of Genetics and Plant Breeding, Chaudhary Charan Singh University, Meerut, UP India
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Zhang M, Xu J, Ren R, Liu G, Yao X, Lou L, Xu J, Yang X. Proteomic Analysis of Fusarium oxysporum-Induced Mechanism in Grafted Watermelon Seedlings. FRONTIERS IN PLANT SCIENCE 2021; 12:632758. [PMID: 33747013 PMCID: PMC7969889 DOI: 10.3389/fpls.2021.632758] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/24/2020] [Accepted: 01/11/2021] [Indexed: 06/12/2023]
Abstract
Grafting can improve the resistance of watermelon to soil-borne diseases. However, the molecular mechanism of defense response is not completely understood. Herein, we used a proteomic approach to investigate the molecular basis involved in grafted watermelon leaf defense against Fusarium oxysporum f.sp. niveum (FON) infection. The bottle gourd rootstock-grafted (RG) watermelon seedlings were highly resistant to FON compared with self-grafted (SG) watermelon plants, with a disease incidence of 3.4 and 89%, respectively. Meanwhile, grafting significantly induced the activity of pathogenesis-related proteases under FON challenge. Proteins extracted from leaves of RG and SG under FON inoculation were analyzed using two-dimensional gel electrophoresis. Thirty-nine differentially accumulated proteins (DAPs) were identified and classified into 10 functional groups. Accordingly, protein biosynthetic and stress- and defense-related proteins play crucial roles in the enhancement of disease resistance of RG watermelon seedlings, compared with that of SG watermelon seedlings. Proteins involved in signal transduction positively regulated the defense process. Carbohydrate and energy metabolism and photosystem contributed to energy production in RG watermelon seedlings under FON infection. The disease resistance of RG watermelon seedlings may also be related to the improved scavenging capacity of reactive oxygen species (ROS). The expression profile of 10 randomly selected proteins was measured using quantitative real-time PCR, among which, 7 was consistent with the results of the proteomic analysis. The functional implications of these proteins in regulating grafted watermelon response against F. oxysporum are discussed.
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Affiliation(s)
- Man Zhang
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
- School of Life Sciences, Jiangsu University, Zhenjiang, China
| | - Jinhua Xu
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Runsheng Ren
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
- School of Life Sciences, Jiangsu University, Zhenjiang, China
| | - Guang Liu
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Xiefeng Yao
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Lina Lou
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Jian Xu
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
| | - Xingping Yang
- Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement/Institute of Vegetable Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China
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Infrared spectroscopy as a tool to monitor interactions between nanoplastics and microalgae. Anal Bioanal Chem 2020; 412:4413-4422. [DOI: 10.1007/s00216-020-02683-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2020] [Revised: 04/16/2020] [Accepted: 04/24/2020] [Indexed: 12/31/2022]
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Gayen D, Gayali S, Barua P, Lande NV, Varshney S, Sengupta S, Chakraborty S, Chakraborty N. Dehydration-induced proteomic landscape of mitochondria in chickpea reveals large-scale coordination of key biological processes. J Proteomics 2019; 192:267-279. [PMID: 30243939 DOI: 10.1016/j.jprot.2018.09.008] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2018] [Revised: 08/09/2018] [Accepted: 09/11/2018] [Indexed: 12/28/2022]
Abstract
Mitochondria play crucial roles in regulating multiple biological processes particularly electron transfer and energy metabolism in eukaryotic cells. Exposure to water-deficit or dehydration may affect mitochondrial function, and dehydration response may dictate cell fate decisions. iTRAQ-based quantitative proteome of a winter legume, chickpea, demonstrated the central metabolic alterations in mitochondria, presumably involved in dehydration adaptation. Three-week-old chickpea seedlings were subjected to progressive dehydration and the magnitude of dehydration-induced compensatory physiological responses was monitored in terms of physicochemical characteristics and mitochondrial architecture. The proteomics analysis led to the identification of 40 dehydration-responsive proteins whose expressions were significantly modulated by dehydration. The differentially expressed proteins were implicated in different metabolic processes, with obvious functional tendencies toward purine-thiamine metabolic network, pathways of carbon fixation and oxidative phosphorylation. The linearity of dehydration-induced proteome alteration was examined with transcript abundance of randomly selected candidates under multivariate stress conditions. The differentially regulated proteins were validated through sequence analysis. An extensive sequence based localization prediction revealed >62.5% proteins to be mitochondrial resident by, at least, one prediction algorithm. The results altogether provide intriguing insights into the dehydration-responsive metabolic pathways and useful clues to identify crucial proteins linked to stress tolerance. BIOLOGICAL SIGNIFICANCE: Investigation on plant mitochondrial proteome is of significance because it would allow a better understanding of mitochondrial function in plant adaptation to stress. Mitochondria are the unique organelles, which play a crucial role in energy metabolism and cellular homeostasis, particularly when exposed to stress conditions. Chickpea is one of the cultivated winter legumes, which enriches soil nitrogen and has very low water footprint and thus contributes to fortification of sustainable agriculture. We therefore examined the dehydration-responsive mitochondrial proteome landscape of chickpea and queried whether molecular interplay of mitochondrial proteins modulate dehydration tolerance. A total of 40 dehydration-induced mitochondrial proteins were identified, predicted to be involved in key metabolic processes. Our future efforts would focus on understanding both posttranslational modification and processing for comprehensive characterization of mitochondrial protein function. This approach will facilitate mining of more biomarkers linked to the tolerance trait and contribute to crop adaptation to climate change.
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Affiliation(s)
- Dipak Gayen
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna, Asaf Ali Marg, New Delhi, India
| | - Saurabh Gayali
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna, Asaf Ali Marg, New Delhi, India
| | - Pragya Barua
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna, Asaf Ali Marg, New Delhi, India
| | - Nilesh Vikram Lande
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna, Asaf Ali Marg, New Delhi, India
| | - Swati Varshney
- CSIR-Institute of Genomics and Integrative Biology, Mathura Road, New Delhi, India
| | - Shantanu Sengupta
- CSIR-Institute of Genomics and Integrative Biology, Mathura Road, New Delhi, India
| | - Subhra Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna, Asaf Ali Marg, New Delhi, India
| | - Niranjan Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna, Asaf Ali Marg, New Delhi, India.
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Wang Z, Ge JQ, Chen H, Cheng X, Yang Y, Li J, Whitworth RJ, Chen MS. An insect nucleoside diphosphate kinase (NDK) functions as an effector protein in wheat - Hessian fly interactions. INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY 2018; 100:30-38. [PMID: 29913225 DOI: 10.1016/j.ibmb.2018.06.003] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2018] [Revised: 06/05/2018] [Accepted: 06/13/2018] [Indexed: 05/08/2023]
Abstract
Like pathogens, galling insects deliver effectors into plant tissues that induce gall formation. The gall midge Mayetiola destructor, also called Hessian fly, can convert a whole wheat seedling into a gall by inducing the formation of nutritive cells at the feeding site, inhibiting wheat growth, and reprogramming metabolic pathways of the attacked plants. Here we demonstrated the identification of a secreted Hessian fly protein, the nucleoside diphosphate kinase (NDK), in infested wheat plants through liquid chromatography-tandem mass spectrometry (LC-MS/MS) and western blots. In association with the NDK presence, enzymatic activity of NDK increased significantly in wheat tissues at the feeding site. In addition, there was a sudden increase in ATP abundance at the feeding site of infested susceptible wheat seedlings 24 h following Hessian fly larval infestation. Even though a direct link between cause and effect remains to be established, our data points to the direction that Hessian fly larvae injected NDK into wheat tissues as an effector protein, which plays a role in manipulating host plants and converting the plants into galls.
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Affiliation(s)
- Zhuhong Wang
- College of Plant Protection, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China
| | - Jun-Qing Ge
- Institute of Biotechnology, Fujian Academy of Agricultural Sciences, Fuzhou, Fujian, 350003, China
| | - Hang Chen
- Research Institute of Resource Insect, Chinese Academy of Forestry, Kunming, 650224, China
| | - Xiaoyan Cheng
- Department of Entomology, Kansas State University, Manhattan, KS, 66506, USA
| | - Yiqun Yang
- Department of Chemistry, Kansas State University, Manhattan, KS, 66506, USA
| | - Jun Li
- Department of Chemistry, Kansas State University, Manhattan, KS, 66506, USA
| | - R Jeff Whitworth
- Department of Entomology, Kansas State University, Manhattan, KS, 66506, USA
| | - Ming-Shun Chen
- Department of Entomology, Kansas State University, Manhattan, KS, 66506, USA; Hard Winter Wheat Genetics Research Unit, USDA-ARS, Manhattan, KS, 66506, USA.
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Zhang J, Movahedi A, Sang M, Wei Z, Xu J, Wang X, Wu X, Wang M, Yin T, Zhuge Q. Functional analyses of NDPK2 in Populus trichocarpa and overexpression of PtNDPK2 enhances growth and tolerance to abiotic stresses in transgenic poplar. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2017; 117:61-74. [PMID: 28587994 DOI: 10.1016/j.plaphy.2017.05.019] [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] [Received: 03/06/2017] [Revised: 05/27/2017] [Accepted: 05/29/2017] [Indexed: 05/04/2023]
Abstract
Nucleoside diphosphate kinases (NDPKs) are multifunctional proteins that regulate a variety of eukaryotic cellular activities, including cell proliferation, development, and differentiation. NDPK2 regulates the expression of antioxidant genes in plants. In a previous study, the Arabidopsis thaliana NDPK2 gene (AtNDPK2) was found to be associated with H2O2-mediated mitogen-activated protein kinase signaling in Arabidopsis thaliana. Proteins from transgenic plants overexpressing AtNDPK2 showed higher levels of autophosphorylation and NDPK activity and lower levels of reactive oxygen species (ROS) than those of wild-type (WT) plants. Therefore, constitutive overexpression of AtNDPK2 in Arabidopsis plants conferred enhanced tolerance to multiple environmental stresses that elicit ROS accumulation in situ. In this study, we cloned the Populus trichocarpa NDPK2 gene and analyzed its molecular structure and function. We generated and evaluated transgenic poplar plants expressing the PtNDPK2 gene under the control of the 35S promoter to achieve enhanced tolerance to various abiotic stresses. Transgenic poplar plants showed enhanced tolerance to salt and drought stress at the whole-plant level. The transgenic poplar plants showed significantly greater tolerance to 200 mM NaCl and drought stresses than WT poplar plants. In addition, the transgenic plants exhibited better growth due to increased expression of auxin-related indole acetic acid genes under normal growth conditions compared with WT plants. Our results suggest that induction of PtNDPK2 overexpression in poplars will be useful for increasing biomass production in the presence of various abiotic stresses.
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Affiliation(s)
- Jiaxin Zhang
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Ali Movahedi
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Ming Sang
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Zhiheng Wei
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Junjie Xu
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Xiaoli Wang
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Xiaolong Wu
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Mengyang Wang
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Tongming Yin
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China
| | - Qiang Zhuge
- Co-Innovation Center for Sustainable Forestry in Southern China, Key Laboratory of Forest Genetics & Biotechnology, Ministry of Education, Nanjing Forestry University, Nanjing 210037, China.
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Hetmann A, Wujak M, Kowalczyk S. Protein Transphosphorylation During the Mutual Interaction between Phytochrome A and a Nuclear Isoform of Nucleoside Diphosphate Kinase Is Regulated by Red Light. BIOCHEMISTRY (MOSCOW) 2017; 81:1153-1162. [PMID: 27908239 DOI: 10.1134/s0006297916100126] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
The nuclear isoform of nucleoside diphosphate kinase isoenzyme NDPK-In undergoes strong catalytic activation upon its interaction with the active form of phytochrome A (Pfr) in red light. The autophosphorylation or intermolecular transphosphorylation of NDPK-In leads to the formation of phosphoester bonds stable in acidic solution. The phosphate residue of the phosphamide bond in the active center of NDPK-In can also be transferred to serine and threonine residues localized in other proteins, including phytochrome A. Phytochrome A, similarly to NDPK-In, undergoes autophosphorylation on serine and threonine residues and can phosphorylate some potential substrate proteins. The physical interaction between phytochrome A in the Pfr form and NDPK-In results in a significant increase in the kinase activity of NDPK-In. The results presented in this work indicate that NDPK-In may function as a protein kinase regulated by light.
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Affiliation(s)
- A Hetmann
- Nicolaus Copernicus University, Faculty of Biology and Environment Protection, Department of Biochemistry, Toruń 87-100, Poland.
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Opalińska M, Parys K, Murcha MW, Jańska H. Plant i - AAA protease controls the turnover of the essential mitochondrial protein import component. J Cell Sci 2017; 131:jcs.200733. [DOI: 10.1242/jcs.200733] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2016] [Accepted: 03/01/2017] [Indexed: 12/21/2022] Open
Abstract
Mitochondria are multifunctional organelles that play a central role in energy metabolism. Due to life-essential functions of these organelles, mitochondrial content, quality, and dynamics are tightly controlled. Across the species, highly conserved ATP - dependent proteases prevent malfunction of mitochondria through versatile activities. This study focuses on a molecular function of plant mitochondrial inner membrane-embedded i – AAA protease, FTSH4, providing its first bona fide substrate. Here, we report that the abundance of Tim17-2 protein, the essential component of the TIM17:23 translocase, is directly controlled by the proteolytic activity of FTSH4. Plants that are lacking functional FTSH4 protease are characterized by significantly enhanced capacity of preprotein import through the TIM17:23 - dependent pathway. Together with the observation that FTSH4 prevents accumulation of Tim17-2, our data points towards the role of this i - AAA protease in the regulation of mitochondrial biogenesis in plants.
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Affiliation(s)
- Magdalena Opalińska
- Faculty of Biotechnology, University of Wroclaw, F. Joliot-Curie 14A, 50-383 Wroclaw, Poland
| | - Katarzyna Parys
- Faculty of Biotechnology, University of Wroclaw, F. Joliot-Curie 14A, 50-383 Wroclaw, Poland
- Present address: Gregor Mendel Institute, Austrian Academy of Sciences, Vienna Biocenter, A-1030 Vienna, Austria
| | - Monika W. Murcha
- Australian Research Council Centre of Excellence in Plant Energy Biology, University of Western Australia, 35 Stirling Highway, Crawley, 6009, Western Australia
- School of Molecular Sciences, University of Western Australia, 35 Stirling Highway, Crawley, 6009, Western Australia
| | - Hanna Jańska
- Faculty of Biotechnology, University of Wroclaw, F. Joliot-Curie 14A, 50-383 Wroclaw, Poland
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Ye W, Hu S, Wu L, Ge C, Cui Y, Chen P, Wang X, Xu J, Ren D, Dong G, Qian Q, Guo L. White stripe leaf 12 ( WSL12), encoding a nucleoside diphosphate kinase 2 (OsNDPK2), regulates chloroplast development and abiotic stress response in rice ( Oryza sativa L.). MOLECULAR BREEDING : NEW STRATEGIES IN PLANT IMPROVEMENT 2016; 36:57. [PMID: 27212889 PMCID: PMC4851688 DOI: 10.1007/s11032-016-0479-6] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/23/2015] [Accepted: 04/18/2016] [Indexed: 05/02/2023]
Abstract
Chloroplast is a crucial organelle for plant photosynthesis and maintaining normal life activities in higher plants. Although some genes related to chloroplast development and pigment synthesis have been identified or cloned in rice, little is known about the relationship between these genes and abiotic stress response. In this study, we identified a novel mutant white stripe leaf 12 (wsl12) affecting pigment synthesis, chloroplast development and abiotic stress response in rice. The mutant phenotype was obvious at seeding and tillering stages and in response to the temperature change. Genetic analysis of reciprocal crosses between wsl12 and wild-type plants showed that wsl12 was a recessive mutant in a single nuclear locus. Map-based cloning revealed that the WSL12 locus encoded OsNDPK2, one of the three nucleoside diphosphate kinases (OsNDPKs). WSL12 expressed in all tested tissues, while it highly expressed in leaves and young tissues. The WSL12 protein localized to the chloroplast. The wsl12 mutant showed higher superoxide anion level and enhanced sensitivity to abscisic acid (ABA) and salinity. The transcription pattern of many genes involved in chlorophyll biosynthesis, ABA synthesis, light signaling pathway, reactive oxygen species-scavenging pathway and the other two OsNDPKs was altered in the wsl12 mutant. These results indicate that the OsNDPK2 encoded by WSL12 plays an important role in chloroplast development and chlorophyll biosynthesis by regulating the expression levels of related genes. In addition, WSL12 also affects the response to abiotic stress, such as ABA and salinity in rice, and is beneficial to molecular breeding of stress tolerance.
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Affiliation(s)
- Weijun Ye
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
- />College of Agriculture and Biotechnology, Zhejiang University, Hangzhou, 310058 China
| | - Shikai Hu
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
- />Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China
| | - Liwen Wu
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Changwei Ge
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Yongtao Cui
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Ping Chen
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Xiaoqi Wang
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Jie Xu
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Deyong Ren
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Guojun Dong
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
| | - Qian Qian
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
- />Agricultural Genomics Institute, Chinese Academy of Agricultural Sciences, Shenzhen, 518120 China
| | - Longbiao Guo
- />State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Tiyuchang Road 359, Hangzhou, 310006 China
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Dubovskaya LV, Bakakina YS, Volotovski ID. Cyclic guanosine monophosphate as a mediator in processes of stress-signal transduction in higher plants. Biophysics (Nagoya-shi) 2015. [DOI: 10.1134/s0006350915040089] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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12
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Fan L, Wu X, Tian Z, Jia K, Pan Y, Li J, Gao H. Comparative proteomic analysis of gamma-aminobutyric acid responses in hypoxia-treated and untreated melon roots. PHYTOCHEMISTRY 2015; 116:28-37. [PMID: 25840728 DOI: 10.1016/j.phytochem.2015.02.023] [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: 10/18/2014] [Revised: 12/15/2014] [Accepted: 02/24/2015] [Indexed: 06/04/2023]
Abstract
Hypoxia is one of the main environmental stresses that accounts for decreasing crop yield. To further investigate the mechanisms whereby exogenous GABA alleviates hypoxia injury to melon seedlings, a comparative proteomic analysis was performed using roots subjected to normal aeration and hypoxia conditions with or without GABA (5mM). The results indicated that protein spots on gels after hypoxia and hypoxia+GABA treatment were significantly changed. Three "matched sets" were analyzed from four treatments, and 13 protein spots with large significant differences in expression were identified by MALDI-TOF/TOF mass spectrometry. Exogenous GABA treatment enhanced the expression of protein in cytosolic phosphoglycerate kinase 1, exaA2 gene product, dnaJ and myb-like DNA-binding domain-containing proteins, as well as elongation factor-1 alpha and hypothetical proteins in hypoxia-induced roots. However, the hypoxia+GABA treated roots had a significantly lower expression of proteins including malate dehydrogenase, nucleoside diphosphate kinase, disease resistance-like protein, disulfide isomerase, actin, ferrodoxin NADP oxidoreductase, glutathione transferase, netting associated peroxidase. This paper describes the effect of GABA on melon plants under hypoxia-induced stress using proteomics, and supports the alleviating function of GABA in melon plants grown under hypoxic conditions.
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Affiliation(s)
- Longquan Fan
- College of Horticulture, Agricultural University of Hebei, Baoding 071001, China; The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Science, Chinese Academy of Agricultural Sciences, 100081 Beijing, China.
| | - Xiaolei Wu
- College of Horticulture, Agricultural University of Hebei, Baoding 071001, China.
| | - Zhen Tian
- College of Horticulture, Agricultural University of Hebei, Baoding 071001, China.
| | - Kaizhi Jia
- Key Laboratory of Fermentation Engineering, Hubei University of Technology, Wuhan 430068, China.
| | - Yinghong Pan
- The National Key Facility for Crop Gene Resources and Genetic Improvement/Institute of Crop Science, Chinese Academy of Agricultural Sciences, 100081 Beijing, China.
| | - Jingrui Li
- College of Horticulture, Agricultural University of Hebei, Baoding 071001, China.
| | - Hongbo Gao
- College of Horticulture, Agricultural University of Hebei, Baoding 071001, China.
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Oliveira TM, da Silva FR, Bonatto D, Neves DM, Morillon R, Maserti BE, Filho MAC, Costa MGC, Pirovani CP, Gesteira AS. Comparative study of the protein profiles of Sunki mandarin and Rangpur lime plants in response to water deficit. BMC PLANT BIOLOGY 2015; 15:69. [PMID: 25849288 PMCID: PMC4355367 DOI: 10.1186/s12870-015-0416-6] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2014] [Accepted: 01/06/2015] [Indexed: 05/09/2023]
Abstract
BACKGROUND Rootstocks play a major role in the tolerance of citrus plants to water deficit by controlling and adjusting the water supply to meet the transpiration demand of the shoots. Alterations in protein abundance in citrus roots are crucial for plant adaptation to water deficit. We performed two-dimensional electrophoresis (2-DE) separation followed by LC/MS/MS to assess the proteome responses of the roots of two citrus rootstocks, Rangpur lime (Citrus limonia Osbeck) and 'Sunki Maravilha' (Citrus sunki) mandarin, which show contrasting tolerances to water deficits at the physiological and molecular levels. RESULTS Changes in the abundance of 36 and 38 proteins in Rangpur lime and 'Sunki Maravilha' mandarin, respectively, were observed via LC/MS/MS in response to water deficit. Multivariate principal component analysis (PCA) of the data revealed major changes in the protein profile of 'Sunki Maravilha' in response to water deficit. Additionally, proteomics and systems biology analyses allowed for the general elucidation of the major mechanisms associated with the differential responses to water deficit of both varieties. The defense mechanisms of Rangpur lime included changes in the metabolism of carbohydrates and amino acids as well as in the activation of reactive oxygen species (ROS) detoxification and in the levels of proteins involved in water stress defense. In contrast, the adaptation of 'Sunki Maravilha' to stress was aided by the activation of DNA repair and processing proteins. CONCLUSIONS Our study reveals that the levels of a number of proteins involved in various cellular pathways are affected during water deficit in the roots of citrus plants. The results show that acclimatization to water deficit involves specific responses in Rangpur lime and 'Sunki Maravilha' mandarin. This study provides insights into the effects of drought on the abundance of proteins in the roots of two varieties of citrus rootstocks. In addition, this work allows for a better understanding of the molecular basis of the response to water deficit in citrus. Further analysis is needed to elucidate the behaviors of the key target proteins involved in this response.
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Affiliation(s)
- Tahise M Oliveira
- />Universidade Estadual de Santa Cruz-UESC, Rodovia Ilhéus-Itabuna, Km 16, Salobrinho, Bahia Brazil
| | - Fernanda R da Silva
- />Centro de Biotecnologia, Departamento de Biologia Molecular e Biotecnologia, Universidade Federal do Rio Grande do Sul-UFGRS, Avenida Bento Goncalves, 9500 Porto Alegre, Rio Grande do Sul Brazil
| | - Diego Bonatto
- />Centro de Biotecnologia, Departamento de Biologia Molecular e Biotecnologia, Universidade Federal do Rio Grande do Sul-UFGRS, Avenida Bento Goncalves, 9500 Porto Alegre, Rio Grande do Sul Brazil
| | - Diana M Neves
- />Universidade Estadual de Santa Cruz-UESC, Rodovia Ilhéus-Itabuna, Km 16, Salobrinho, Bahia Brazil
| | - Raphael Morillon
- />IVIA; Centro de Genomica, Ctra. Moncada-Náquera Km 5, 46113 Moncada, Valencia Spain
- />CIRAD, UMR AGAP, Avenue Agropolis - TA A-75/02 – 34398, Montpellier Cedex 5, France
| | - Bianca E Maserti
- />Dipartimento di Scienze BioAgroAlimentari, CNR-IPSP, Istituto per la Protezione Sostenibile delle Piante, Area della Ricerca CNR, Via Madonna del Piano 10, Via Madonna del Piano n 10, 50019 Sesto Fiorentino, FI Italy
| | | | - Marcio GC Costa
- />Universidade Estadual de Santa Cruz-UESC, Rodovia Ilhéus-Itabuna, Km 16, Salobrinho, Bahia Brazil
| | - Carlos P Pirovani
- />Universidade Estadual de Santa Cruz-UESC, Rodovia Ilhéus-Itabuna, Km 16, Salobrinho, Bahia Brazil
| | - Abelmon S Gesteira
- />Embrapa Mandioca e Fruticultura, Rua Embrapa, s/n, Cruz das Almas, 44380-000 Bahia Brazil
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Rurek M, Woyda-Ploszczyca AM, Jarmuszkiewicz W. Biogenesis of mitochondria in cauliflower (Brassica oleracea var. botrytis) curds subjected to temperature stress and recovery involves regulation of the complexome, respiratory chain activity, organellar translation and ultrastructure. BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS 2015; 1847:399-417. [PMID: 25617518 DOI: 10.1016/j.bbabio.2015.01.005] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2014] [Revised: 12/05/2014] [Accepted: 01/16/2015] [Indexed: 12/30/2022]
Abstract
The biogenesis of the cauliflower curd mitochondrial proteome was investigated under cold, heat and the recovery. For the first time, two dimensional fluorescence difference gel electrophoresis was used to study the plant mitochondrial complexome in heat and heat recovery. Particularly, changes in the complex I and complex III subunits and import proteins, and the partial disintegration of matrix complexes were observed. The presence of unassembled subunits of ATP synthase was accompanied by impairment in mitochondrial translation of its subunit. In cold and heat, the transcription profiles of mitochondrial genes were uncorrelated. The in-gel activities of respiratory complexes were particularly affected after stress recovery. Despite a general stability of respiratory chain complexes in heat, functional studies showed that their activity and the ATP synthesis yield were affected. Contrary to cold stress, heat stress resulted in a reduced efficiency of oxidative phosphorylation likely due to changes in alternative oxidase (AOX) activity. Stress and stress recovery differently modulated the protein level and activity of AOX. Heat stress induced an increase in AOX activity and protein level, and AOX1a and AOX1d transcript level, while heat recovery reversed the AOX protein and activity changes. Conversely, cold stress led to a decrease in AOX activity (and protein level), which was reversed after cold recovery. Thus, cauliflower AOX is only induced by heat stress. In heat, contrary to the AOX activity, the activity of rotenone-insensitive internal NADH dehydrogenase was diminished. The relevance of various steps of plant mitochondrial biogenesis to temperature stress response and recovery is discussed.
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Affiliation(s)
- Michal Rurek
- Department of Cellular and Molecular Biology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Umultowska 89, 61-614 Poznań, Poland.
| | - Andrzej M Woyda-Ploszczyca
- Department of Bioenergetics, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Umultowska 89, 61-614 Poznań, Poland
| | - Wieslawa Jarmuszkiewicz
- Department of Bioenergetics, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Umultowska 89, 61-614 Poznań, Poland
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Wang Z, Li H, Ke Q, Jeong JC, Lee HS, Xu B, Deng XP, Lim YP, Kwak SS. Transgenic alfalfa plants expressing AtNDPK2 exhibit increased growth and tolerance to abiotic stresses. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2014; 84:67-77. [PMID: 25240265 DOI: 10.1016/j.plaphy.2014.08.025] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2014] [Accepted: 08/29/2014] [Indexed: 05/18/2023]
Abstract
In this study, we generated and evaluated transgenic alfalfa plants (Medicago sativa L. cv. Xinjiang Daye) expressing the Arabidopsis nucleoside diphosphate kinase 2 (AtNDPK2) gene under the control of the oxidative stress-inducible SWPA2 promoter (referred to as SN plants) to develop plants with enhanced tolerance to various abiotic stresses. We selected two SN plants (SN4 and SN7) according to the expression levels of AtNDPK2 and the enzyme activity of NDPK in response to methyl viologen (MV)-mediated oxidative stress treatment using leaf discs for further characterization. SN plants showed enhanced tolerance to high temperature, NaCl, and drought stress on the whole-plant level. When the plants were subjected to high temperature treatment (42 °C for 24 h), the non-transgenic (NT) plants were severely wilted, whereas the SN plants were not affected because they maintained high relative water and chlorophyll contents. The SN plants also showed significantly higher tolerance to 250 mM NaCl and water stress treatment than the NT plants. In addition, the SN plants exhibited better plant growth through increased expression of auxin-related indole acetic acid (IAA) genes (MsIAA3, MsIAA5, MsIAA6, MsIAA7, and MsIAA16) under normal growth conditions compared to NT plants. The results suggest that induced overexpression of AtNDPK2 in alfalfa will be useful for increasing biomass production under various abiotic stress conditions.
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Affiliation(s)
- Zhi Wang
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea; Department of Horticulture, Chungnam National University, Daejeon, Republic of Korea
| | - Hongbing Li
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea; State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Chinese Academy of Science and Ministry of Water Resources, Northwest A & F University, Yangling, Shaanxi 712100, PR China
| | - Qingbo Ke
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea; Department of Green Chemistry and Environmental Biotechnology, Korea University of Science and Technology, Daejeon, Republic of Korea
| | - Jae Cheol Jeong
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea; Department of Green Chemistry and Environmental Biotechnology, Korea University of Science and Technology, Daejeon, Republic of Korea
| | - Haeng-Soon Lee
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea; Department of Green Chemistry and Environmental Biotechnology, Korea University of Science and Technology, Daejeon, Republic of Korea
| | - Bingcheng Xu
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Chinese Academy of Science and Ministry of Water Resources, Northwest A & F University, Yangling, Shaanxi 712100, PR China
| | - Xi-Ping Deng
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, Chinese Academy of Science and Ministry of Water Resources, Northwest A & F University, Yangling, Shaanxi 712100, PR China
| | - Yong Pyo Lim
- Department of Horticulture, Chungnam National University, Daejeon, Republic of Korea
| | - Sang-Soo Kwak
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Republic of Korea; Department of Green Chemistry and Environmental Biotechnology, Korea University of Science and Technology, Daejeon, Republic of Korea.
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16
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Huerta-Ocampo JA, Barrera-Pacheco A, Mendoza-Hernández CS, Espitia-Rangel E, Mock HP, Barba de la Rosa AP. Salt stress-induced alterations in the root proteome of Amaranthus cruentus L. J Proteome Res 2014; 13:3607-27. [PMID: 24942474 DOI: 10.1021/pr500153m] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Salt stress is one of the major factors limiting crop productivity worldwide. Amaranth is a highly nutritious pseudocereal with remarkable nutraceutical properties; it is also a stress-tolerant plant, making it an alternative crop for sustainable food production in semiarid conditions. A two-dimensional electrophoresis gel coupled with a liquid chromatography-mass spectrometry/mass spectrometry (LC-MS/MS) approach was applied in order to analyze the changes in amaranth root protein accumulation in plants subjected to salt stress under hydroponic conditions during the osmotic phase (1 h), after recovery (24 h), and during the ionic phase of salt stress (168 h). A total of 101 protein spots were differentially accumulated in response to stress, in which 77 were successfully identified by LC-MS/MS and a database search against public and amaranth transcriptome databases. The resulting proteins were grouped into different categories of biological processes according to Gene Ontology. The identification of several protein isoforms with a change in pI and/or molecular weight reveals the importance of the salt-stress-induced posttranslational modifications in stress tolerance. Interestingly stress-responsive proteins unique to amaranth, for example, Ah24, were identified. Amaranth is a stress-tolerant alternative crop for sustainable food production, and the understanding of amaranth's stress tolerance mechanisms will provide valuable input to improve stress tolerance of other crop plants.
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Affiliation(s)
- José A Huerta-Ocampo
- IPICyT, Instituto Potosino de Investigación Científica y Tecnológica A.C. , Camino a la Presa San José No. 2055, Lomas 4a Sección, 78216 San Luis Potosí, S.L.P., México
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Dorion S, Rivoal J. Clues to the functions of plant NDPK isoforms. Naunyn Schmiedebergs Arch Pharmacol 2014; 388:119-32. [PMID: 24964975 DOI: 10.1007/s00210-014-1009-x] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2014] [Accepted: 06/15/2014] [Indexed: 12/20/2022]
Abstract
This review describes the five nucleoside diphosphate kinase (NDPK) genes found in both model plants Arabidopsis thaliana (thale cress) and Oryza sativa L. (rice). Phylogenetic and sequence analyses of these genes allow the definition of four types of NDPK isoforms with different predicted subcellular localization. These predictions are supported by experimental evidence for most NDPK types. Data mining also provides evidence for the existence of a novel NDPK type putatively localized in the endoplasmic reticulum. Phylogenic analyses indicate that plant types I, II, and III belong to the previously identified Nme group I whereas type IV belongs to Nme group II. Additional analysis of the literature offers clues supporting the idea that the various plant NDPK types have different functions. Hence, cytosolic type I NDPKs are involved in metabolism, growth, and stress responses. Type II NDPKs are localized in the chloroplast and mainly involved in photosynthetic development and oxidative stress management. Type III NDPKs have dual targeting to the mitochondria and the chloroplast and are principally involved in energy metabolism. The subcellular localization and precise function of the novel type IV NDPKs, however, will require further investigations.
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Affiliation(s)
- Sonia Dorion
- IRBV, Université de Montréal, 4101 rue Sherbrooke est, Montréal, QC, H1X 2B2, Canada
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18
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Tzatzani TT, Dimassi-Theriou K, Yupsanis T, Bosabalidis A, Therios I, Sarropoulou V. Globular body production, their anatomy, DNase gel analysis and NDP kinase activity in root tips of Poncirus trifoliata L. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2013; 71:247-253. [PMID: 23974357 DOI: 10.1016/j.plaphy.2013.07.023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2013] [Accepted: 07/31/2013] [Indexed: 06/02/2023]
Abstract
Green globular bodies were developed from Poncirus trifoliata L. root tip explants as a response to addition in the substrate of different growth regulators. From the globular bodies, shoots initiated and grew. Median section of the globular bodies reveals that they are composed of parenchyma cells and originate from the pericycle. The activity of DNases during shoot formation from globular bodies was influenced by the type and concentration of plant growth regulators that were added in the nutrient substrate. Peptide bands formation was also influenced by the increase of BA concentration. Consequently, BA, NAA and IAA combination influenced 5'-triphosphonucleosides (NTPs) appearance and activity in the presence of metal. Peptide bands resulted from the electrophoretic analysis of endogenous protein phosphorylation, proved to be catalytic subunits of NDP kinases, as they all phosphorylate diphosphonucleosides. The enzymes DNases and NDP kinases could be used as a scientific tool for the study of shoot formation from P. trifoliata L. green globular bodies.
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Affiliation(s)
- Thiresia-Teresa Tzatzani
- Department of Horticulture, Laboratory of Pomology, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece
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Huang S, Jacoby RP, Shingaki-Wells RN, Li L, Millar AH. Differential induction of mitochondrial machinery by light intensity correlates with changes in respiratory metabolism and photorespiration in rice leaves. THE NEW PHYTOLOGIST 2013; 198:103-115. [PMID: 23356873 DOI: 10.1111/nph.12123] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2012] [Accepted: 11/27/2012] [Indexed: 05/04/2023]
Abstract
The light responsiveness of mitochondrial function was investigated through changes in mitochondrial composition and metabolism in rice (Oryza sativa) shoots. The mitochondrial proteome and metabolite abundances under low light, (LL, 100 μmol m(-2) s(-1) ), and high light (HL, 700 μmol m(-2) s(-1) ) were measured along with information on shoot photosynthetic, respiratory and photorespiratory activity. Specific steps in mitochondrial tricarboxylic acid (TCA) cycle metabolism were decreased under HL, correlating with lower respiration rate under HL. The abundance of mitochondrial enzymes in branch chain metabolism was reduced under HL/LL, and correlated with a decrease in the abundance of a range of amino acids in the HL/LL. Mitochondrial nucleoside diphosphate kinase was increased under LL/HL treatments. Significant accumulation of glycine decarboxylase P, T subunits and serine hydroxymethyltransferase occurred in response to light. The abundance of the glycine decarboxylase (GDC) H subunit proteins was not changed by HL/LL treatments, and the abundance of GDC L subunit protein was halved under HL, indicating a change in the stoichiometry of GDC subunits, while photorespiration was fourfold higher in LL- than in HL-treated plants. Insights into these light-dependent phenomena and their importance for understanding the initiation of photorespiration in rice and adaptation of mitochondria to function in photosynthetic cells are discussed.
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Affiliation(s)
- Shaobai Huang
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - Richard P Jacoby
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - Rachel N Shingaki-Wells
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - Lei Li
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - A Harvey Millar
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
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20
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Huang S, Jacoby RP, Shingaki-Wells RN, Li L, Millar AH. Differential induction of mitochondrial machinery by light intensity correlates with changes in respiratory metabolism and photorespiration in rice leaves. THE NEW PHYTOLOGIST 2013. [PMID: 23356873 DOI: 10.1111/nph.12123 [epub ahead of print]] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
The light responsiveness of mitochondrial function was investigated through changes in mitochondrial composition and metabolism in rice (Oryza sativa) shoots. The mitochondrial proteome and metabolite abundances under low light, (LL, 100 μmol m(-2) s(-1) ), and high light (HL, 700 μmol m(-2) s(-1) ) were measured along with information on shoot photosynthetic, respiratory and photorespiratory activity. Specific steps in mitochondrial tricarboxylic acid (TCA) cycle metabolism were decreased under HL, correlating with lower respiration rate under HL. The abundance of mitochondrial enzymes in branch chain metabolism was reduced under HL/LL, and correlated with a decrease in the abundance of a range of amino acids in the HL/LL. Mitochondrial nucleoside diphosphate kinase was increased under LL/HL treatments. Significant accumulation of glycine decarboxylase P, T subunits and serine hydroxymethyltransferase occurred in response to light. The abundance of the glycine decarboxylase (GDC) H subunit proteins was not changed by HL/LL treatments, and the abundance of GDC L subunit protein was halved under HL, indicating a change in the stoichiometry of GDC subunits, while photorespiration was fourfold higher in LL- than in HL-treated plants. Insights into these light-dependent phenomena and their importance for understanding the initiation of photorespiration in rice and adaptation of mitochondria to function in photosynthetic cells are discussed.
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Affiliation(s)
- Shaobai Huang
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - Richard P Jacoby
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - Rachel N Shingaki-Wells
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - Lei Li
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
| | - A Harvey Millar
- ARC Centre of Excellence in Plant Energy Biology and Centre for Comparative Analysis of Biomolecular Networks (CABiN), The University of Western Australia, Bayliss Building M316, 35 Stirling Highway, Crawley, WA, 6009, Australia
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21
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Differential proteomic analysis of drought stress response in leaves of common bean (Phaseolus vulgaris L.). J Proteomics 2013; 78:254-72. [DOI: 10.1016/j.jprot.2012.09.021] [Citation(s) in RCA: 105] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2012] [Revised: 09/06/2012] [Accepted: 09/19/2012] [Indexed: 02/03/2023]
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Evidence for nucleotide-dependent processes in the thylakoid lumen of plant chloroplasts--an update. FEBS Lett 2012; 586:2946-54. [PMID: 22796491 DOI: 10.1016/j.febslet.2012.07.005] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2012] [Revised: 07/04/2012] [Accepted: 07/05/2012] [Indexed: 12/21/2022]
Abstract
The thylakoid lumen is an aqueous chloroplast compartment enclosed by the thylakoid membrane network. Bioinformatic and proteomic studies indicated the existence of 80-90 thylakoid lumenal proteins in Arabidopsis thaliana, having photosynthetic, non-photosynthetic or unclassified functions. None of the identified lumenal proteins had canonical nucleotide-binding motifs. It was therefore suggested that, in contrast to the chloroplast stroma harboring nucleotide-dependent enzymes and other proteins, the thylakoid lumen is a nucleotide-free compartment. Based on recent findings, we provide here an updated view about the presence of nucleotides in the thylakoid lumen of plant chloroplasts, and their role in function and dynamics of photosynthetic complexes.
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A proteomic analysis of storage stress responses in Ipomoea batatas (L.) Lam. tuberous root. Mol Biol Rep 2012; 39:8015-25. [DOI: 10.1007/s11033-012-1648-2] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2011] [Accepted: 04/16/2012] [Indexed: 02/06/2023]
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The proteome response of salt-resistant and salt-sensitive barley genotypes to long-term salinity stress. Mol Biol Rep 2012; 39:6387-97. [DOI: 10.1007/s11033-012-1460-z] [Citation(s) in RCA: 90] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2011] [Accepted: 01/23/2012] [Indexed: 10/14/2022]
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Dubovskaya LV, Bakakina YS, Kolesneva EV, Sodel DL, McAinsh MR, Hetherington AM, Volotovski ID. cGMP-dependent ABA-induced stomatal closure in the ABA-insensitive Arabidopsis mutant abi1-1. THE NEW PHYTOLOGIST 2011; 191:57-69. [PMID: 21371039 DOI: 10.1111/j.1469-8137.2011.03661.x] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
• The drought hormone abscisic acid (ABA) is widely known to produce reductions in stomatal aperture in guard cells. The second messenger cyclic guanosine 3', 5'-monophosphate (cGMP) is thought to form part of the signalling pathway by which ABA induces stomatal closure. • We have examined the signalling events during cGMP-dependent ABA-induced stomatal closure in wild-type Arabidopsis plants and plants of the ABA-insensitive Arabidopsis mutant abi1-1. • We show that cGMP acts downstream of hydrogen peroxide (H(2) O(2) ) and nitric oxide (NO) in the signalling pathway by which ABA induces stomatal closure. H(2) O(2) - and NO-induced increases in the cytosolic free calcium concentration ([Ca(2+) ](cyt) ) were cGMP-dependent, positioning cGMP upstream of [Ca(2+) ](cyt) , and involved the action of the type 2C protein phosphatase ABI1. Increases in cGMP were mediated through the stimulation of guanylyl cyclase by H(2) O(2) and NO. We identify nucleoside diphosphate kinase as a new cGMP target protein in Arabidopsis. • This study positions cGMP downstream of ABA-induced changes in H(2) O(2) and NO, and upstream of increases in [Ca(2+) ](cyt) in the signalling pathway leading to stomatal closure.
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Affiliation(s)
- Lyudmila V Dubovskaya
- National Academy of Sciences of Belarus, Institute of Biophysics and Cell Engineering, Minsk 220072, Academicheskaya 27, Belarus
| | - Yulia S Bakakina
- National Academy of Sciences of Belarus, Institute of Biophysics and Cell Engineering, Minsk 220072, Academicheskaya 27, Belarus
| | - Ekaterina V Kolesneva
- National Academy of Sciences of Belarus, Institute of Biophysics and Cell Engineering, Minsk 220072, Academicheskaya 27, Belarus
| | - Dmitry L Sodel
- National Academy of Sciences of Belarus, Institute of Biophysics and Cell Engineering, Minsk 220072, Academicheskaya 27, Belarus
| | - Martin R McAinsh
- Lancaster Environment Centre, Lancaster University, Lancaster LA1 4YQ, UK
| | | | - Igor D Volotovski
- National Academy of Sciences of Belarus, Institute of Biophysics and Cell Engineering, Minsk 220072, Academicheskaya 27, Belarus
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26
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Huerta-Ocampo JA, León-Galván MF, Ortega-Cruz LB, Barrera-Pacheco A, De León-Rodríguez A, Mendoza-Hernández G, de la Rosa APB. Water stress induces up-regulation of DOF1 and MIF1 transcription factors and down-regulation of proteins involved in secondary metabolism in amaranth roots (Amaranthus hypochondriacus L.). PLANT BIOLOGY (STUTTGART, GERMANY) 2011; 13:472-82. [PMID: 21489098 DOI: 10.1111/j.1438-8677.2010.00391.x] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Roots are the primary sites of water stress perception in plants. The aim of this work was to study differential expression of proteins and transcripts in amaranth roots (Amaranthus hypochondriacus L.) when the plants were grown under drought stress. Changes in protein abundance within the roots were examined using two-dimensional electrophoresis and LC/ESI-MS/MS, and the differential expression of transcripts was evaluated with suppression subtractive hybridisation (SSH). Induction of drought stress decreased relative water content in leaves and increased solutes such as proline and total soluble sugars in roots. Differentially expressed proteins such as SOD(Cu-Zn) , heat shock proteins, signalling-related and glycine-rich proteins were identified. Up-regulated transcripts were those related to defence, stress, signalling (Ser, Tyr-kinases and phosphatases) and water transport (aquaporins and nodulins). More noteworthy was identification of the transcription factors DOF1, which has been related to several plant-specific biological processes, and MIF1, whose constitutive expression has been related to root growth reduction and dwarfism. The down-regulated genes/proteins identified were related to cell differentiation (WOX5A) and secondary metabolism (caffeic acid O-methyltransferase, isoflavone reductase-like protein and two different S-adenosylmethionine synthetases). Amaranth root response to drought stress appears to involve a coordinated response of osmolyte accumulation, up-regulation of proteins that control damage from reactive oxygen species, up-regulation of a family of heat shock proteins that stabilise other proteins and up-regulation of transcription factors related to plant growth control.
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Affiliation(s)
- J A Huerta-Ocampo
- Molecular Biology Division, Institute for Scientific and Technological Research of San Luis Potosí, San Luis Potosí, México
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27
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Kim YH, Kim MD, Choi YI, Park SC, Yun DJ, Noh EW, Lee HS, Kwak SS. Transgenic poplar expressing Arabidopsis NDPK2 enhances growth as well as oxidative stress tolerance. PLANT BIOTECHNOLOGY JOURNAL 2011; 9:334-47. [PMID: 20649941 DOI: 10.1111/j.1467-7652.2010.00551.x] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Nucleoside diphosphate kinase 2 (NDPK2) is known to regulate the expression of antioxidant genes in plants. Previously, we reported that overexpression of Arabidopsis NDPK2 (AtNDPK2) under the control of an oxidative stress-inducible SWPA2 promoter in transgenic potato and sweetpotato plants enhanced tolerance to various abiotic stresses. In this study, transgenic poplar (Populus alba × Poplus glandulosa) expressing the AtNDPK2 gene under the control of a SWPA2 promoter (referred to as SN) was generated to develop plants with enhanced tolerance to oxidative stress. The level of AtNDPK2 expression and NDPK activity in SN plants following methyl viologen (MV) treatment was positively correlated with the plant's tolerance to MV-mediated oxidative stress. We also observed that antioxidant enzyme activities such as ascorbate peroxidase, catalase and peroxidase were increased in MV-treated leaf discs of SN plants. The growth of SN plants was substantially increased under field conditions including increased branch number and stem diameter. SN plants exhibited higher transcript levels of the auxin-response genes IAA2 and IAA5. These results suggest that enhanced AtNDPK2 expression affects oxidative stress tolerance leading to improved plant growth in transgenic poplar.
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Affiliation(s)
- Yun-Hee Kim
- Environmental Biotechnology Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, Korea
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28
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Jacoby RP, Millar AH, Taylor NL. Wheat Mitochondrial Proteomes Provide New Links between Antioxidant Defense and Plant Salinity Tolerance. J Proteome Res 2010; 9:6595-604. [DOI: 10.1021/pr1007834] [Citation(s) in RCA: 86] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Affiliation(s)
- Richard P. Jacoby
- ARC Centre of Excellence in Plant Energy Biology & Centre for Comparative Analysis of Biomolecular Networks (CABiN), M316, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009 Australia
| | - A. Harvey Millar
- ARC Centre of Excellence in Plant Energy Biology & Centre for Comparative Analysis of Biomolecular Networks (CABiN), M316, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009 Australia
| | - Nicolas L. Taylor
- ARC Centre of Excellence in Plant Energy Biology & Centre for Comparative Analysis of Biomolecular Networks (CABiN), M316, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009 Australia
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29
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Dharmasiri S, Harrington HM, Dharmasiri N. Heat shock modulates phosphorylation status and activity of nucleoside diphosphate kinase in cultured sugarcane cells. PLANT CELL REPORTS 2010; 29:1305-14. [PMID: 20821213 DOI: 10.1007/s00299-010-0917-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/01/2010] [Revised: 08/17/2010] [Accepted: 08/23/2010] [Indexed: 05/29/2023]
Abstract
Nucleoside diphosphate kinase (NDPK) is involved in the regeneration of nucleoside triphosphates (NTPs) through its phosphotransferase activity via an autophosphorylating histidine residue. Additionally, autophosphorylation of serine and/or threonine residues is documented for NDPKs from various organisms. However, the metabolic significance of serine/threonine phosphorylation has not been well characterized. In this study we report the cloning and characterization of NDPKI from cultured sugarcane (Saccharum officinarum L. line H50-7209) cells, and modulation of serine autophosphorylation of NDPK1 in response to heat-shock (HS). Heat-shock treatment at 40°C for 2 h resulted in a 40% reduction in labeled phosphoserine in NDPK1. This dephosphorylation was accompanied by an increase in NDPK enzyme activity. In contrast, NDPK1 in cultured tobacco (cv. W-38) cells did not show changes in autophosphorylation or increased enzyme activity in response to HS. The mRNA or protein level of NDPK1 did not increase in response to HS. Sugarcane cells sustain the constitutive protein synthesis in addition to heat-shock protein synthesis during HS, while constitutive protein synthesis is significantly reduced in tobacco cells during HS. Thus, HS modulation of NDPK1 activity and serine dephosphorylation in sugarcane cells may represent an important physiological role in maintaining cellular metabolic functions during heat stress.
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Affiliation(s)
- Sunethra Dharmasiri
- Department of Biology, Texas State University, 601, University Drive, San Marcos, USA.
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30
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Haque ME, Yoshida Y, Hasunuma K. ROS resistance in Pisum sativum cv. Alaska: the involvement of nucleoside diphosphate kinase in oxidative stress responses via the regulation of antioxidants. PLANTA 2010; 232:367-82. [PMID: 20458498 DOI: 10.1007/s00425-010-1173-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2010] [Accepted: 04/11/2010] [Indexed: 05/29/2023]
Abstract
This study investigated the reactive oxygen species (ROS) tolerance mechanism of a paraquat-resistant Pisum sativum line (R3-1) compared with the wild type (WT). Physiological and biochemical analyses showed significant differences in the phenotypes, such as delayed leaf and floral development, superior branching, and greater biomass and yields in the R3-1 line, as well as an increased level of antioxidant pigments and a lower rate of cellular lipid peroxidation in the resistant R3-1. Additionally, the phosphorylation of crude proteins showed distinguishable differences in band mobility and intensity between the R3-1 and WT plants. cDNA cloning and sequence analysis of NDPKs, which were candidate phosphorylated proteins, revealed that two of the deduced amino acids in NDPK2 (IL12L and Glu205Lys) and one in NDPK3 (P45S) were mutated in R3-1. Using glutathione S-transferase-NDPK fusion constructs, we found that the precursor recombinant R3-1 NDPK2 showed an increased level of activity and autophosphorylation in R3-1 plants compared to WT plants. Native PAGE analysis of the crude proteins revealed that NDPK and catalase (CAT) activity co-existed in the same area of the gel. In a yeast two-hybrid assay, the N-terminal region of NDPK2 showed an interaction with the full-length CAT1 protein. Furthermore, we found that WT showed a decreased level of CAT activity compared with R3-1 under illumination and/or on media containing ROS-releasing reagents. Taken together, these results suggest that there is a strong interaction between NDPK2 and CAT1 in R3-1 plants, which possibly plays a vital role in the antioxidant defense against ROS.
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Affiliation(s)
- Md Emdadul Haque
- Kihara Institute for Biological Research, Yokohama City University, Totsuka-ku, Yokohama, Japan.
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31
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Siskos A, Yupsani A, Symeonidis L, Yupsanis T. Similarities and differences in the properties of multiple NDP-kinase isoforms of Alyssum murale, Ni2+-accumulator species. JOURNAL OF PLANT PHYSIOLOGY 2010; 167:675-682. [PMID: 20188440 DOI: 10.1016/j.jplph.2010.01.016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/11/2009] [Revised: 12/30/2009] [Accepted: 01/04/2010] [Indexed: 05/28/2023]
Abstract
Two isoforms of NDPKs (diphosphonucleoside kinases: E.C. 2.7.4.6.) named S-NDPK-A and S-NDPK-B were separated and purified from shoots of Alyssum murale (19th day of growth), a nickel accumulator plant, by a four-step procedure involving ammonium sulphate precipitation and DEAE-sepharose and hydroxyapatite column chromatography. Shoot NDPKs underwent autophosphorylation, proved thermostable, displayed similar molecular mass of 105,000, and consisted of six catalytic subunits. The size of subunits of S-NDPK-A and S-NDPK-B were 18 and 16kDa, respectively. The autophosphorylated S-NDPK-A and S-NDPK-B displayed isoelectric points (pI) of 5.8 and 6.6, respectively. The shoot NDPKs using NDPs (diphosphonucleosides) as substrates were metal dependent, while these underwent autophosphorylation in the absence of metal. The specificity of S-NDPK-A, S-NDPK-B and root NDPK-B (R-NDPK-B); towards mixtures of purino- and pyrimidino-NDPs were tested by TLC (thin layer chromatography). UDP and CDP (pyrimidino-NDPs) and GDP (purino-NDP) were exclusively phosphorylated, using (gamma-(32)P) ATP as phosphate donor, by S-NDPK-A and R-NDPK-B, respectively. Both purino- and pyrimidino-NDPs were phosphorylated by S-NDPK-B. The above isoforms also displayed differences in preference towards a mixture of ADP, GDP, dGDP, TDP, dCDP, CDP and UDP in the presence of Cu(2+), Zn(2+), Mg(2+), Mn(2+), Ni(2+), Ca(2+), Hg(2+) or Co(2+). For example, GDP was mainly phosphorylated by R-NDPK-B independently of the metal used, TDP was mainly phosphorylated by S-NDPK-A in the presence of Mg(2+), Mn(2+), Ca(2+) or Co(2+) and S-NDPK-B was capable of phosphorylating more or less independently of the metal used. The purified and characterized NDPK isoforms may play different biological roles according to their preference towards NDPs.
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Affiliation(s)
- Argirios Siskos
- School of Chemistry, Aristotle University of Thessaloniki, Thessaloniki, Greece
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32
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Liao M, Li Y, Wang Z. Identification of elicitor-responsive proteins in rice leaves by a proteomic approach. Proteomics 2009; 9:2809-19. [DOI: 10.1002/pmic.200800192] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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33
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Kottapalli KR, Rakwal R, Shibato J, Burow G, Tissue D, Burke J, Puppala N, Burow M, Payton P. Physiology and proteomics of the water-deficit stress response in three contrasting peanut genotypes. PLANT, CELL & ENVIRONMENT 2009; 32:380-407. [PMID: 19143990 DOI: 10.1111/j.1365-3040.2009.01933.x] [Citation(s) in RCA: 61] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Peanut genotypes from the US mini-core collection were analysed for changes in leaf proteins during reproductive stage growth under water-deficit stress. One- and two-dimensional gel electrophoresis (1- and 2-DGE) was performed on soluble protein extracts of selected tolerant and susceptible genotypes. A total of 102 protein bands/spots were analysed by matrix-assisted laser desorption/ionization-time-of-flight mass spectrometry (MALDI-TOF MS) and by quadrupole time-of-flight tandem mass spectrometry (Q-TOF MS/MS) analysis. Forty-nine non-redundant proteins were identified, implicating a variety of stress response mechanisms in peanut. Lipoxygenase and 1l-myo-inositol-1-phosphate synthase, which aid in inter- and intracellular stress signalling, were more abundant in tolerant genotypes under water-deficit stress. Acetyl-CoA carboxylase, a key enzyme of lipid biosynthesis, increased in relative abundance along with a corresponding increase in epicuticular wax content in the tolerant genotype, suggesting an additional mechanism for water conservation and stress tolerance. Additionally, there was a marked decrease in the abundance of several photosynthetic proteins in the tolerant genotype, along with a concomitant decrease in net photosynthesis in response to water-deficit stress. Differential regulation of leaf proteins involved in a variety of cellular functions (e.g. cell wall strengthening, signal transduction, energy metabolism, cellular detoxification and gene regulation) indicates that these molecules could affect the molecular mechanism of water-deficit stress tolerance in peanut.
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34
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Rocco M, Corrado G, Arena S, D'Ambrosio C, Tortiglione C, Sellaroli S, Marra M, Rao R, Scaloni A. The expression of tomato prosystemin gene in tobacco plants highly affects host proteomic repertoire. J Proteomics 2008; 71:176-85. [PMID: 18617145 DOI: 10.1016/j.jprot.2008.04.003] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2008] [Revised: 04/16/2008] [Accepted: 04/22/2008] [Indexed: 10/22/2022]
Abstract
Systemin, an octadecapeptide isolated from tomato, is a primary signal molecule involved in the local and systemic responses to pest attack, elicited by activation of a set of defence genes. It derives from processing of prosystemin, a prohormone of almost 200 amino acids. Prosystemin orthologues have been found in other Solanaceae species but not in tobacco, where are present hydroxyproline-rich peptides functionally but not structurally related to tomato systemin. Molecular events leading to the release of signalling peptides from protein precursors are unknown in plants; the occurrence of a family of signal molecules suggests that initiation of wound response may involve different processing mechanisms. It has been previously shown that the protein product from an engineered tomato prosystemin gene is processed in tobacco, thus suggesting that the components responsible for its post-translational modifications are present in this species. By analyzing analysing the proteome repertoire of transformed tobacco plant leaves with 2-DE, here we demonstrate that the constitutive expression of the tomato prosystemin gene highly affected host protein synthesis. In particular, engineered plants showed a number of differentially synthesized proteins that were identified by PMF MALDI-TOF and microLC-ESI-IT-MS/MS experiments as polypeptide species involved in protection from pathogens and oxidative stress, or in carbon/energy metabolism. Significant differences in over-produced proteins were observed with respect to previous data reported on systemin-engineered tomato plants. Our results strongly support the need of using proteomic approaches during systematic analysis of plant tissues to investigate the principle of substantial equivalence in transgenic plants expressing a transgene coding for a signalling molecule.
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Affiliation(s)
- Mariapina Rocco
- Department of Biological and Environmental Sciences, University of Sannio, Benevento, Italy
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35
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Hammargren J, Rosenquist S, Jansson C, Knorpp C. A novel connection between nucleotide and carbohydrate metabolism in mitochondria: sugar regulation of the Arabidopsis nucleoside diphosphate kinase 3a gene. PLANT CELL REPORTS 2008; 27:529-534. [PMID: 18057937 DOI: 10.1007/s00299-007-0486-5] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2007] [Revised: 11/07/2007] [Accepted: 11/17/2007] [Indexed: 05/25/2023]
Abstract
Sugar metabolism is intricately connected with mitochondria through the conversion of sugars to ATP, and through the production of carbon skeletons that can be used in anabolic processes. Sugar molecules also take part in signalling cascades. In this study we investigated the impact of sucrose on the expression of the Arabidopsis thaliana Nucleoside Diphosphate Kinase gene family (NDPK, EC 2.7.4.6), focusing on NDPK3a, the product of which is located predominantly in mitochondria. Using quantitative PCR we show that the NDPK3a gene is subject to sucrose and glucose induction, while no other Arabidopsis NDPK gene are sucrose-inducible. The induction reaches a half-maximum after about 6 hours and is stable for at least 48 h. Sucrose and glucose inductions were found not to be affected by the presence of a hexokinase inhibitor, N-acetyl-glucosamine. Furthermore, turanose, a sucrose analogue that is not metabolised in plant cells, did not induce NDPK3a gene expression. An analysis of the NDPK3a gene revealed two WBOXHWISO1 boxes in the promoter region, elements that have previously been reported to be involved in sugar signalling in barley via the SUSIBA2 protein. SUSIBA2 belongs to the WRKY group of transcription factors. In this study we used two mutants containing T-DNA insertions in WRKY-genes, AtWrky4 and AtWrky34, to investigate the possible involvement of WRKY transcription factors in the sugar induction of NDPK3a.
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Affiliation(s)
- Jenni Hammargren
- Department of Plant Biology and Forest Genetics, Swedish University of Agricultural Sciences, Uppsala, Sweden
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36
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Enhanced tolerance of transgenic potato plants overexpressing nucleoside diphosphate kinase 2 against multiple environmental stresses. Transgenic Res 2007; 17:705-15. [DOI: 10.1007/s11248-007-9155-2] [Citation(s) in RCA: 64] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2007] [Accepted: 10/18/2007] [Indexed: 02/05/2023]
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37
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Lee DG, Ahsan N, Lee SH, Kang KY, Bahk JD, Lee IJ, Lee BH. A proteomic approach in analyzing heat-responsive proteins in rice leaves. Proteomics 2007; 7:3369-83. [PMID: 17722143 DOI: 10.1002/pmic.200700266] [Citation(s) in RCA: 237] [Impact Index Per Article: 13.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
The present study investigated rice leaf proteome in response to heat stress. Rice seedlings were subjected to a temperature of 42 degrees C and samples were collected 12 and 24 h after treatment. Increased relative ion leakage and lipid peroxidation suggested that oxidative stress frequently was generated in rice leaves exposed to high temperature. 2-DE, coupled with MS, was used to investigate and identify heat-responsive proteins in rice leaves. In order to identify the low-abundant proteins in leaves, samples were prefractionated by 15% PEG. The PEG supernatant and the pellet fraction samples were separated by 2-DE, and visualized by silver or CBB staining. Approximately 1000 protein spots were reproducibly detected on each gel, wherein 73 protein spots were differentially expressed at least at one time point. Of these differentially expressed proteins, a total of 34 and 39 protein spots were found in the PEG supernatant and pellet fractions, respectively. Using MALDI-TOF MS, a total of 48 proteins were identified. These proteins were categorized into classes related to heat shock proteins, energy and metabolism, redox homeostasis, and regulatory proteins. The results of the present study show that a group of low molecular small heat shock proteins (sHSPs) were newly induced by heat stress. Among these sHSPs, a low molecular weight mitochondrial (Mt) sHSP was validated further by Western blot analysis. Furthermore, four differentially accumulated proteins that correspond to antioxidant enzymes were analyzed at the mRNA level, which confirmed the differential gene expression levels, and revealed that transcription levels were not completely concomitant with translation. The identification of some novel proteins in the heat stress response provides new insights that can lead to a better understanding of the molecular basis of heat-sensitivity in plants.
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Affiliation(s)
- Dong-Gi Lee
- Division of Applied Life Sciences (BK21 and EB-NCRC), Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju, Korea
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38
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Verslues PE, Batelli G, Grillo S, Agius F, Kim YS, Zhu J, Agarwal M, Katiyar-Agarwal S, Zhu JK. Interaction of SOS2 with nucleoside diphosphate kinase 2 and catalases reveals a point of connection between salt stress and H2O2 signaling in Arabidopsis thaliana. Mol Cell Biol 2007; 27:7771-80. [PMID: 17785451 PMCID: PMC2169147 DOI: 10.1128/mcb.00429-07] [Citation(s) in RCA: 154] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
SOS2, a class 3 sucrose-nonfermenting 1-related kinase, has emerged as an important mediator of salt stress response and stress signaling through its interactions with proteins involved in membrane transport and in regulation of stress responses. We have identified additional SOS2-interacting proteins that suggest a connection between SOS2 and reactive oxygen signaling. SOS2 was found to interact with the H2O2 signaling protein nucleoside diphosphate kinase 2 (NDPK2) and to inhibit its autophosphorylation activity. A sos2-2 ndpk2 double mutant was more salt sensitive than a sos2-2 single mutant, suggesting that NDPK2 and H2O2 are involved in salt resistance. However, the double mutant did not hyperaccumulate H2O2 in response to salt stress, suggesting that it is altered signaling rather than H2O2 toxicity alone that is responsible for the increased salt sensitivity of the sos2-2 ndpk2 double mutant. SOS2 was also found to interact with catalase 2 (CAT2) and CAT3, further connecting SOS2 to H2O2 metabolism and signaling. The interaction of SOS2 with both NDPK2 and CATs reveals a point of cross talk between salt stress response and other signaling factors including H2O2.
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Affiliation(s)
- Paul E Verslues
- Institute for Integrative Genome Biology and Department of Botany and Plant Sciences, University of California, Riverside, California 92521, USA
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39
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Seong ES, Guo J, Kim YH, Cho JH, Lim CK, Hyun Hur J, Wang MH. Regulations of marker genes involved in biotic and abiotic stress by overexpression of the AtNDPK2 gene in rice. Biochem Biophys Res Commun 2007; 363:126-32. [PMID: 17826739 DOI: 10.1016/j.bbrc.2007.08.147] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2007] [Accepted: 08/20/2007] [Indexed: 02/02/2023]
Abstract
AtNDPK2 is involved in transcriptional regulation in response to pathogen and abiotic stresses. AtNDPK2-expressing transgenic rice plants showed regulation of the marker genes for chilling and oxidative stresses. In the present study, we produced AtNDPK2-overexpressing transgenic rice lines using the co-transformation method. Morphologically, the transgenic plants, compared with the control plants, were growth retarded. We investigated how AtNDPK2 overexpression influences the response of rice plants to marker genes related to chilling and ROS stress. The accumulation of transcripts of pBC442 and pBC601, related to chilling stress, was induced in AtNDPK2-overexpressed rice plants. On further investigation, we found that OsAPX1-, OsAPX2-, and OsSodB-scavenging free-oxygen radicals, such as superoxide (O2-) and hydrogen peroxide (H(2)O(2)), could be induced in AtNDPK2-overexpressed rice plants. In particular, transcripts encoding pathogenesis-related (PR) proteins OsPR2 and OsPR4, as well as oxidative stress response proteins, were confirmed to change the gene expression in the transgenic rice plants. Together, these results suggest that AtNDPK2 plays a regulatory role in chilling and antioxidant signaling in plants.
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Affiliation(s)
- Eun Soo Seong
- School of Biotechnology, Kangwon National University, Chuncheon, Kangwon-do 200-701, South Korea
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40
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Abstract
The advent of proteomics has made it possible to identify a broad spectrum of proteins in living systems. This capability is especially useful for crops as it may give clues not only about nutritional value, but also about yield and how these factors are affected by adverse conditions. In this review, we describe the recent progress in crop proteomics and highlight the achievements made in understanding the proteomes of major crops. The major emphasis will be on crop responses to abiotic stresses. Rigorous genetic testing of the role of possibly important proteins can be conducted. The increasing ease with the DNA, mRNA and protein levels can be conducted and connected suggests that proteomics data will not be difficult to apply to practical crop breeding.
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41
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Dorion S, Matton DP, Rivoal J. Characterization of a cytosolic nucleoside diphosphate kinase associated with cell division and growth in potato. PLANTA 2006; 224:108-24. [PMID: 16395585 DOI: 10.1007/s00425-005-0199-3] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2005] [Accepted: 12/01/2005] [Indexed: 05/06/2023]
Abstract
A cDNA encoding Solanum chacoense cytosolic NDPK (NDPK1, EC 2.7.4.6) was isolated. The open reading frame encoded a 148 amino acid protein that shares homology with other cytosolic NDPKs including a conserved N-terminal domain. S. chacoense NDPK1 was expressed in Escherichia coli as a 6xHis-tagged protein and purified by affinity chromatography. The recombinant protein exhibited a pattern of abortive complex formation suggesting that the enzyme is strongly regulated by the NTP/NDP ratio. A polyclonal antibody generated against recombinant NDPK1 was specific for the cytosolic isoform in Solanum tuberosum as shown from immunoprecipitation experiments and immunoblot analysis of chloroplasts and mitochondria preparations. NDPK activity and NDPK1 protein were found at different levels in various vegetative and reproductive tissues. DEAE fractogel analyses of NDPK activity in root tips, leaves, tubers and cell cultures suggest that NDPK1 constitutes the bulk of extractable NDPK activity in all these organs. NDPK activity and NDPK1 protein levels raised during the exponential growth phase of potato cell cultures whereas no rise in activity or NDPK1 protein was observed when sucrose concentration in the culture was manipulated to limit growth. Activity measurements, immunoblot analysis as well as immunolocalization experiments performed on potato root tips and shoot apical buds demonstrated that NDPK1 was predominantly localized in the meristematic zones and provascular tissues of the apical regions. These data suggest that NDPK1 plays a specific role in the supply of UTP during early growth of plant meristematic and provascular tissues.
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Affiliation(s)
- Sonia Dorion
- Institut de Recherche en Biologie Végétale, Université de Montréal, 4101 Rue Sherbrooke est, Montréal, PQ, Canada, H1X 2B2
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Lang P, Zhang CK, Ebel RC, Dane F, Dozier WA. Identification of cold acclimated genes in leaves of Citrus unshiu by mRNA differential display. Gene 2005; 359:111-8. [PMID: 16125877 DOI: 10.1016/j.gene.2005.06.013] [Citation(s) in RCA: 53] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2004] [Revised: 04/29/2005] [Accepted: 06/03/2005] [Indexed: 11/20/2022]
Abstract
Citrus unshiu is freeze tolerant to -10 degrees C when fully acclimated after exposure to cold, nonfreezing temperatures. To gain an understanding of its cold tolerance mechanism, mRNA differential display reverse transcriptase polymerase chain reaction (DDRT-PCR) and quantitative relative RT-PCR were used to study gene expression under a gradual cold-acclimation temperature regime. Six up-regulated and two down regulated genes were identified based on their amino acid sequences. The identified proteins encoded by the up-regulated genes were: 14-3-3 protein, 40S ribosomal protein S23, putative 60S ribosomal protein L15, nucleoside diphosphate kinase III protein, regulator of chromosome condensation-like protein, and amino acid permease 6. The proteins encoded by the two down-regulated genes were: miraculin-like protein and beta-galactosidase. Their individual function has been briefly reviewed based on published information. In addition to the findings in this study, we compared the function of cold responsive genes of Poncirus trifoliata, a very cold hardy relative of Citrus species that is freeze tolerant to -30 degrees C when fully acclimated, to the function of genes in the current study.
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Affiliation(s)
- Ping Lang
- Department of Horticulture, Auburn University, Auburn, AL, 36849 USA
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Taylor NL, Heazlewood JL, Day DA, Millar AH. Differential impact of environmental stresses on the pea mitochondrial proteome. Mol Cell Proteomics 2005; 4:1122-33. [PMID: 15914488 DOI: 10.1074/mcp.m400210-mcp200] [Citation(s) in RCA: 152] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Exposure to adverse environmental conditions causes oxidative stress in many organisms, leading either to disease and debilitation or to response and tolerance. Mitochondria are a key site of oxidative stress and of cellular response and play important roles in cell survival. We analyzed the response of mitochondria in pea (Pisum sativum) plants to the common stresses associated with drought, cold, and herbicides. These treatments all altered photosynthetic and respiratory rates of pea leaves to various extents, but only herbicides significantly increased lipid peroxidation product accumulation. Mitochondria isolated from the stressed pea plants maintained their electron transport chain activity, but changes were evident in the abundance of uncoupling proteins, non-phosphorylating respiratory pathways, and oxidative modification of lipoic acid moieties on mitochondrial proteins. These data suggest that herbicide treatment placed a severe oxidative stress on mitochondria, whereas chilling and particularly drought were milder stresses. Detailed analysis of the soluble proteome of mitochondria by gel electrophoresis and mass spectrometry revealed differential degradation of key matrix enzymes during treatments with chilling being significantly more damaging than drought. Differential induction of heat shock proteins and specific losses of other proteins illustrated the diversity of response to these stresses at the protein level. Cross-species matching was required for mass spectrometry identification of nine proteins because only a limited number of pea cDNAs have been sequenced, and the full pea genome is not available. Blue-native separation of intact respiratory chain complexes revealed little if any change in response to environmental stresses. Together these data suggest that although many of the molecular events identified by chemical stresses of mitochondria from a range of model eukaryotes are also apparent during environmental stress of plants, their extent and significance can vary substantially.
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Affiliation(s)
- Nicolas L Taylor
- The Plant Molecular Biology Group, Biochemistry and Molecular Biology, School of Biomedical and Chemical Sciences, The University of Western Australia, 35 Stirling Highway, Crawley 6009, Western Australia, Australia
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Huang JY, Chang T, Chang CY, Chen CJ. Crystal structure of nucleoside diphosphate kinase required for coleoptile elongation in rice (Oryza sativa L.). J Struct Biol 2005; 150:309-18. [PMID: 15890279 DOI: 10.1016/j.jsb.2005.02.010] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2004] [Revised: 02/15/2005] [Accepted: 02/20/2005] [Indexed: 02/06/2023]
Abstract
Nucleoside diphosphate kinase (NDK) is a ubiquitous enzyme found in all organisms and cell types, and catalyzes the transfer of the phosphoryl group from a nucleoside triphosphate to a nucleoside diphosphate. The enzyme is involved in and required for coleoptile elongation in rice as the level of the rice NDK (rNDK) changes during seed germination and the early stages of seedling growth. The expression of rice NDK gene is up-regulated in the growing coleoptiles when the anaerobic stress persists. The rNDK structure determined at 2.5 A resolution consists of a four-stranded anti-parallel beta-sheet, of which the surfaces are partially covered with six alpha-helices; its overall and active site structures are similar to those of homologous enzymes except the major conformation variations of residue 132-138 regions, involving significant structural contacts. The model contains 148 residues of 149 residues in total and averaged 19 water molecules per monomer for 12 molecules in an asymmetric unit. A mold of 12 superimposed molecules shows that the alphaA-alpha2 area has greater variations and higher temperature factors, indicating the flexibility for a substrate entrance. Hexameric molecular packing in both crystal and solution implies that rNDK functions as hexamers. This rNDK structure, which is the first NDK structure from a higher plant system, provides the structural information essential to understand the functional significance of this enzyme during growth and development in both rice and other plants.
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Affiliation(s)
- Jen-Yen Huang
- Biology Group, Research Division, National Synchrotron Radiation Research Center, Hsinchu 30076, Taiwan
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Hajheidari M, Abdollahian-Noghabi M, Askari H, Heidari M, Sadeghian SY, Ober ES, Salekdeh GH. Proteome analysis of sugar beet leaves under drought stress. Proteomics 2005; 5:950-60. [PMID: 15712235 DOI: 10.1002/pmic.200401101] [Citation(s) in RCA: 215] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Drought is one of the major factors limiting the yield of sugar beet (Beta vulgaris L.). The identification of candidate genes for marker-assisted selection (MAS) could greatly improve the efficiency of breeding for increased drought tolerance. Drought-induced changes in the proteome could highlight important genes. Two genotypes of sugar beet (7112 and 7219-P.69) differing in genetic background were cultivated in the field. A line-source sprinkler irrigation system was used to apply irrigated and water deficit treatments beginning at the four-leaf stage. At 157 days after sowing, leaf samples were collected from well-watered and drought-stressed plants for protein extraction and to measure shoot biomass and leaf relative water content. Changes induced in leaf proteins were studied by two-dimensional gel electrophoresis and quantitatively analyzed using image analysis software. Out of more than 500 protein spots reproducibly detected and analyzed, 79 spots showed significant changes under drought. Some proteins showed genotype-specific patterns of up- or downregulation in response to drought. Twenty protein spots were analyzed by liquid chromatography-tandem mass spectrometry (LC-MS/MS), leading to identification of Rubisco and 11 other proteins involved in redox regulation, oxidative stress, signal transduction, and chaperone activities. Some of these proteins could contribute a physiological advantage under drought, making them potential targets for MAS.
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Im YJ, Kim JI, Shen Y, Na Y, Han YJ, Kim SH, Song PS, Eom SH. Structural analysis of Arabidopsis thaliana nucleoside diphosphate kinase-2 for phytochrome-mediated light signaling. J Mol Biol 2004; 343:659-70. [PMID: 15465053 DOI: 10.1016/j.jmb.2004.08.054] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2004] [Revised: 08/17/2004] [Accepted: 08/18/2004] [Indexed: 12/14/2022]
Abstract
In plants, nucleoside diphosphate kinases (NDPKs) play a key role in the signaling of both stress and light. However, little is known about the structural elements involved in their function. Of the three NDPKs (NDPK1-NDPK3) expressed in Arabidopsis thaliana, NDPK2 is involved in phytochrome-mediated signal transduction. In this study, we found that the binding of dNDP or NTP to NDPK2 strengthens the interaction significantly between activated phytochrome and NDPK2. To better understand the structural basis of the phytochrome-NDPK2 interaction, we determined the X-ray structures of NDPK1, NDPK2, and dGTP-bound NDPK2 from A.thaliana at 1.8A, 2.6A, and 2.4A, respectively. The structures showed that nucleotide binding caused a slight conformational change in NDPK2 that was confined to helices alphaA and alpha2. This suggests that the presence of nucleotide in the active site and/or the evoked conformational change contributes to the recognition of NDPK2 by activated phytochrome. In vitro binding assays showed that only NDPK2 interacted specifically with the phytochrome and the C-terminal regulatory domain of phytochrome is involved in the interaction. A domain swap experiment between NDPK1 and NDPK2 showed that the variable C-terminal region of NDPK2 is important for the activation by phytochrome. The structure of Arabidopsis NDPK1 and NDPK2 showed that the isoforms share common electrostatic surfaces at the nucleotide-binding site, but the variable C-terminal regions have distinct electrostatic charge distributions. These findings suggest that the binding of nucleotide to NDPK2 plays a regulatory role in phytochrome signaling and that the C-terminal extension of NDPK2 provides a potential binding surface for the specific interaction with phytochromes.
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Affiliation(s)
- Young Jun Im
- Department of Life Science, Gwangju Institute of Science and Technology, Gwangju 500-712, South Korea
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Johansson M, Mackenzie-Hose A, Andersson I, Knorpp C. Structure and mutational analysis of a plant mitochondrial nucleoside diphosphate kinase. Identification of residues involved in serine phosphorylation and oligomerization. PLANT PHYSIOLOGY 2004; 136:3034-42. [PMID: 15466238 PMCID: PMC523365 DOI: 10.1104/pp.104.044040] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/02/2004] [Revised: 07/21/2004] [Accepted: 08/05/2004] [Indexed: 05/11/2023]
Abstract
We report the first crystal structure of a plant (Pisum sativum L. cv Oregon sugarpod) mitochondrial nucleoside diphosphate kinase. Similar to other eukaryotic nucleoside diphosphate kinases, the plant enzyme is a hexamer; the six monomers in the asymmetric unit are arranged as trimers of dimers. Different functions of the kinase have been correlated with the oligomeric structure and the phosphorylation of Ser residues. We show that the occurrence of Ser autophosphorylation depends on enzymatic activity. The mutation of the strictly conserved Ser-119 to Ala reduced the Ser phosphorylation to about one-half of that observed in wild type with only a modest change of enzyme activity. We also show that mutating another strictly conserved Ser, Ser-69, to Ala reduces the enzyme activity to 6% and 14% of wild-type using dCDP and dTDP as acceptors, respectively. Changes in the oligomerization pattern of the S69A mutant were observed by cross-linking experiments. A reduction in trimer formation and a change in the dimer interaction could be detected with a concomitant increase of tetramers. We conclude that the S69 mutant is involved in the stabilization of the oligomeric state of this plant nucleoside diphosphate kinase.
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Affiliation(s)
- Monika Johansson
- Department of Plant Biology and Forest Genetics, Swedish University of Agricultural Sciences, S-750 07 Uppsala, Sweden
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48
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Selection of Transgenic Potato Plants Expressing NDP Kinase 2 Gene with Enhanced Tolerance to Oxidative Stress. ACTA ACUST UNITED AC 2004. [DOI: 10.5010/jpb.2004.31.3.191] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Lin X, Momany C, Momany M. SwoHp, a nucleoside diphosphate kinase, is essential in Aspergillus nidulans. EUKARYOTIC CELL 2004; 2:1169-77. [PMID: 14665452 PMCID: PMC326647 DOI: 10.1128/ec.2.6.1169-1177.2003] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The temperature-sensitive swoH1 mutant of Aspergillus nidulans was previously identified in a screen for mutants with defects in polar growth. In the present work, we found that the swoH1 mutant swelled, lysed, and did not produce conidia during extended incubation at the restrictive temperature. When shifted from the permissive to the restrictive temperature, swoH1 showed the temperature-sensitive swelling phenotype only after 8 h at the higher temperature. The swoH gene was mapped to chromosome II and cloned by complementation of the temperature-sensitive phenotype. The sequence showed that swoH encodes a homologue of nucleoside diphosphate kinases (NDKs) from other organisms. Deletion experiments showed that the swoH gene is essential. A hemagglutinin-SwoHp fusion complemented the mutant phenotype, and the purified fusion protein possessed phosphate transferase activity in thin-layer chromatography assays. Sequencing of the mutant allele showed a predicted V83F change. Structural modeling suggested that the swoH1 mutation would lead to perturbation of the NDK active site. Crude cell extracts from the swoH1 mutant grown at the permissive temperature had approximately 20% of the NDK activity seen in the wild type and did not show any decrease in activity when assayed at higher temperatures. Though the data are not conclusive, the lack of temperature-sensitive NDK activity in the swoH1 mutant raises the intriguing possibility that the SwoH NDK is required for growth at elevated temperatures rather than for polarity maintenance.
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Affiliation(s)
- Xiaorong Lin
- Department of Plant Biology, Department of Pharmaceutical and Biomedical Sciences, University of Georgia, Athens, Georgia 30602
| | - Cory Momany
- Department of Plant Biology, Department of Pharmaceutical and Biomedical Sciences, University of Georgia, Athens, Georgia 30602
| | - Michelle Momany
- Department of Plant Biology, Department of Pharmaceutical and Biomedical Sciences, University of Georgia, Athens, Georgia 30602
- Corresponding author. Mailing address: Michelle Momany, Department of Plant Biology, University of Georgia, Athens, GA 30602. Phone: (706) 542-2014. Fax: (706) 542-1805. E-mail:
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Knorpp C, Johansson M, Baird AM. Plant mitochondrial nucleoside diphosphate kinase is attached to the membrane through interaction with the adenine nucleotide translocator. FEBS Lett 2003; 555:363-6. [PMID: 14644443 DOI: 10.1016/s0014-5793(03)01288-2] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
This study shows that the plant mitochondrial nucleoside diphosphate kinase (mNDPK) localizes to both the intermembrane space and to the mitochondrial inner membrane. We show that mNDPK is very firmly attached to the membrane. Co-immunoprecipitation experiments identified the adenine nucleotide translocator as an interaction partner. This is the first report showing a direct association between these two proteins, although previous studies have shown metabolic cooperation between them. Possible consequences for mitochondrial energy metabolism are discussed.
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Affiliation(s)
- Carina Knorpp
- Department of Plant Biology and Forest Genetics, The Swedish University of Agricultural Sciences, Box 7080, S-750 07 Uppsala, Sweden.
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