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Mao L, Dai Y, Huang Y, Yang S, Sun H, Zhou Y, Sun Y, Yang B, Zou X, Liu Z. Studying the effect of light intensity on the photosynthetic mechanism of pepper leaf yellowing mutants by proteomics and phosphoproteomics. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2023; 334:111763. [PMID: 37321305 DOI: 10.1016/j.plantsci.2023.111763] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2022] [Revised: 06/03/2023] [Accepted: 06/07/2023] [Indexed: 06/17/2023]
Abstract
The leaf is an important plant organ and is closely related to agricultural yield. Photosynthesis plays a critical role in promoting plant growth and development. Understanding the mechanism of leaf photosynthesis regulation will help improve crop yield. In this study, the pepper yellowing mutant was used as the experimental material, and the photosynthetic changes of pepper leaves (yl1 and 6421) under different light intensities were analyzed by chlorophyll fluorimeter and photosynthesis meter. Changes in proteins and enrichment of phosphopeptides in pepper leaves were determined. The results showed that different light intensities had significant effects on the chlorophyll fluorescence and photosynthetic parameters of pepper leaves. The differentially expressed proteins (DEPs) and differentially expressed phosphorylated proteins (DEPPs) were mainly involved in photosynthesis, photosynthesis-antenna proteins, and carbon fixation in photosynthetic organisms. In yl1 leaves, the phosphorylation levels of photosynthesis and photosynthesis-antenna proteins LHCA2, LHCA3, PsbC, PsbO, and PsbP were lower under low light treatment, but significantly higher under high light intensity compared with wild-type leaves. In addition, many proteins involved in the carbon assimilation pathway, including TKT, Rubisco, and PGK, were phosphorylated, and this modification level was significantly higher in yl1 than in the wild type under high light intensity. These results provide a new perspective for studying the photosynthesis mechanism of pepper under different light intensities.
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Affiliation(s)
- Lianzhen Mao
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Yunhua Dai
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Yu Huang
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Sha Yang
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Hao Sun
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Yao Zhou
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Ying Sun
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Bozhi Yang
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China
| | - Xuexiao Zou
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China.
| | - Zhoubin Liu
- Engineering Research Center for Horticultural Crop Germplasm Creation and New Variety Breeding, Ministry of Education, College of Horticulture, Hunan Agricultural University, Changsha 410128, Hunan, China; Key Laboratory of Vegetable Biology of Hunan Province, Changsha 410128, Hunan, China.
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Mohi Ud Din A, Mao HT, Khan A, Raza MA, Ahmed M, Yuan M, Zhang ZW, Yuan S, Zhang HY, Liu ZH, Su YQ, Chen YE. Photosystems and antioxidative system of rye, wheat and triticale under Pb stress. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 249:114356. [PMID: 36508799 DOI: 10.1016/j.ecoenv.2022.114356] [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: 07/25/2022] [Revised: 11/24/2022] [Accepted: 11/26/2022] [Indexed: 06/17/2023]
Abstract
Lead (Pb2+) pollution in the soil sub-ecosystem has been a continuously growing problem due to economic development and ever-increasing anthropogenic activities across the world. In this study, the photosynthetic performance and antioxidant capacity of Triticeae cereals (rye, wheat and triticale) were compared to assess the activities of antioxidants, the degree of oxidative damage, photochemical efficiency and the levels of photosynthetic proteins under Pb stress (0.5 mM, 1 mM and 2 mM Pb (NO3)2). Compared with triticale, Pb treatments imposed severe oxidative damage in rye and wheat. In addition, the highest activity of major antioxidant enzymes (SOD, POD, CAT, and GPX) was also found to be elevated. Triticale accumulated the highest Pb contents in roots. The concentration of mineral ions (Mg, Ca, and K) was also high in its leaves, compared with rye and wheat. Consistently, triticale showed higher photosynthetic activity under Pb stress. Immunoblotting of proteins revealed that rye and wheat have significantly lower levels of D1 (photosystem II subunit A, PsbA) and D2 (photosystem II subunit D, PsbD) proteins, while no obvious decrease was noticed in triticale. The amount of light-harvesting complex II b6 (Lhcb6; CP24) and light-harvesting complex II b5 (Lhcb5; CP26) was significantly increased in rye and wheat. However, the increase in PsbS (photosystem II subunit S) protein only occurred in wheat and triticale exposed to Pb treatment. Taken together, these findings demonstrate that triticale shows higher antioxidant capacity and photosynthetic efficiency than wheat and rye under Pb stress, suggesting that triticale has high tolerance to Pb and could be used as a heavy metal-tolerant plant.
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Affiliation(s)
- Atta Mohi Ud Din
- College of Life Science, Sichuan Agricultural University, 625014 Ya'an, China; Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China; National Research Center of Intercropping, The Islamia University of Bahawalpur, Bahawalpur 63100, Pakistan
| | - Hao-Tian Mao
- College of Life Science, Sichuan Agricultural University, 625014 Ya'an, China
| | - Ahsin Khan
- College of Life Science, Sichuan Agricultural University, 625014 Ya'an, China
| | - Muhammad Ali Raza
- National Research Center of Intercropping, The Islamia University of Bahawalpur, Bahawalpur 63100, Pakistan; Gansu Academy of Agricultural Sciences, Lanzhou, Gansu, China
| | - Mukhtar Ahmed
- Department of Agronomy, PMAS Arid Agricultural University, Rawalpindi 46300, Pakistan
| | - Ming Yuan
- College of Life Science, Sichuan Agricultural University, 625014 Ya'an, China
| | - Zhong-Wei Zhang
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Shu Yuan
- College of Resources, Sichuan Agricultural University, Chengdu 611130, China
| | - Huai-Yu Zhang
- College of Life Science, Sichuan Agricultural University, 625014 Ya'an, China
| | - Zheng-Hui Liu
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Yan-Qiu Su
- College of Life Science, Sichuan Normal University, Chengdu 610101, China
| | - Yang-Er Chen
- College of Life Science, Sichuan Agricultural University, 625014 Ya'an, China.
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3
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Gao ZF, Yang X, Mei Y, Zhang J, Chao Q, Wang BC. A dynamic phosphoproteomic analysis provides insight into the C4 plant maize (Zea mays L.) response to natural diurnal changes. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 113:291-307. [PMID: 36440987 DOI: 10.1111/tpj.16047] [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: 03/23/2022] [Revised: 11/22/2022] [Accepted: 11/25/2022] [Indexed: 06/16/2023]
Abstract
As sessile organisms, plants need to respond to rapid changes in numerous environmental factors, mainly diurnal changes of light, temperature, and humidity. Maize is the world's most grown crop, and as a C4 plant it exhibits high photosynthesis capacity, reaching the highest rate of net photosynthesis at midday; that is, there is no "midday depression." Revealing the physiological responses to diurnal changes and underlying mechanisms will be of great significance for guiding maize improvement efforts. In this study, we collected maize leaf samples and analyzed the proteome and phosphoproteome at nine time points during a single day/night cycle, quantifying 7424 proteins and 5361 phosphosites. The new phosphosites identified in our study increased the total maize phosphoproteome coverage by 8.5%. Kinase-substrate network analysis indicated that 997 potential substrates were phosphorylated by 20 activated kinases. Through analysis of proteins with significant changes in abundance and phosphorylation, we found that the response to a heat stimulus involves a change in the abundance of numerous proteins. By contrast, the high light at noon and rapidly changing light conditions induced changes in the phosphorylation level of proteins involved in processes such as chloroplast movement, photosynthesis, and C4 pathways. Phosphorylation is involved in regulating the activity of large number of enzymes; for example, phosphorylation of S55 significantly enhanced the activity of maize phosphoenolpyruvate carboxykinase1 (ZmPEPCK1). Overall, the database of dynamic protein abundance and phosphorylation we have generated provides a resource for the improvement of C4 crop plants.
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Affiliation(s)
- Zhi-Fang Gao
- Key Laboratory of Photobiology, CAS, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of the Chinese Academy of Sciences, Beijing, 100049, China
| | - Xiu Yang
- Key Laboratory of Photobiology, CAS, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of the Chinese Academy of Sciences, Beijing, 100049, China
| | - Yingchang Mei
- Key Laboratory of Photobiology, CAS, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of the Chinese Academy of Sciences, Beijing, 100049, China
| | - Jiao Zhang
- Key Laboratory of Photobiology, CAS, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of the Chinese Academy of Sciences, Beijing, 100049, China
| | - Qing Chao
- Key Laboratory of Photobiology, CAS, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of the Chinese Academy of Sciences, Beijing, 100049, China
- Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100093, China
| | - Bai-Chen Wang
- Key Laboratory of Photobiology, CAS, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of the Chinese Academy of Sciences, Beijing, 100049, China
- Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100093, China
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Longoni FP, Goldschmidt-Clermont M. Thylakoid Protein Phosphorylation in Chloroplasts. PLANT & CELL PHYSIOLOGY 2021; 62:1094-1107. [PMID: 33768241 DOI: 10.1093/pcp/pcab043] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2021] [Accepted: 03/19/2021] [Indexed: 06/12/2023]
Abstract
Because of their abundance and extensive phosphorylation, numerous thylakoid proteins stand out amongst the phosphoproteins of plants and algae. In particular, subunits of light-harvesting complex II (LHCII) and of photosystem II (PSII) are dynamically phosphorylated and dephosphorylated in response to light conditions and metabolic demands. These phosphorylations are controlled by evolutionarily conserved thylakoid protein kinases and counteracting protein phosphatases, which have distinct but partially overlapping substrate specificities. The best characterized are the kinases STATE TRANSITION 7 (STN7/STT7) and STATE TRANSITION 8 (STN8), and the antagonistic phosphatases PROTEIN PHOSPHATASE 1/THYLAKOID-ASSOCIATED PHOSPHATASE 38 (PPH1/TAP38) and PHOTOSYSTEM II CORE PHOSPHATASE (PBCP). The phosphorylation of LHCII is mainly governed by STN7 and PPH1/TAP38 in plants. LHCII phosphorylation is essential for state transitions, a regulatory feedback mechanism that controls the allocation of this antenna to either PSII or PSI, and thus maintains the redox balance of the electron transfer chain. Phosphorylation of several core subunits of PSII, regulated mainly by STN8 and PBCP, correlates with changes in thylakoid architecture, the repair cycle of PSII after photodamage as well as regulation of light harvesting and of alternative routes of photosynthetic electron transfer. Other kinases, such as the PLASTID CASEIN KINASE II (pCKII), also intervene in thylakoid protein phosphorylation and take part in the chloroplast kinase network. While some features of thylakoid phosphorylation were conserved through the evolution of photosynthetic eukaryotes, others have diverged in different lineages possibly as a result of their adaptation to varied environments.
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Affiliation(s)
- Fiamma Paolo Longoni
- Laboratory of Plant Physiology, Institute of Biology, University of Neuchâtel, Neuchâtel 2000, Switzerland
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5
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Oliver J, Fan M, McKinley B, Zemelis‐Durfee S, Brandizzi F, Wilkerson C, Mullet JE. The AGCVIII kinase Dw2 modulates cell proliferation, endomembrane trafficking, and MLG/xylan cell wall localization in elongating stem internodes of Sorghum bicolor. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2021; 105:1053-1071. [PMID: 33211340 PMCID: PMC7983884 DOI: 10.1111/tpj.15086] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Revised: 11/06/2020] [Accepted: 11/12/2020] [Indexed: 05/31/2023]
Abstract
Stems of bioenergy sorghum (Sorghum bicolor L. Moench.), a drought-tolerant C4 grass, contain up to 50 nodes and internodes of varying length that span 4-5 m and account for approximately 84% of harvested biomass. Stem internode growth impacts plant height and biomass accumulation and is regulated by brassinosteroid signaling, auxin transport, and gibberellin biosynthesis. In addition, an AGCVIII kinase (Dw2) regulates sorghum stem internode growth, but the underlying mechanism and signaling network are unknown. Here we provide evidence that mutation of Dw2 reduces cell proliferation in internode intercalary meristems, inhibits endocytosis, and alters the distribution of heteroxylan and mixed linkage glucan in cell walls. Phosphoproteomic analysis showed that Dw2 signaling influences the phosphorylation of proteins involved in lipid signaling (PLDδ), endomembrane trafficking, hormone, light, and receptor signaling, and photosynthesis. Together, our results show that Dw2 modulates endomembrane function and cell division during sorghum internode growth, providing insight into the regulation of monocot stem development.
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Affiliation(s)
- Joel Oliver
- Department of Biochemistry & BiophysicsTexas A&M UniversityCollege StationTexas77843USA
| | - Mingzhu Fan
- Department of Plant BiologyMichigan State UniversityEast LansingMichigan48824USA
- Great Lakes Bioenergy Research CenterMichigan State UniversityEast LansingMichigan48824USA
| | - Brian McKinley
- Department of Biochemistry & BiophysicsTexas A&M UniversityCollege StationTexas77843USA
| | - Starla Zemelis‐Durfee
- MSU‐DOE Plant Research LabMichigan State UniversityEast LansingMichigan48824USA
- Great Lakes Bioenergy Research CenterMichigan State UniversityEast LansingMichigan48824USA
| | - Federica Brandizzi
- MSU‐DOE Plant Research LabMichigan State UniversityEast LansingMichigan48824USA
- Department of Plant BiologyMichigan State UniversityEast LansingMichigan48824USA
- Great Lakes Bioenergy Research CenterMichigan State UniversityEast LansingMichigan48824USA
| | - Curtis Wilkerson
- Department of Plant BiologyMichigan State UniversityEast LansingMichigan48824USA
- Great Lakes Bioenergy Research CenterMichigan State UniversityEast LansingMichigan48824USA
- Department of Biochemistry and Molecular BiologyMichigan State UniversityEast LansingMichigan48824USA
| | - John E. Mullet
- Department of Biochemistry & BiophysicsTexas A&M UniversityCollege StationTexas77843USA
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6
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Cutolo E, Parvin N, Ruge H, Pirayesh N, Roustan V, Weckwerth W, Teige M, Grieco M, Larosa V, Vothknecht UC. The High Light Response in Arabidopsis Requires the Calcium Sensor Protein CAS, a Target of STN7- and STN8-Mediated Phosphorylation. FRONTIERS IN PLANT SCIENCE 2019; 10:974. [PMID: 31417591 PMCID: PMC6682602 DOI: 10.3389/fpls.2019.00974] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2019] [Accepted: 07/11/2019] [Indexed: 05/18/2023]
Abstract
Reversible phosphorylation of thylakoid proteins contributes to photoacclimation responses in photosynthetic organisms, enabling the fine-tuning of light harvesting under changing light conditions and promoting the onset of photoprotective processes. However, the precise functional role of many of the described phosphorylation events on thylakoid proteins remains elusive. The calcium sensor receptor protein (CAS) has previously been indicated as one of the targets of the state transition kinase 8 (STN8). Here we show that in Arabidopsis thaliana, CAS is also phosphorylated by the state transition kinase 7 (STN7), as well as by another, so-far unknown, Ca2+-dependent kinase. Phosphoproteomics analysis and in vitro phosphorylation assays on CAS variants identified the phylogenetically conserved residues Thr-376, Ser-378, and Thr-380 as the major phosphorylation sites of the STN kinases. Spectroscopic analyses of chlorophyll fluorescence emission at 77K further showed that, while the cas mutant is not affected in state transition, it displays a persistent strong excitation of PSI under high light exposure, similar to the phenotype previously observed in other mutants defective in photoacclimation mechanisms. Together with the observation of a strong concomitant phosphorylation of light harvesting complex II (LHCII) and photosynthetic core proteins under high irradiance in the cas mutant this suggests a role for CAS in the STN7/STN8/TAP38 network of phosphorylation-mediated photoacclimation processes in Arabidopsis.
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Affiliation(s)
- Edoardo Cutolo
- Plant Cell Biology, Institut für Zelluläre und Molekulare Botanik, University of Bonn, Bonn, Germany
| | - Nargis Parvin
- Department of Plant Nutrition, Institut für Nutzpflanzenwissenschaften und Ressourcenschutz, University of Bonn, Bonn, Germany
| | - Henning Ruge
- Department of Biology I, Ludwig Maximilian University of Munich, Munich, Germany
| | - Niloufar Pirayesh
- Plant Cell Biology, Institut für Zelluläre und Molekulare Botanik, University of Bonn, Bonn, Germany
| | - Valentin Roustan
- Department of Molecular Systems Biology, University of Vienna, Vienna, Austria
| | - Wolfram Weckwerth
- Department of Molecular Systems Biology, University of Vienna, Vienna, Austria
| | - Markus Teige
- Department of Molecular Systems Biology, University of Vienna, Vienna, Austria
| | - Michele Grieco
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany
| | - Veronique Larosa
- Laboratory of Genetics and Physiology of Microalgae, InBios, University of Liège, Liège, Belgium
| | - Ute C. Vothknecht
- Plant Cell Biology, Institut für Zelluläre und Molekulare Botanik, University of Bonn, Bonn, Germany
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Baginsky S. Protein phosphorylation in chloroplasts - a survey of phosphorylation targets. JOURNAL OF EXPERIMENTAL BOTANY 2016; 67:3873-82. [PMID: 26969742 DOI: 10.1093/jxb/erw098] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
The development of new software tools, improved mass spectrometry equipment, a suite of optimized scan types, and better-quality phosphopeptide affinity capture have paved the way for an explosion of mass spectrometry data on phosphopeptides. Because phosphoproteomics achieves good sensitivity, most studies use complete cell extracts for phosphopeptide enrichment and identification without prior enrichment of proteins or subcellular compartments. As a consequence, the phosphoproteome of cell organelles often comes as a by-product from large-scale studies and is commonly assembled from these in meta-analyses. This review aims at providing some guidance on the limitations of meta-analyses that combine data from analyses with different scopes, reports on the current status of knowledge on chloroplast phosphorylation targets, provides initial insights into phosphorylation site conservation in different plant species, and highlights emerging information on the integration of gene expression with metabolism and photosynthesis by means of protein phosphorylation.
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Affiliation(s)
- Sacha Baginsky
- Institute of Biochemistry and Biotechnology, Martin-Luther-University Halle-Wittenberg, Weinbergweg 22, 06120 Halle (Saale), Germany
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8
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Chen YE, Yuan S, Schröder WP. Comparison of methods for extracting thylakoid membranes of Arabidopsis plants. PHYSIOLOGIA PLANTARUM 2016; 156:3-12. [PMID: 26337850 DOI: 10.1111/ppl.12384] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2015] [Revised: 06/18/2015] [Accepted: 07/15/2015] [Indexed: 05/27/2023]
Abstract
Robust and reproducible methods for extracting thylakoid membranes are required for the analysis of photosynthetic processes in higher plants such as Arabidopsis. Here, we compare three methods for thylakoid extraction using two different buffers. Method I involves homogenizing the plant material with a metal/glass blender; method II involves manually grinding the plant material in ice-cold grinding buffer with a mortar and method III entails snap-freezing followed by manual grinding with a mortar, after which the frozen powder is thawed in isolation buffer. Thylakoid membrane samples extracted using each method were analyzed with respect to protein and chlorophyll content, yields relative to starting material, oxygen-evolving activity, protein complex content and phosphorylation. We also examined how the use of fresh and frozen thylakoid material affected the extracts' contents of protein complexes. The use of different extraction buffers did not significantly alter the protein content of the extracts in any case. Method I yielded thylakoid membranes with the highest purity and oxygen-evolving activity. Method III used low amounts of starting material and was capable of capturing rapid phosphorylation changes in the sample at the cost of higher levels of contamination. Method II yielded thylakoid membrane extracts with properties intermediate between those obtained with the other two methods. Finally, frozen and freshly isolated thylakoid membranes performed identically in blue native-polyacrylamide gel electrophoresis experiments conducted in order to separate multimeric protein supracomplexes.
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Affiliation(s)
- Yang-Er Chen
- Department of Chemistry, University of Umeå, Umeå, SE-901 87, Sweden
- College of Life Sciences, Sichuan Agricultural University, Ya'an, 625014, China
| | - Shu Yuan
- College of Resources and Environmental Sciences, Sichuan Agricultural University, Chengdu, 611130, China
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Zienkiewicz M, Drożak A, Wasilewska W, Bacławska I, Przedpełska-Wąsowicz E, Romanowska E. The short-term response of Arabidopsis thaliana (C3) and Zea mays (C4) chloroplasts to red and far red light. PLANTA 2015; 242:1479-93. [PMID: 26318309 DOI: 10.1007/s00425-015-2392-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Accepted: 08/24/2015] [Indexed: 05/05/2023]
Abstract
Light quality has various effects on photochemistry and protein phosphorylation in Zea mays and Arabidopsis thaliana thylakoids due to different degrees of light penetration across leaves and redox status in chloroplasts. The effect of the spectral quality of light (red, R and far red, FR) on the function of thylakoid proteins in Zea mays and Arabidopsis thaliana was investigated. It was concluded that red light stimulates PSII activity in A. thaliana thylakoids and in maize bundle sheath (BS) thylakoids, but not in mesophyll (M) thylakoids. The light quality did not change PSI activity in M thylakoids of maize. FR used after a white light period increased PSI activity significantly in maize BS and only slightly in A. thaliana thylakoids. As shown by blue native (BN)-PAGE followed by SDS-PAGE, proteins were differently phosphorylated in the thylakoids, indicating their different functions. FR light increased dephosphorylation of LHCII proteins in A. thaliana thylakoids, whereas in maize, dephosphorylation did not occur at all. The rate of phosphorylation was higher in maize BS than in M thylakoids. D1 protein phosphorylation increased in maize and decreased in A. thaliana upon irradiation with both R and growth light (white light, W). Light variations did not change the level of proteins in thylakoids. Our data strongly suggest that response to light quality is a species-dependent phenomenon. We concluded that the maize chloroplasts were differently stimulated, probably due to different degrees of light penetration across the leaf and thereby the redox status in the chloroplasts. These acclimation changes induced by light quality are important in the regulation of chloroplast membrane flexibility and thus its function.
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Affiliation(s)
- Maksymilian Zienkiewicz
- Department of Molecular Plant Physiology, Faculty of Biology, University of Warsaw, Miecznikowa 1, 02-096, Warsaw, Poland
| | - Anna Drożak
- Department of Molecular Plant Physiology, Faculty of Biology, University of Warsaw, Miecznikowa 1, 02-096, Warsaw, Poland
| | - Wioleta Wasilewska
- Department of Molecular Plant Physiology, Faculty of Biology, University of Warsaw, Miecznikowa 1, 02-096, Warsaw, Poland
| | - Ilona Bacławska
- Department of Molecular Plant Physiology, Faculty of Biology, University of Warsaw, Miecznikowa 1, 02-096, Warsaw, Poland
| | - Ewa Przedpełska-Wąsowicz
- Department of Molecular Plant Physiology, Faculty of Biology, University of Warsaw, Miecznikowa 1, 02-096, Warsaw, Poland
| | - Elżbieta Romanowska
- Department of Molecular Plant Physiology, Faculty of Biology, University of Warsaw, Miecznikowa 1, 02-096, Warsaw, Poland.
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10
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Phosphorylation stoichiometry determination in plant photosynthetic membranes. Methods Mol Biol 2015; 1306:121-34. [PMID: 25930698 DOI: 10.1007/978-1-4939-2648-0_9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/22/2023]
Abstract
This chapter describes different strategies for the study of phosphorylation dynamics and stoichiometry in photosynthetic membranes. Detailed procedures for the detection, large-scale identification, and quantification of phosphorylated proteins optimized for plant thylakoid proteins are given.
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11
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Jorrín-Novo JV, Pascual J, Sánchez-Lucas R, Romero-Rodríguez MC, Rodríguez-Ortega MJ, Lenz C, Valledor L. Fourteen years of plant proteomics reflected in Proteomics: moving from model species and 2DE-based approaches to orphan species and gel-free platforms. Proteomics 2015; 15:1089-112. [PMID: 25487722 DOI: 10.1002/pmic.201400349] [Citation(s) in RCA: 64] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2014] [Revised: 10/23/2014] [Accepted: 12/04/2014] [Indexed: 12/21/2022]
Abstract
In this article, the topic of plant proteomics is reviewed based on related papers published in the journal Proteomics since publication of the first issue in 2001. In total, around 300 original papers and 41 reviews published in Proteomics between 2000 and 2014 have been surveyed. Our main objective for this review is to help bridge the gap between plant biologists and proteomics technologists, two often very separate groups. Over the past years a number of reviews on plant proteomics have been published . To avoid repetition we have focused on more recent literature published after 2010, and have chosen to rather make continuous reference to older publications. The use of the latest proteomics techniques and their integration with other approaches in the "systems biology" direction are discussed more in detail. Finally we comment on the recent history, state of the art, and future directions of plant proteomics, using publications in Proteomics to illustrate the progress in the field. The review is organized into two major blocks, the first devoted to provide an overview of experimental systems (plants, plant organs, biological processes) and the second one to the methodology.
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Affiliation(s)
- Jesus V Jorrín-Novo
- Agroforestry and Plant Biochemistry and Proteomics Research Group, Department of Biochemistry and Molecular Biology, University of Cordoba-CeiA3, Cordoba, Spain
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Chao Q, Liu XY, Mei YC, Gao ZF, Chen YB, Qian CR, Hao YB, Wang BC. Light-regulated phosphorylation of maize phosphoenolpyruvate carboxykinase plays a vital role in its activity. PLANT MOLECULAR BIOLOGY 2014; 85:95-105. [PMID: 24435212 DOI: 10.1007/s11103-014-0171-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2013] [Accepted: 01/02/2014] [Indexed: 05/21/2023]
Abstract
Phosphoenolpyruvate carboxykinase (PEPCK)-the major decarboxylase in PEPCK-type C4 plants-is also present in appreciable amounts in the bundle sheath cells of NADP-malic enzyme-type C4 plants, such as maize (Zea mays), where it plays an apparent crucial role during photosynthesis (Wingler et al., in Plant Physiol 120(2):539-546, 1999; Furumoto et al., in Plant Mol Biol 41(3):301-311, 1999). Herein, we describe the use of mass spectrometry to demonstrate phosphorylation of maize PEPCK residues Ser55, Thr58, Thr59, and Thr120. Western blotting indicated that the extent of Ser55 phosphorylation dramatically increases in the leaves of maize seedlings when the seedlings are transferred from darkness to light, and decreases in the leaves of seedlings transferred from light to darkness. The effect of light on phosphorylation of this residue is opposite that of the effect of light on PEPCK activity, with the decarboxylase activity of PEPCK being less in illuminated leaves than in leaves left in the dark. This inverse relationship between PEPCK activity and the extent of phosphorylation suggests that the suppressive effect of light on PEPCK decarboxylation activity might be mediated by reversible phosphorylation of Ser55.
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Affiliation(s)
- Qing Chao
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, No. 20 Nanxincun, Xiangshan, Beijing, 100093, China
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13
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Li MW, Qi X, Ni M, Lam HM. Silicon era of carbon-based life: application of genomics and bioinformatics in crop stress research. Int J Mol Sci 2013; 14:11444-83. [PMID: 23759993 PMCID: PMC3709742 DOI: 10.3390/ijms140611444] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2013] [Revised: 05/07/2013] [Accepted: 05/17/2013] [Indexed: 01/25/2023] Open
Abstract
Abiotic and biotic stresses lead to massive reprogramming of different life processes and are the major limiting factors hampering crop productivity. Omics-based research platforms allow for a holistic and comprehensive survey on crop stress responses and hence may bring forth better crop improvement strategies. Since high-throughput approaches generate considerable amounts of data, bioinformatics tools will play an essential role in storing, retrieving, sharing, processing, and analyzing them. Genomic and functional genomic studies in crops still lag far behind similar studies in humans and other animals. In this review, we summarize some useful genomics and bioinformatics resources available to crop scientists. In addition, we also discuss the major challenges and advancements in the "-omics" studies, with an emphasis on their possible impacts on crop stress research and crop improvement.
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Affiliation(s)
- Man-Wah Li
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
| | - Xinpeng Qi
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
| | - Meng Ni
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
| | - Hon-Ming Lam
- Center for Soybean Research, State Key Laboratory of Agrobiotechnology and School of Life Sciences, the Chinese University of Hong Kong, Shatin, N.T., Hong Kong; E-Mails: (M.-W.L.); (X.Q.); (M.N.)
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Chen YE, Zhao ZY, Zhang HY, Zeng XY, Yuan S. The significance of CP29 reversible phosphorylation in thylakoids of higher plants under environmental stresses. JOURNAL OF EXPERIMENTAL BOTANY 2013; 64:1167-78. [PMID: 23349136 DOI: 10.1093/jxb/ert002] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
Reversible phosphorylation of proteins is a key event in many fundamental cellular processes. Under stressful conditions, many thylakoid membrane proteins in photosynthetic apparatus of higher plants undergo rapid phosphorylation and dephosphorylation in response to environmental changes. CP29 is the most frequently phosphorylated protein among three minor antennae complexes in higher plants. CP29 phosphorylation in dicotyledons has been known for several decades and is well characterized. However, CP29 phosphorylation in monocotyledons is less studied and appears to have a different phosphorylation pattern. In this review, we discuss recent advancements in CP29 phosphorylation and dephosphorylation studies and its physiological significance under environmental stresses in higher plants, especially in the monocotyledonous crops. Physiologically, the phosphorylation of CP29 is likely to be a prerequisite for state transitions and the disassembly of photosystem II supercomplexes, but not involved in non-photochemical quenching (NPQ). CP29 is phosphorylated in monocots exposed to environmental cues, with its subsequent lateral migration from grana stacks to stroma lamellae. However, neither CP29 phosphorylation nor its lateral migration occurs in dicotyledonous plants after drought, cold, or salt stress. Since the molecular mechanisms of differential CP29 phosphorylation under stresses are not fully understood, this review provides insights for future studies regarding the physiological function of CP29 reversible phosphorylation.
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Affiliation(s)
- Yang-Er Chen
- Isotope Research Laboratory, College of Life and Basic Sciences, Sichuan Agriculture University, Ya'an 625014, China.
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