1
|
Wei G, Wang C, Lei X, Gao X, Li J, Zhang S, Guo J. IodoTMT-labeled redox proteomics reveals the involvement of oxidative post-translational modification in response to para-hydroxybenzoic acid and hydrogen peroxide stresses in poplar. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 259:115033. [PMID: 37224778 DOI: 10.1016/j.ecoenv.2023.115033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/08/2023] [Revised: 05/01/2023] [Accepted: 05/16/2023] [Indexed: 05/26/2023]
Abstract
Poplar is widely planted as an economic and ecological tree species. However, accumulation of the phenolic acid allelochemical para-hydroxybenzoic acid (pHBA) in soil is a severe threat to the growth and productivity of poplar. pHBA stress leads to excessive production of reactive oxygen species (ROS). However, it is unclear which redox-sensitive proteins are involved in the pHBA-induced cellular homeostasis regulatory mechanism. We here identified reversible redox-modified proteins and modified cysteine (Cys) sites in exogenous pHBA- and hydrogen peroxide (H2O2)-treated poplar seedling leaves by using the iodoacetyl tandem mass tag-labeled redox proteomics method. In total, 4786 redox modification sites were identified in 3176 proteins, with 104 and 91 proteins being differentially modified at 118 and 101 Cys sites in response to pHBA and H2O2 stresses, respectively. The differentially modified proteins (DMPs) were predicted to be mainly localized in the chloroplast and cytoplasm, with most proteins being enzymes with catalytic activities. The KEGG enrichment analysis of these DMPs revealed that proteins related to the MAPK signaling pathway, soluble sugar metabolism, amino acid metabolism, photosynthesis, and phagosome pathways were extensively regulated by redox modifications. Moreover, combined with our previous quantitative proteomics data, 8 proteins were upregulated and oxidized under both pHBA and H2O2 stresses. Reversible oxidation of Cys sites in these proteins might be actively responsible for the regulation of tolerance to pHBA-induced oxidative stress. Based on the aforementioned results, a redox regulatory model activated by pHBA- and H2O2-induced oxidative stress was proposed. This study conducts the first redox proteomics analysis of poplar in response to pHBA stress and provides a new insight into the mechanistic framework of reversible oxidative post-translational modifications to gain a better understanding of pHBA-induced chemosensory effects on poplar.
Collapse
Affiliation(s)
- Guoqing Wei
- State Forestry and Grassland Administration Key Laboratory of Silviculture in Downstream Areas of the Yellow River, College of Forestry, Shandong Agricultural University, Tai'an, 271018, China
| | - Changxi Wang
- State Forestry and Grassland Administration Key Laboratory of Silviculture in Downstream Areas of the Yellow River, College of Forestry, Shandong Agricultural University, Tai'an, 271018, China
| | - Xiaoyan Lei
- State Forestry and Grassland Administration Key Laboratory of Silviculture in Downstream Areas of the Yellow River, College of Forestry, Shandong Agricultural University, Tai'an, 271018, China
| | - Xue Gao
- State Forestry and Grassland Administration Key Laboratory of Silviculture in Downstream Areas of the Yellow River, College of Forestry, Shandong Agricultural University, Tai'an, 271018, China
| | - Junru Li
- State Forestry and Grassland Administration Key Laboratory of Silviculture in Downstream Areas of the Yellow River, College of Forestry, Shandong Agricultural University, Tai'an, 271018, China
| | - Shuyong Zhang
- State Forestry and Grassland Administration Key Laboratory of Silviculture in Downstream Areas of the Yellow River, College of Forestry, Shandong Agricultural University, Tai'an, 271018, China.
| | - Jing Guo
- State Forestry and Grassland Administration Key Laboratory of Silviculture in Downstream Areas of the Yellow River, College of Forestry, Shandong Agricultural University, Tai'an, 271018, China.
| |
Collapse
|
2
|
Smythers AL, Bhatnagar N, Ha C, Majumdar P, McConnell EW, Mohanasundaram B, Hicks LM, Pandey S. Abscisic acid-controlled redox proteome of Arabidopsis and its regulation by heterotrimeric Gβ protein. THE NEW PHYTOLOGIST 2022; 236:447-463. [PMID: 35766993 DOI: 10.1111/nph.18348] [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: 04/01/2022] [Accepted: 06/18/2022] [Indexed: 06/15/2023]
Abstract
The plant hormone abscisic acid (ABA) plays crucial roles in regulation of stress responses and growth modulation. Heterotrimeric G-proteins are key mediators of ABA responses. Both ABA and G-proteins have also been implicated in intracellular redox regulation; however, the extent to which reversible protein oxidation manipulates ABA and/or G-protein signaling remains uncharacterized. To probe the role of reversible protein oxidation in plant stress response and its dependence on G-proteins, we determined the ABA-dependent reversible redoxome of wild-type and Gβ-protein null mutant agb1 of Arabidopsis. We quantified 6891 uniquely oxidized cysteine-containing peptides, 923 of which show significant changes in oxidation following ABA treatment. The majority of these changes required the presence of G-proteins. Divergent pathways including primary metabolism, reactive oxygen species response, translation and photosynthesis exhibited both ABA- and G-protein-dependent redox changes, many of which occurred on proteins not previously linked to them. We report the most comprehensive ABA-dependent plant redoxome and uncover a complex network of reversible oxidations that allow ABA and G-proteins to rapidly adjust cellular signaling to adapt to changing environments. Physiological validation of a subset of these observations suggests that functional G-proteins are required to maintain intracellular redox homeostasis and fully execute plant stress responses.
Collapse
Affiliation(s)
- Amanda L Smythers
- The University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | | | - Chien Ha
- Donald Danforth Plant Science Center, St Louis, MO, 63132, USA
| | | | - Evan W McConnell
- The University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | | | - Leslie M Hicks
- The University of North Carolina at Chapel Hill, Chapel Hill, NC, 27599, USA
| | - Sona Pandey
- Donald Danforth Plant Science Center, St Louis, MO, 63132, USA
| |
Collapse
|
3
|
Yu L, Dai Z, Zhang Y, Iqbal S, Lu S, Guo L, Yao X. Proteome-wide identification of S-sulfenylated cysteines reveals metabolic response to freezing stress after cold acclimation in Brassica napus. FRONTIERS IN PLANT SCIENCE 2022; 13:1014295. [PMID: 36275609 PMCID: PMC9580371 DOI: 10.3389/fpls.2022.1014295] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Accepted: 09/08/2022] [Indexed: 06/16/2023]
Abstract
Redox regulation plays a wide role in plant growth, development, and adaptation to stresses. Sulfenylation is one of the reversible oxidative post-transcriptional modifications. Here we performed an iodoTMT-based proteomic analysis to identify the redox sensitive proteins in vivo under freezing stress after cold acclimation in Brassica napus. Totally, we obtained 1,372 sulfenylated sites in 714 proteins. The overall sulfenylation level displayed an increased trend under freezing stress after cold acclimation. We identified 171 differentially sulfenylated proteins (DSPs) under freezing stress, which were predicted to be mainly localized in chloroplast and cytoplasm. The up-regulated DSPs were mainly enriched in photosynthesis and glycolytic processes and function of catalytic activity. Enzymes involved in various pathways such as glycolysis and Calvin-Benson-Bassham (CBB) cycle were generally sulfenylated and the metabolite levels in these pathways was significantly reduced under freezing stress after cold acclimation. Furthermore, enzyme activity assay confirmed that the activity of cytosolic pyruvate kinase and malate dehydrogenase 2 was significantly reduced under H2O2 treatment. Our study provides a landscape of redox sensitive proteins in B. napus in response to freezing stress after cold acclimation, which proposes a basis for understanding the redox regulation in plant metabolic response to freezing stress after cold acclimation.
Collapse
Affiliation(s)
- Liangqian Yu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Zezhang Dai
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Yuting Zhang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Sidra Iqbal
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Department of Plant Breeding and Genetics, University of Agriculture, Faisalabad, Pakistan
| | - Shaoping Lu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
| | - Liang Guo
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Xuan Yao
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| |
Collapse
|
4
|
Chen Y, Zhu W, Yan T, Chen D, Jiang L, Chen ZH, Wu D. Stomatal morphological variation contributes to global ecological adaptation and diversification of Brassica napus. PLANTA 2022; 256:64. [PMID: 36029339 DOI: 10.1007/s00425-022-03982-4] [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: 06/29/2022] [Accepted: 08/22/2022] [Indexed: 06/15/2023]
Abstract
Stomatal density and guard cell length of 274 global core germplasms of rapeseed reveal that the stomatal morphological variation contributes to global ecological adaptation and diversification of Brassica napus. Stomata are microscopic structures of plants for the regulation of CO2 assimilation and transpiration. Stomatal morphology has changed substantially in the adaptation to the external environment during land plant evolution. Brassica napus is a major crop to produce oil, livestock feed and biofuel in the world. However, there are few studies on the regulatory genes controlling stomatal development and their interaction with environmental factors as well as the genetic mechanism of adaptive variation in B. napus. Here, we characterized stomatal density (SD) and guard cell length (GL) of 274 global core germplasms at seedling stage. It was found that among the significant phenotypic variation, European germplasms are mostly winter rapeseed with high stomatal density and small guard cell length. However, the germplasms from Asia (especially China) are semi-winter rapeseed, which is characterized by low stomatal density and large guard cell length. Through selective sweep analysis and homology comparison, we identified several candidate genes related to stomatal density and guard cell length, including Epidermal Patterning Factor2 (EPF2; BnaA09g23140D), Epidermal Patterning Factor Like4 (EPFL4; BnaC01g22890D) and Suppressor of LLP1 (SOL1 BnaC01g22810D). Haplotype and phylogenetic analysis showed that natural variation in EPF2, EPFL4 and SOL1 is closely associated with the winter, spring, and semi-winter rapeseed ecotypes. In summary, this study demonstrated for the first time the relation between stomatal phenotypic variation and ecological adaptation in rapeseed, which is useful for future molecular breeding of rapeseed in the context of evolution and domestication of key stomatal traits and global climate change.
Collapse
Affiliation(s)
- Yeke Chen
- Department of Agronomy, Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Zhejiang University, Hangzhou, 310058, China
| | - Weizhuo Zhu
- Department of Agronomy, Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Zhejiang University, Hangzhou, 310058, China
| | - Tao Yan
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China
| | - Danyi Chen
- Department of Agronomy, Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Zhejiang University, Hangzhou, 310058, China
| | - Lixi Jiang
- Department of Agronomy, Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Zhejiang University, Hangzhou, 310058, China
| | - Zhong-Hua Chen
- School of Science, Western Sydney University, Penrith, NSW, Australia.
- Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW, Australia.
| | - Dezhi Wu
- Department of Agronomy, Key Laboratory of Crop Germplasm Resource of Zhejiang Province, Zhejiang University, Hangzhou, 310058, China.
- College of Agronomy, Hunan Agricultural University, Changsha, 410128, China.
| |
Collapse
|
5
|
Rodrigues O, Shan L. Stomata in a state of emergency: H 2O 2 is the target locked. TRENDS IN PLANT SCIENCE 2022; 27:274-286. [PMID: 34756808 DOI: 10.1016/j.tplants.2021.10.002] [Citation(s) in RCA: 22] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2021] [Revised: 09/22/2021] [Accepted: 10/04/2021] [Indexed: 06/13/2023]
Abstract
Stomatal movements are essential for plants to regulate photosynthesis rate, water status, and immunity. Upon stress stimulation, the production of hydrogen peroxide (H2O2) in the apoplasts and its accumulation within the guard cells are among key determinatives for stomatal closure. The regulatory mechanisms of H2O2 production and transport under plant-pathogen interaction and drought stress response in stomata are important fields of research. Specifically, the regulation of NADPH oxidases and aquaporins appears to be crucial in H2O2-controlled stomatal closure. In this review, we summarize how the calcium-dependent and calcium-independent mechanisms activate RESPIRATORY BURST OXIDASE HOMOLOG (RBOH)D/F NADPH oxidases and the aquaporin PIP2;1 to induce stomatal closure, and highlight how the H2O2 production is targeted by pathogen toxins and effectors to counteract plant immunity.
Collapse
Affiliation(s)
- Olivier Rodrigues
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, USA; Unité de Recherche Physiologie, Pathologie et Génétique Végétales, Université Fédérale Toulouse Midi-Pyrénées, INP-PURPAN, F-31076 Toulouse, France.
| | - Libo Shan
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843, USA.
| |
Collapse
|
6
|
Lv Q, Li X, Fan B, Zhu C, Chen Z. The Cellular and Subcellular Organization of the Glucosinolate–Myrosinase System against Herbivores and Pathogens. Int J Mol Sci 2022; 23:ijms23031577. [PMID: 35163500 PMCID: PMC8836197 DOI: 10.3390/ijms23031577] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2022] [Revised: 01/26/2022] [Accepted: 01/27/2022] [Indexed: 01/01/2023] Open
Abstract
Glucosinolates are an important class of secondary metabolites in Brassicales plants with a critical role in chemical defense. Glucosinolates are chemically inactive but can be hydrolyzed by myrosinases to produce a range of chemically active compounds toxic to herbivores and pathogens, thereby constituting the glucosinolate–myrosinase defense system or the mustard oil bomb. During the evolution, Brassicales plants have developed not only complex biosynthetic pathways for production of a large number of glucosinolate structures but also different classes of myrosinases that differ in catalytic mechanisms and substrate specificity. Studies over the past several decades have made important progress in the understanding of the cellular and subcellular organization of the glucosinolate–myrosinase system for rapid and timely detonation of the mustard oil bomb upon tissue damage after herbivore feeding and pathogen infection. Progress has also been made in understanding the mechanisms that herbivores and pathogens have evolved to counter the mustard oil bomb. In this review, we summarize our current understanding of the function and organization of the glucosinolate–myrosinase system in Brassicales plants and discuss both the progresses and future challenges in addressing this complex defense system as an excellent model for analyzing plant chemical defense.
Collapse
Affiliation(s)
- Qiaoqiao Lv
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China; (Q.L.); (X.L.)
| | - Xifeng Li
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China; (Q.L.); (X.L.)
| | - Baofang Fan
- Purdue Center for Plant Biology, Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN 47907-2054, USA;
| | - Cheng Zhu
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China; (Q.L.); (X.L.)
- Correspondence: (C.Z.); (Z.C.); Tel.: +86-571-8683-6090 (C.Z.); +1-765-494-4657 (Z.C.)
| | - Zhixiang Chen
- College of Life Sciences, China Jiliang University, Hangzhou 310018, China; (Q.L.); (X.L.)
- Purdue Center for Plant Biology, Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN 47907-2054, USA;
- Correspondence: (C.Z.); (Z.C.); Tel.: +86-571-8683-6090 (C.Z.); +1-765-494-4657 (Z.C.)
| |
Collapse
|
7
|
Rane J, Singh AK, Tiwari M, Prasad PVV, Jagadish SVK. Effective Use of Water in Crop Plants in Dryland Agriculture: Implications of Reactive Oxygen Species and Antioxidative System. FRONTIERS IN PLANT SCIENCE 2022; 12:778270. [PMID: 35082809 PMCID: PMC8784697 DOI: 10.3389/fpls.2021.778270] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Accepted: 12/02/2021] [Indexed: 05/03/2023]
Abstract
Under dryland conditions, annual and perennial food crops are exposed to dry spells, severely affecting crop productivity by limiting available soil moisture at critical and sensitive growth stages. Climate variability continues to be the primary cause of uncertainty, often making timing rather than quantity of precipitation the foremost concern. Therefore, mitigation and management of stress experienced by plants due to limited soil moisture are crucial for sustaining crop productivity under current and future harsher environments. Hence, the information generated so far through multiple investigations on mechanisms inducing drought tolerance in plants needs to be translated into tools and techniques for stress management. Scope to accomplish this exists in the inherent capacity of plants to manage stress at the cellular level through various mechanisms. One of the most extensively studied but not conclusive physiological phenomena is the balance between reactive oxygen species (ROS) production and scavenging them through an antioxidative system (AOS), which determines a wide range of damage to the cell, organ, and the plant. In this context, this review aims to examine the possible roles of the ROS-AOS balance in enhancing the effective use of water (EUW) by crops under water-limited dryland conditions. We refer to EUW as biomass produced by plants with available water under soil moisture stress rather than per unit of water (WUE). We hypothesize that EUW can be enhanced by an appropriate balance between water-saving and growth promotion at the whole-plant level during stress and post-stress recovery periods. The ROS-AOS interactions play a crucial role in water-saving mechanisms and biomass accumulation, resulting from growth processes that include cell division, cell expansion, photosynthesis, and translocation of assimilates. Hence, appropriate strategies for manipulating these processes through genetic improvement and/or application of exogenous compounds can provide practical solutions for improving EUW through the optimized ROS-AOS balance under water-limited dryland conditions. This review deals with the role of ROS-AOS in two major EUW determining processes, namely water use and plant growth. It describes implications of the ROS level or content, ROS-producing, and ROS-scavenging enzymes based on plant water status, which ultimately affects photosynthetic efficiency and growth of plants.
Collapse
Affiliation(s)
- Jagadish Rane
- ICAR-National Institute of Abiotic Stress Management, Baramati, India
| | - Ajay Kumar Singh
- ICAR-National Institute of Abiotic Stress Management, Baramati, India
| | - Manish Tiwari
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
| | - P. V. Vara Prasad
- Department of Agronomy, Kansas State University, Manhattan, KS, United States
| | | |
Collapse
|
8
|
Chhajed S, Lu LL, Mangual G, Zhu W, Dufresne C, Chen S. Three-in-one method for high throughput plant multi-omics. Methods Enzymol 2022; 683:153-170. [PMID: 37087185 DOI: 10.1016/bs.mie.2022.08.039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Multi-omics has gained momentum over the past few years especially in plant single cell-type analysis as they aim to understand cellular molecular networks across different levels of genetic information flow. For multi-omics sample preparation, molecular extractions performed non-simultaneously create rooms for variation, inaccurate data, waste of limited samples, resources and labor. Here we optimized a protocol for 3-in-1 simultaneous extraction of RNA, metabolites, and proteins from the same single cell-type sample. We adapted a commercially available RNA kit with a few modifications to obtain high quality starting materials for sequencing and LC-MS/MS-based metabolomics and proteomics. RNAs are bound to the column, metabolites were extracted in a polar solvent and proteins are precipitated using acetone. This creates an all-in-one workflow using a standard RNA kit. Little training is required to carry out this protocol as it is simple and easy to use. It may be used with a wide range of plant species and different amounts of starting materials, including single cells.
Collapse
|
9
|
Yu L, Iqbal S, Zhang Y, Zhang G, Ali U, Lu S, Yao X, Guo L. Proteome-wide identification of S-sulphenylated cysteines in Brassica napus. PLANT, CELL & ENVIRONMENT 2021; 44:3571-3582. [PMID: 34347306 DOI: 10.1111/pce.14160] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Revised: 07/23/2021] [Accepted: 07/25/2021] [Indexed: 06/13/2023]
Abstract
Deregulation of reduction-oxidation (redox) metabolism under environmental stresses results in enhanced production of intracellular reactive oxygen species (ROS), which ultimately leads to post-translational modifications (PTMs) of responsive proteins. Redox PTMs play an important role in regulation of protein function and cellular signalling. By means of large-scale redox proteomics, we studied reversible cysteine modification during the response to short-term salt stress in Brassica napus (B. napus). We applied an iodoacetyl tandem mass tags (iodoTMT)-based proteomic approach to analyse the redox proteome of B. napus seedlings under control and salt-stressed conditions. We identified 1,821 sulphenylated sites in 912 proteins from all samples. A great number of sulphenylated proteins were predicted to localize to chloroplasts and cytoplasm and GO enrichment analysis of differentially sulphenylated proteins revealed that metabolic processes such as photosynthesis and glycolysis are enriched and enzymes are overrepresented. Redox-sensitive sites in two enzymes were validated in vitro on recombinant proteins and they might affect the enzyme activity. This targeted approach contributes to the identification of the sulphenylated sites and proteins in B. napus subjected to salt stress and our study will improve our understanding of the molecular mechanisms underlying the redox regulation in response to salt stress.
Collapse
Affiliation(s)
- Liangqian Yu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Sidra Iqbal
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Department of Agriculture, University of Swabi, Khyber Pakhtunkhwa, Pakistan
| | - Yuting Zhang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Guofang Zhang
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Usman Ali
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Shaoping Lu
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Xuan Yao
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| | - Liang Guo
- National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, China
- Hubei Hongshan Laboratory, Wuhan, China
| |
Collapse
|
10
|
Mc Gee D, Archer L, Parkes R, Fleming GTA, Santos HM, Touzet N. The role of methyl jasmonate in enhancing biomass yields and bioactive metabolites in Stauroneis sp. (Bacillariophyceae) revealed by proteome and biochemical profiling. J Proteomics 2021; 249:104381. [PMID: 34536592 DOI: 10.1016/j.jprot.2021.104381] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Revised: 09/10/2021] [Accepted: 09/11/2021] [Indexed: 12/17/2022]
Abstract
The diatom Stauroneis sp. was previously identified as a promising source of fucoxanthin and omega-3 oils. Methyl jasmonate (MJ) supplementation is known to enhance metabolite yields in this species without impacting on growth or photosynthesis. Therefore, a label-free proteomics approach was undertaken to further evaluate the functional role of MJ on the diatom's physiology. Of the twenty cultivation regimes were screened, Uf/2 medium with green+white LED's induced the greatest metabolic response when exposed to 10 μM MJ treatment. These conditions significantly enhanced the pigment and total cellular lipids contents. The increase in fucoxanthin correlating with a 20% increase in Trolox reducing equivalent in the total antioxidant assay, indicating a non-enzymatic antioxidant role of fucoxanthin to mitigate the detrimental effects of a redox imbalance within chloroplasts. The proteomics identified 197 proteins up-regulated 48 h after MJ exposure including cell signalling cascades, photosynthetic processes, carbohydrate metabolism, lipid biosynthesis and chloroplast biogenesis. MJ strengthened the dark reactions of photosynthesis to support growth and metabolite fluxes. The MJ-induced ER stress protein triggered lipid body production, facilitating metabolite turnover and trafficking between cellular organelles. Plastid terminal oxidase and glutamate 1-semialdehyde 2,1-aminomutase may act as MJ-induced ROS responsive regulatory switch to support chloroplast biosynthesis. SIGNIFICANCE STATEMENT: Phytohormones represents a promising tool to enhance the high-value metabolite yields in plants and algae, however little is known of the role of methyl jasmonate in diatoms at a molecular level. A shotgun proteomics approach was undertaken to determine the influence of MJ on the diatom's cellular physiology in the marine diatom Stauroneis sp., revealing a signal transduction cascade leading to increased lipid and pigment content and identified promising targets for genetic engineering.
Collapse
Affiliation(s)
- Dónal Mc Gee
- Centre for Environmental Research, Sustainability and Innovation (CERIS), School of Science, Department of Environmental Science, Institute of Technology Sligo, Sligo, Ireland.
| | - Lorraine Archer
- Centre for Environmental Research, Sustainability and Innovation (CERIS), School of Science, Department of Environmental Science, Institute of Technology Sligo, Sligo, Ireland
| | - Rachel Parkes
- Centre for Environmental Research, Sustainability and Innovation (CERIS), School of Science, Department of Environmental Science, Institute of Technology Sligo, Sligo, Ireland
| | - Gerard T A Fleming
- Microbiology Department, School of Natural Sciences, National University of Ireland, Galway, Ireland
| | - Hugo M Santos
- Bioscope Research Group, Department of Chemistry, Faculty of Science and Technology, Universidade NOVA de Lisboa, 2829_516 Caparica, Portugal
| | - Nicolas Touzet
- Centre for Environmental Research, Sustainability and Innovation (CERIS), School of Science, Department of Environmental Science, Institute of Technology Sligo, Sligo, Ireland
| |
Collapse
|
11
|
Proteome Changes Reveal the Protective Roles of Exogenous Citric Acid in Alleviating Cu Toxicity in Brassica napus L. Int J Mol Sci 2021; 22:ijms22115879. [PMID: 34070927 PMCID: PMC8198124 DOI: 10.3390/ijms22115879] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2021] [Revised: 05/25/2021] [Accepted: 05/26/2021] [Indexed: 01/27/2023] Open
Abstract
Citric acid (CA), as an organic chelator, plays a vital role in alleviating copper (Cu) stress-mediated oxidative damage, wherein a number of molecular mechanisms alter in plants. However, it remains largely unknown how CA regulates differentially abundant proteins (DAPs) in response to Cu stress in Brassica napus L. In the present study, we aimed to investigate the proteome changes in the leaves of B. L. seedlings in response to CA-mediated alleviation of Cu stress. Exposure of 21-day-old seedlings to Cu (25 and 50 μM) and CA (1.0 mM) for 7 days exhibited a dramatic inhibition of overall growth and considerable increase in the enzymatic activities (POD, SOD, CAT). Using a label-free proteome approach, a total of 6345 proteins were identified in differentially treated leaves, from which 426 proteins were differentially expressed among the treatment groups. Gene ontology (GO) and KEGG pathways analysis revealed that most of the differential abundance proteins were found to be involved in energy and carbohydrate metabolism, photosynthesis, protein metabolism, stress and defense, metal detoxification, and cell wall reorganization. Our results suggest that the downregulation of chlorophyll biosynthetic proteins involved in photosynthesis were consistent with reduced chlorophyll content. The increased abundance of proteins involved in stress and defense indicates that these DAPs might provide significant insights into the adaptation of Brassica seedlings to Cu stress. The abundances of key proteins were further verified by monitoring the mRNA expression level of the respective transcripts. Taken together, these findings provide a potential molecular mechanism towards Cu stress tolerance and open a new route in accelerating the phytoextraction of Cu through exogenous application of CA in B. napus.
Collapse
|
12
|
Montillet JL, Rondet D, Brugière S, Henri P, Rumeau D, Reichheld JP, Couté Y, Leonhardt N, Rey P. Plastidial and cytosolic thiol reductases participate in the control of stomatal functioning. PLANT, CELL & ENVIRONMENT 2021; 44:1417-1435. [PMID: 33537988 DOI: 10.1111/pce.14013] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2020] [Revised: 01/08/2021] [Accepted: 01/11/2021] [Indexed: 06/12/2023]
Abstract
Stomatal movements via the control of gas exchanges determine plant growth in relation to environmental stimuli through a complex signalling network involving reactive oxygen species that lead to post-translational modifications of Cys and Met residues, and alter protein activity and/or conformation. Thiol-reductases (TRs), which include thioredoxins, glutaredoxins (GRXs) and peroxiredoxins (PRXs), participate in signalling pathways through the control of Cys redox status in client proteins. Their involvement in stomatal functioning remains poorly characterized. By performing a mass spectrometry-based proteomic analysis, we show that numerous thiol reductases, like PRXs, are highly abundant in guard cells. When investigating various Arabidopsis mutants impaired in the expression of TR genes, no change in stomatal density and index was noticed. In optimal growth conditions, a line deficient in cytosolic NADPH-thioredoxin reductases displayed higher stomatal conductance and lower leaf temperature evaluated by thermal infrared imaging. In contrast, lines deficient in plastidial 2-CysPRXs or type-II GRXs exhibited compared to WT reduced conductance and warmer leaves in optimal conditions, and enhanced stomatal closure in epidermal peels treated with abscisic acid or hydrogen peroxide. Altogether, these data strongly support the contribution of thiol redox switches within the signalling network regulating guard cell movements and stomatal functioning.
Collapse
Affiliation(s)
- Jean-Luc Montillet
- Plant Protective Proteins Team, Aix Marseille University, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
| | - Damien Rondet
- Plant Protective Proteins Team, Aix Marseille University, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
- Laboratoire Nixe, Sophia-Antipolis, Valbonne, France
| | - Sabine Brugière
- Laboratoire EDyP, University of Grenoble Alpes, CEA, INSERM, IRIG, BGE, Grenoble, France
| | - Patricia Henri
- Plant Protective Proteins Team, Aix Marseille University, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
| | - Dominique Rumeau
- Plant Protective Proteins Team, Aix Marseille University, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
| | - Jean-Philippe Reichheld
- Laboratoire Génome et Développement des Plantes, CNRS, Université Perpignan Via Domitia, Perpignan, France
| | - Yohann Couté
- Laboratoire EDyP, University of Grenoble Alpes, CEA, INSERM, IRIG, BGE, Grenoble, France
| | - Nathalie Leonhardt
- SAVE Team, Aix Marseille University, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
| | - Pascal Rey
- Plant Protective Proteins Team, Aix Marseille University, CEA, CNRS, BIAM, Saint Paul-Lez-Durance, France
| |
Collapse
|
13
|
Balmant KM, Lawrence SR, Duong BV, Zhu F, Zhu N, Nicklay J, Chen S. Guard cell redox proteomics reveals a role of lipid transfer protein in plant defense. J Proteomics 2021; 242:104247. [PMID: 33940245 DOI: 10.1016/j.jprot.2021.104247] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 04/20/2021] [Accepted: 04/21/2021] [Indexed: 12/20/2022]
Abstract
Redox-based post-translational modifications (PTMs) involving protein cysteine residues as redox sensors are important to various physiological processes. However, little is known about redox-sensitive proteins in guard cells and their functions in stomatal immunity. In this study, we applied an integrative protein labeling method cysTMTRAQ, and identified guard cell proteins that were altered by thiol redox PTMs in response to a bacterial flagellin peptide flg22. In total, eight, seven and 20 potential redox-responsive proteins were identified in guard cells treated with flg22 for 15, 30 and 60 min, respectively. The proteins fall into several functional groups including photosynthesis, lipid binding, oxidation-reduction, and defense. Among the proteins, a lipid transfer protein (LTP)-II was confirmed to be redox-responsive and involved in plant resistance to Pseudomonas syringe pv. tomato DC3000. This study not only creates an inventory of potential redox-sensitive proteins in flg22 signal transduction in guard cells, but also highlights the biological relevance of the lipid transfer protein in plant defense against bacterial pathogens. SIGNIFICANCE: Protein redox modifications play important roles in many physiological processes. However, redox proteomics has rarely been studied in plant single cell-types. In this study, isobaric tandem mass tag-based redox proteomics technology was applied to discover redox-sensitive proteins and corresponding cysteine residues in guard cell response to a bacterial flagellin peptide flg22. Many redox-responsive proteins related to photosynthesis, lipid binding, oxidation-reduction, and defense were identified. Using reverse genetics and biochemical analyses, a lipid transfer protein was functionally characterized to be involved in plant defense against pathogens. The study highlights the utility of redox proteomics in discovering new proteins and redox modifications in important stomatal guard cell functions. Furthermore, detailed functional characterization demonstrates the biological relevance of the redox-responsive lipid transfer protein in plant pathogen defense.
Collapse
Affiliation(s)
- Kelly M Balmant
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Sheldon R Lawrence
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Benjamin V Duong
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA
| | - Fanzhao Zhu
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA
| | - Ning Zhu
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA
| | | | - Sixue Chen
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA; Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA.
| |
Collapse
|
14
|
Glucosinolate Biosynthesis and the Glucosinolate–Myrosinase System in Plant Defense. AGRONOMY-BASEL 2020. [DOI: 10.3390/agronomy10111786] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Insect pests represent a major global challenge to important agricultural crops. Insecticides are often applied to combat such pests, but their use has caused additional challenges such as environmental contamination and human health issues. Over millions of years, plants have evolved natural defense mechanisms to overcome insect pests and pathogens. One such mechanism is the production of natural repellents or specialized metabolites like glucosinolates. There are three types of glucosinolates produced in the order Brassicales: aliphatic, indole, and benzenic glucosinolates. Upon insect herbivory, a “mustard oil bomb” consisting of glucosinolates and their hydrolyzing enzymes (myrosinases) is triggered to release toxic degradation products that act as insect deterrents. This review aims to provide a comprehensive summary of glucosinolate biosynthesis, the “mustard oil bomb”, and how these metabolites function in plant defense against pathogens and insects. Understanding these defense mechanisms will not only allow us to harness the benefits of this group of natural metabolites for enhancing pest control in Brassicales crops but also to transfer the “mustard oil bomb” to non-glucosinolate producing crops to boost their defense and thereby reduce the use of chemical pesticides.
Collapse
|
15
|
Wittmann D, Sinha N, Grimm B. Thioredoxin-dependent control balances the metabolic activities of tetrapyrrole biosynthesis. Biol Chem 2020; 402:379-397. [PMID: 33068374 DOI: 10.1515/hsz-2020-0308] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2020] [Accepted: 10/13/2020] [Indexed: 11/15/2022]
Abstract
Plastids are specialized organelles found in plants, which are endowed with their own genomes, and differ in many respects from the intracellular compartments of organisms belonging to other kingdoms of life. They differentiate into diverse, plant organ-specific variants, and are perhaps the most versatile organelles known. Chloroplasts are the green plastids in the leaves and stems of plants, whose primary function is photosynthesis. In response to environmental changes, chloroplasts use several mechanisms to coordinate their photosynthetic activities with nuclear gene expression and other metabolic pathways. Here, we focus on a redox-based regulatory network composed of thioredoxins (TRX) and TRX-like proteins. Among multiple redox-controlled metabolic activities in chloroplasts, tetrapyrrole biosynthesis is particularly rich in TRX-dependent enzymes. This review summarizes the effects of plastid-localized reductants on several enzymes of this pathway, which have been shown to undergo dithiol-disulfide transitions. We describe the impact of TRX-dependent control on the activity, stability and interactions of these enzymes, and assess its contribution to the provision of adequate supplies of metabolic intermediates in the face of diurnal and more rapid and transient changes in light levels and other environmental factors.
Collapse
Affiliation(s)
- Daniel Wittmann
- Humboldt-Universität zu Berlin, Faculty of Life Science, Institute of Biology/Plant Physiology, Philippstraße 13 (Building 12), 10115Berlin, Germany
| | - Neha Sinha
- Humboldt-Universität zu Berlin, Faculty of Life Science, Institute of Biology/Plant Physiology, Philippstraße 13 (Building 12), 10115Berlin, Germany
| | - Bernhard Grimm
- Humboldt-Universität zu Berlin, Faculty of Life Science, Institute of Biology/Plant Physiology, Philippstraße 13 (Building 12), 10115Berlin, Germany
| |
Collapse
|
16
|
Yu J, Li Y, Qin Z, Guo S, Li Y, Miao Y, Song C, Chen S, Dai S. Plant Chloroplast Stress Response: Insights from Thiol Redox Proteomics. Antioxid Redox Signal 2020; 33:35-57. [PMID: 31989831 DOI: 10.1089/ars.2019.7823] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Significance: Plant chloroplasts generate reactive oxygen species (ROS) during photosynthesis, especially under stresses. The sulfhydryl groups of protein cysteine residues are susceptible to redox modifications, which regulate protein structure and function, and thus different signaling and metabolic processes. The ROS-governed protein thiol redox switches play important roles in chloroplasts. Recent Advances: Various high-throughput thiol redox proteomic approaches have been developed, and they have enabled the improved understanding of redox regulatory mechanisms in chloroplasts. For example, the thioredoxin-modulated antioxidant enzymes help to maintain cellular ROS homeostasis. The light- and dark-dependent redox regulation of photosynthetic electron transport, the Calvin/Benson cycle, and starch biosynthesis ensures metabolic coordination and efficient energy utilization. In addition, redox cascades link the light with the dynamic changes of metabolites in nitrate and sulfur assimilation, shikimate pathway, and biosynthesis of fatty acid hormone as well as purine, pyrimidine, and thiamine. Importantly, redox regulation of tetrapyrrole and chlorophyll biosynthesis is critical to balance the photodynamic tetrapyrrole intermediates and prevent oxidative damage. Moreover, redox regulation of diverse elongation factors, chaperones, and kinases plays an important role in the modulation of gene expression, protein conformation, and posttranslational modification that contribute to photosystem II (PSII) repair, state transition, and signaling in chloroplasts. Critical Issues: This review focuses on recent advances in plant thiol redox proteomics and redox protein networks toward understanding plant chloroplast signaling, metabolism, and stress responses. Future Directions: Using redox proteomics integrated with biochemical and molecular genetic approaches, detailed studies of cysteine residues, their redox states, cross talk with other modifications, and the functional implications will yield a holistic understanding of chloroplast stress responses.
Collapse
Affiliation(s)
- Juanjuan Yu
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, China.,Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Harbin, China.,College of Life Sciences, Henan Normal University, Xinxiang, China
| | - Ying Li
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Harbin, China
| | - Zhi Qin
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Siyi Guo
- Institute of Plant Stress Biology, State Key Laboratory of Cotton Biology, Department of Biology, Henan University, Kaifeng, China
| | - Yongfang Li
- College of Life Sciences, Henan Normal University, Xinxiang, China
| | - Yuchen Miao
- Institute of Plant Stress Biology, State Key Laboratory of Cotton Biology, Department of Biology, Henan University, Kaifeng, China
| | - Chunpeng Song
- Institute of Plant Stress Biology, State Key Laboratory of Cotton Biology, Department of Biology, Henan University, Kaifeng, China
| | - Sixue Chen
- Department of Biology, Genetics Institute, Plant Molecular and Cellular Biology Program, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, Florida, USA
| | - Shaojun Dai
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, Shanghai, China.,Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Harbin, China
| |
Collapse
|
17
|
Ye W, Ando E, Rhaman MS, Tahjib-Ul-Arif M, Okuma E, Nakamura Y, Kinoshita T, Murata Y. Inhibition of light-induced stomatal opening by allyl isothiocyanate does not require guard cell cytosolic Ca2+ signaling. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:2922-2932. [PMID: 32103265 PMCID: PMC7260714 DOI: 10.1093/jxb/eraa073] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2019] [Accepted: 02/26/2020] [Indexed: 05/20/2023]
Abstract
The glucosinolate-myrosinase system is a well-known defense system that has been shown to induce stomatal closure in Brassicales. Isothiocyanates are highly reactive hydrolysates of glucosinolates, and an isothiocyanate, allyl isothiocyanate (AITC), induces stomatal closure accompanied by elevation of free cytosolic Ca2+ concentration ([Ca2+]cyt) in Arabidopsis. It remains unknown whether AITC inhibits light-induced stomatal opening. This study investigated the role of Ca2+ in AITC-induced stomatal closure and inhibition of light-induced stomatal opening. AITC induced stomatal closure and inhibited light-induced stomatal opening in a dose-dependent manner. A Ca2+ channel inhibitor, La3+, a Ca2+chelator, EGTA, and an inhibitor of Ca2+ release from internal stores, nicotinamide, inhibited AITC-induced [Ca2+]cyt elevation and stomatal closure, but did not affect inhibition of light-induced stomatal opening. AITC activated non-selective Ca2+-permeable cation channels and inhibited inward-rectifying K+ (K+in) channels in a Ca2+-independent manner. AITC also inhibited stomatal opening induced by fusicoccin, a plasma membrane H+-ATPase activator, but had no significant effect on fusicoccin-induced phosphorylation of the penultimate threonine of H+-ATPase. Taken together, these results suggest that AITC induces Ca2+ influx and Ca2+ release to elevate [Ca2+]cyt, which is essential for AITC-induced stomatal closure but not for inhibition of K+in channels and light-induced stomatal opening.
Collapse
Affiliation(s)
- Wenxiu Ye
- School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai, China
- Graduate School of Environmental and Life Science, Okayama University, Tsushima-Naka, Okayama, Japan
- Institute of Transformative Bio-Molecule, Nagoya University, Chikusa, Nagoya, Japan
| | - Eigo Ando
- Graduate School of Science, Nagoya University, Chikusa, Nagoya, Japan
| | - Mohammad Saidur Rhaman
- Graduate School of Environmental and Life Science, Okayama University, Tsushima-Naka, Okayama, Japan
| | - Md Tahjib-Ul-Arif
- Graduate School of Environmental and Life Science, Okayama University, Tsushima-Naka, Okayama, Japan
| | - Eiji Okuma
- Graduate School of Environmental and Life Science, Okayama University, Tsushima-Naka, Okayama, Japan
| | - Yoshimasa Nakamura
- Graduate School of Environmental and Life Science, Okayama University, Tsushima-Naka, Okayama, Japan
| | - Toshinori Kinoshita
- Institute of Transformative Bio-Molecule, Nagoya University, Chikusa, Nagoya, Japan
- Graduate School of Science, Nagoya University, Chikusa, Nagoya, Japan
| | - Yoshiyuki Murata
- Graduate School of Environmental and Life Science, Okayama University, Tsushima-Naka, Okayama, Japan
- Correspondence:
| |
Collapse
|
18
|
Lawrence SR, Gaitens M, Guan Q, Dufresne C, Chen S. S-Nitroso-Proteome Revealed in Stomatal Guard Cell Response to Flg22. Int J Mol Sci 2020; 21:ijms21051688. [PMID: 32121556 PMCID: PMC7084773 DOI: 10.3390/ijms21051688] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2020] [Revised: 02/28/2020] [Accepted: 02/28/2020] [Indexed: 02/07/2023] Open
Abstract
Nitric oxide (NO) plays an important role in stomata closure induced by environmental stimuli including pathogens. During pathogen challenge, nitric oxide (NO) acts as a second messenger in guard cell signaling networks to activate downstream responses leading to stomata closure. One means by which NO’s action is achieved is through the posttranslational modification of cysteine residue(s) of target proteins. Although the roles of NO have been well studied in plant tissues and seedlings, far less is known about NO signaling and, more specifically, protein S-nitrosylation (SNO) in stomatal guard cells. In this study, using iodoTMTRAQ quantitative proteomics technology, we analyzed changes in protein SNO modification in guard cells of reference plant Arabidopsis thaliana in response to flg22, an elicitor-active peptide derived from bacterial flagellin. A total of 41 SNO-modified peptides corresponding to 35 proteins were identified. The proteins cover a wide range of functions, including energy metabolism, transport, stress response, photosynthesis, and cell–cell communication. This study creates the first inventory of previously unknown NO responsive proteins in guard cell immune responses and establishes a foundation for future research toward understanding the molecular mechanisms and regulatory roles of SNO in stomata immunity against bacterial pathogens.
Collapse
Affiliation(s)
- Sheldon R. Lawrence
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA;
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32611, USA; (M.G.); (Q.G.)
| | - Meghan Gaitens
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32611, USA; (M.G.); (Q.G.)
| | - Qijie Guan
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32611, USA; (M.G.); (Q.G.)
| | - Craig Dufresne
- Thermo Fisher Scientific, 1400 Northpoint Parkway, West Palm Beach, FL 33407, USA;
| | - Sixue Chen
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA;
- Department of Biology, University of Florida Genetics Institute, Gainesville, FL 32611, USA; (M.G.); (Q.G.)
- Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA
- Correspondence:
| |
Collapse
|
19
|
Bao S, Zhang Z, Lian Q, Sun Q, Zhang R. Evolution and expression of genes encoding TCP transcription factors in Solanum tuberosum reveal the involvement of StTCP23 in plant defence. BMC Genet 2019; 20:91. [PMID: 31801457 PMCID: PMC6892148 DOI: 10.1186/s12863-019-0793-1] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Accepted: 11/22/2019] [Indexed: 11/20/2022] Open
Abstract
Background The plant-specific Teosinte branched1/Cycloidea/Proliferating cell factor (TCP) family of transcription factors is involved in the regulation of cell growth and proliferation, performing diverse functions in plant growth and development. In addition, TCP transcription factors have recently been shown to be targets of pathogenic effectors and are likely to play a vital role in plant immunity. No comprehensive analysis of the TCP family members in potato (Solanum tuberosum L.) has been undertaken, however, and whether their functions are conserved in potato remains unknown. Results To assess TCP gene evolution in potato, we identified TCP-like genes in several publicly available databases. A total of 23 non-redundant TCP transcription factor-encoding genes were identified in the potato genome and subsequently subjected to a systematic analysis that included determination of their phylogenetic relationships, gene structures and expression profiles in different potato tissues under basal conditions and after hormone treatments. These assays also confirmed the function of the class I TCP StTCP23 in the regulation of plant growth and defence. Conclusions This is the first genome-wide study including a systematic analysis of the StTCP gene family in potato. Identification of the possible functions of StTCPs in potato growth and defence provides valuable information for our understanding of the classification and functions of the TCP genes in potato.
Collapse
Affiliation(s)
- Sarina Bao
- Inner Mongolia Potato Engineering and Technology Research Center, Inner Mongolia University, Hohhot, China
| | - Zhenxin Zhang
- Inner Mongolia Potato Engineering and Technology Research Center, Inner Mongolia University, Hohhot, China
| | - Qun Lian
- Inner Mongolia Potato Engineering and Technology Research Center, Inner Mongolia University, Hohhot, China
| | - Qinghua Sun
- Inner Mongolia Potato Engineering and Technology Research Center, Inner Mongolia University, Hohhot, China
| | - Ruofang Zhang
- Inner Mongolia Potato Engineering and Technology Research Center, Inner Mongolia University, Hohhot, China.
| |
Collapse
|
20
|
Eggplant Germination is Promoted by Hydrogen Peroxide and Temperature in an Independent but Overlapping Manner. Molecules 2019; 24:molecules24234270. [PMID: 31771170 PMCID: PMC6930571 DOI: 10.3390/molecules24234270] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2019] [Revised: 11/12/2019] [Accepted: 11/21/2019] [Indexed: 12/27/2022] Open
Abstract
Hydrogen peroxide promotes seed germination, but the molecular mechanisms underlying this process are unclear. This study presents the results of eggplant (Solanum melongena) germination analyses conducted at two different temperatures and follows the effect of hydrogen peroxide treatment on seed germination and the seed proteome. Hydrogen peroxide was found to promote eggplant germination in a way not dissimilar to that of increased temperature stimuli. LC–MS profiling detected 729 protein families, 77 of which responded to a temperature increase or hydrogen peroxide treatment. These differentially abundant proteins were found to be involved in a number of processes, including protein and amino acid metabolism, carbohydrate metabolism, and the glyoxylate cycle. There was a very low overlap between hydrogen peroxide and temperature-responsive proteins, highlighting the differences behind the seemingly similar outcomes. Furthermore, the observed changes from the seed proteome indicate that hydrogen peroxide treatment diminished the seed endogenous hydrogen peroxide pool and that a part of manifested positive hydrogen peroxide effect might be related to altered sensitivity to abscisic acid.
Collapse
|
21
|
Bhat R, Vyas D. Myrosinase: insights on structural, catalytic, regulatory, and environmental interactions. Crit Rev Biotechnol 2019; 39:508-523. [PMID: 30939944 DOI: 10.1080/07388551.2019.1576024] [Citation(s) in RCA: 54] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Glucosinolate-myrosinase is a substrate-enzyme defense mechanism present in Brassica crops. This binary system provides the plant with an efficient system against herbivores and pathogens. For humans, it is well known for its anti-carcinogenic, anti-inflammatory, immunomodulatory, anti-bacterial, cardio-protective, and central nervous system protective activities. Glucosinolate and myrosinase are spatially present in different cells that upon tissue disruption come together and result in the formation of a variety of hydrolysis products with diverse physicochemical and biological properties. The myrosinase-catalyzed reaction starts with cleavage of the thioglucosidic linkage resulting in release of a D-glucose and an unstable thiohydroximate-O-sulfate. The outcome of this thiohydroximate-O-sulfate has been shown to depend on the structure of the glucosinolate side chain, the presence of supplementary proteins known as specifier proteins and/or on the physiochemical condition. Myrosinase was first reported in mustard seed during 1939 as a protein responsible for release of essential oil. Until this date, myrosinases have been characterized from more than 20 species of Brassica, cabbage aphid, and many bacteria residing in the human intestine. All the plant myrosinases are reported to be activated by ascorbic acid while aphid and bacterial myrosinases are found to be either neutral or inhibited. Myrosinase catalyzes hydrolysis of the S-glycosyl bond, O-β glycosyl bond, and O-glycosyl bond. This review summarizes information on myrosinase, an essential component of this binary system, including its structural and molecular properties, mechanism of action, and its regulation and will be beneficial for the research going on the understanding and betterment of the glucosinolate-myrosinase system from an ecological and nutraceutical perspective.
Collapse
Affiliation(s)
- Rohini Bhat
- a Biodiversity and Applied Botany Division , Indian Institute of Integrative Medicine (CSIR) , Jammu , India.,b Academy of Scientific and Innovative Research , Indian Institute of Integrative Medicine (CSIR) , Jammu , India
| | - Dhiraj Vyas
- a Biodiversity and Applied Botany Division , Indian Institute of Integrative Medicine (CSIR) , Jammu , India.,b Academy of Scientific and Innovative Research , Indian Institute of Integrative Medicine (CSIR) , Jammu , India
| |
Collapse
|
22
|
Chhajed S, Misra BB, Tello N, Chen S. Chemodiversity of the Glucosinolate-Myrosinase System at the Single Cell Type Resolution. FRONTIERS IN PLANT SCIENCE 2019; 10:618. [PMID: 31164896 PMCID: PMC6536577 DOI: 10.3389/fpls.2019.00618] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2019] [Accepted: 04/25/2019] [Indexed: 05/08/2023]
Abstract
Glucosinolates (GLSs) are a well-defined group of specialized metabolites, and like any other plant specialized metabolites, their presence does not directly affect the plant survival in terms of growth and development. However, specialized metabolites are essential to combat environmental stresses, such as pathogens and herbivores. GLSs naturally occur in many pungent plants in the order of Brassicales. To date, more than 200 different GLS structures have been characterized and their distribution differs from species to species. GLSs co-exist with classical and atypical myrosinases, which can hydrolyze GLS into an unstable aglycone thiohydroximate-O-sulfonate, which rearranges to produce different degradation products. GLSs, myrosinases, myrosinase interacting proteins, and GLS degradation products constitute the GLS-myrosinase (GM) system ("mustard oil bomb"). This review discusses the cellular and subcellular organization of the GM system, its chemodiversity, and functions in different cell types. Although there are many studies on the functions of GLSs and/or myrosinases at the tissue and whole plant levels, very few studies have focused on different single cell types. Single cell type studies will help to reveal specific functions that are missed at the tissue and organismal level. This review aims to highlight (1) recent progress in cellular and subcellular compartmentation of GLSs, myrosinases, and myrosinase interacting proteins; (2) molecular and biochemical diversity of GLSs and myrosinases; and (3) myrosinase interaction with its interacting proteins, and how it regulates the degradation of GLSs and thus the biological functions (e.g., plant defense against pathogens). Future prospects may include targeted approaches for engineering/breeding of plants and crops in the cell type-specific manner toward enhanced plant defense and nutrition.
Collapse
Affiliation(s)
- Shweta Chhajed
- Department of Biology, University of Florida, Gainesville, FL, United States
- Genetics Institute, University of Florida, Gainesville, FL, United States
| | - Biswapriya B. Misra
- Department of Biology, University of Florida, Gainesville, FL, United States
- Section on Molecular Medicine, Department of Internal Medicine, Center for Precision Medicine, Wake Forest School of Medicine, Winston-Salem, NC, United States
| | - Nathalia Tello
- Department of Biology, University of Florida, Gainesville, FL, United States
- Genetics Institute, University of Florida, Gainesville, FL, United States
| | - Sixue Chen
- Department of Biology, University of Florida, Gainesville, FL, United States
- Genetics Institute, University of Florida, Gainesville, FL, United States
- Plant Molecular and Cellular Biology, University of Florida, Gainesville, FL, United States
- Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL, United States
- *Correspondence: Sixue Chen,
| |
Collapse
|
23
|
Ni L, Fu X, Zhang H, Li X, Cai X, Zhang P, Liu L, Wang Q, Sun M, Wang QW, Zhang A, Zhang Z, Jiang M. Abscisic Acid Inhibits Rice Protein Phosphatase PP45 via H 2O 2 and Relieves Repression of the Ca 2+/CaM-Dependent Protein Kinase DMI3. THE PLANT CELL 2019; 31:128-152. [PMID: 30538152 PMCID: PMC6391686 DOI: 10.1105/tpc.18.00506] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Revised: 10/01/2018] [Accepted: 11/30/2018] [Indexed: 05/05/2023]
Abstract
In plants, Ca2+/calmodulin-dependent protein kinase (CCaMK) is a positive regulator of abscisic acid (ABA) responses, including root growth, antioxidant defense, and tolerance of both water stress and oxidative stress. However, the underlying molecular mechanisms are poorly understood. Here, we show a direct interaction between DMI3 (Doesn't Make Infections 3), a rice (Oryza sativa) CCaMK and PP45, a type 2C protein phosphatase in rice (PP2C). This interaction involves the CaM binding domain of DMI3 and the PP2C domain of PP45. In the absence of ABA, PP45 directly inactivates DMI3 by dephosphorylating Thr-263 in DMI3. However, in the presence of ABA, ABA-induced H2O2 production by the NADPH oxidases RbohB/E inhibits the activity of PP45 not only by inhibiting the expression of PP45 but also by oxidizing Cys-350 and Cys-428 residues to form PP45 intermolecular dimers. ABA-induced oxidation of Cys-350 and Cys-428 in PP45 blocked the interaction between PP45 and DMI3 and substantially prevented PP45-mediated inhibition in DMI3 activity. Genetic analysis indicated that PP45 is an important negative regulator of ABA signaling. These results reveal important pathways for the inhibition of DMI3 under the basal state and for its ABA-induced activation in rice.
Collapse
Affiliation(s)
- Lan Ni
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
- College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
| | - Xiaopu Fu
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Huan Zhang
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Xi Li
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Xiang Cai
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Panpan Zhang
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Lei Liu
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Qingwen Wang
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Manman Sun
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Qian-Wen Wang
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
| | - Aying Zhang
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
| | - Zhengguang Zhang
- College of Plant Protection, Nanjing Agricultural University, Nanjing 210095, China
| | - Mingyi Jiang
- College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China
- National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China
- Key Laboratory of Crop Physiology Ecology and Production Management, Ministry of Agriculture, Nanjing Agricultural University, Nanjing 210095, China
- Southern Regional Collaborative Innovation Center for Grain and Oil Crops in China, Hunan Agricultural University, Changsha 410128, China
| |
Collapse
|
24
|
Černý M, Habánová H, Berka M, Luklová M, Brzobohatý B. Hydrogen Peroxide: Its Role in Plant Biology and Crosstalk with Signalling Networks. Int J Mol Sci 2018; 19:E2812. [PMID: 30231521 PMCID: PMC6163176 DOI: 10.3390/ijms19092812] [Citation(s) in RCA: 92] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2018] [Revised: 09/13/2018] [Accepted: 09/15/2018] [Indexed: 12/30/2022] Open
Abstract
Hydrogen peroxide (H₂O₂) is steadily gaining more attention in the field of molecular biology research. It is a major REDOX (reduction⁻oxidation reaction) metabolite and at high concentrations induces oxidative damage to biomolecules, which can culminate in cell death. However, at concentrations in the low nanomolar range, H₂O₂ acts as a signalling molecule and in many aspects, resembles phytohormones. Though its signalling network in plants is much less well characterized than are those of its counterparts in yeast or mammals, accumulating evidence indicates that the role of H₂O₂-mediated signalling in plant cells is possibly even more indispensable. In this review, we summarize hydrogen peroxide metabolism in plants, the sources and sinks of this compound and its transport via peroxiporins. We outline H₂O₂ perception, its direct and indirect effects and known targets in the transcriptional machinery. We focus on the role of H₂O₂ in plant growth and development and discuss the crosstalk between it and phytohormones. In addition to a literature review, we performed a meta-analysis of available transcriptomics data which provided further evidence for crosstalk between H₂O₂ and light, nutrient signalling, temperature stress, drought stress and hormonal pathways.
Collapse
Affiliation(s)
- Martin Černý
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
- Phytophthora Research Centre, Faculty of AgriSciences, Mendel University in Brno, 613 00 Brno, Czech Republic.
| | - Hana Habánová
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
- CEITEC-Central European Institute of Technology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
- Brno Ph.D. Talent, South Moravian Centre for International Mobility, 602 00 Brno, Czech Republic.
| | - Miroslav Berka
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
| | - Markéta Luklová
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
- CEITEC-Central European Institute of Technology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
| | - Břetislav Brzobohatý
- Department of Molecular Biology and Radiobiology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
- CEITEC-Central European Institute of Technology, Faculty of AgriSciences Mendel University in Brno, 613 00 Brno, Czech Republic.
- Institute of Biophysics AS CR, 613 00 Brno, Czech Republic.
| |
Collapse
|
25
|
Ma T, Yoo MJ, Zhang T, Liu L, Koh J, Song WY, Harmon AC, Sha W, Chen S. Characterization of thiol-based redox modifications of Brassica napusSNF1-related protein kinase 2.6-2C. FEBS Open Bio 2018; 8:628-645. [PMID: 29632815 PMCID: PMC5881534 DOI: 10.1002/2211-5463.12401] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2017] [Revised: 12/09/2017] [Accepted: 01/29/2018] [Indexed: 01/04/2023] Open
Abstract
Sucrose nonfermenting 1‐related protein kinase 2.6 (SnRK2.6), also known as Open Stomata 1 (OST1) in Arabidopsis thaliana, plays a pivotal role in abscisic acid (ABA)‐mediated stomatal closure. Four SnRK2.6 paralogs were identified in the Brassica napus genome in our previous work. Here we studied one of the paralogs, BnSnRK2.6‐2C, which was transcriptionally induced by ABA in guard cells. Recombinant BnSnRK2.6‐2C exhibited autophosphorylation activity and its phosphorylation sites were mapped. The autophosphorylation activity was inhibited by S‐nitrosoglutathione (GSNO) and by oxidized glutathione (GSSG), and the inhibition was reversed by reductants. Using monobromobimane (mBBr) labeling, we demonstrated a dose‐dependent modification of BnSnRK2.6‐2C by GSNO. Furthermore, mass spectrometry analysis revealed previously uncharacterized thiol‐based modifications including glutathionylation and sulfonic acid formation. Of the six cysteine residues in BnSnRK2.6‐2C, C159 was found to have different types of thiol modifications, suggesting its high redox sensitivity and versatility. In addition, mBBr labeling on tyrosine residues was identified. Collectively, these data provide detailed biochemical characterization of redox‐induced modifications and changes of the BnSnRK2.6‐2C activity.
Collapse
Affiliation(s)
- Tianyi Ma
- College of Life Sciences Northeast Forestry University Harbin China.,Department of Biology Genetics Institute University of Florida Gainesville FL USA.,College of Life Sciences, Agriculture and Forestry Qiqihar University Heilongjiang China
| | - Mi-Jeong Yoo
- Department of Biology Genetics Institute University of Florida Gainesville FL USA
| | - Tong Zhang
- Department of Biology Genetics Institute University of Florida Gainesville FL USA
| | - Lihong Liu
- Department of Biology Genetics Institute University of Florida Gainesville FL USA
| | - Jin Koh
- Proteomics and Mass Spectrometry Interdisciplinary Center for Biotechnology Research University of Florida Gainesville FL USA
| | - Wen-Yuan Song
- Department of Plant Pathology University of Florida Gainesville FL USA.,Plant Molecular and Cellular Biology University of Florida Gainesville FL USA
| | - Alice C Harmon
- Department of Biology Genetics Institute University of Florida Gainesville FL USA.,Plant Molecular and Cellular Biology University of Florida Gainesville FL USA
| | - Wei Sha
- College of Life Sciences Northeast Forestry University Harbin China.,College of Life Sciences, Agriculture and Forestry Qiqihar University Heilongjiang China
| | - Sixue Chen
- Department of Biology Genetics Institute University of Florida Gainesville FL USA.,Proteomics and Mass Spectrometry Interdisciplinary Center for Biotechnology Research University of Florida Gainesville FL USA.,Plant Molecular and Cellular Biology University of Florida Gainesville FL USA
| |
Collapse
|
26
|
Metabolic Signatures in Response to Abscisic Acid (ABA) Treatment in Brassica napus Guard Cells Revealed by Metabolomics. Sci Rep 2017; 7:12875. [PMID: 28993661 PMCID: PMC5634414 DOI: 10.1038/s41598-017-13166-w] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2017] [Accepted: 09/19/2017] [Indexed: 11/08/2022] Open
Abstract
Drought can severely damage crops, resulting in major yield losses. During drought, vascular land plants conserve water via stomatal closure. Each stomate is bordered by a pair of guard cells that shrink in response to drought and the associated hormone abscisic acid (ABA). The activation of complex intracellular signaling networks underlies these responses. Therefore, analysis of guard cell metabolites is fundamental for elucidation of guard cell signaling pathways. Brassica napus is an important oilseed crop for human consumption and biodiesel production. Here, non-targeted metabolomics utilizing gas chromatography mass spectrometry (GC-MS/MS) and liquid chromatography mass spectrometry (LC-MS/MS) were employed for the first time to identify metabolic signatures in response to ABA in B. napus guard cell protoplasts. Metabolome profiling identified 390 distinct metabolites in B. napus guard cells, falling into diverse classes. Of these, 77 metabolites, comprising both primary and secondary metabolites were found to be significantly ABA responsive, including carbohydrates, fatty acids, glucosinolates, and flavonoids. Selected secondary metabolites, sinigrin, quercetin, campesterol, and sitosterol, were confirmed to regulate stomatal closure in Arabidopsis thaliana, B. napus or both species. Information derived from metabolite datasets can provide a blueprint for improvement of water use efficiency and drought tolerance in crops.
Collapse
|
27
|
Abstract
Kinase-mediated phosphorylation is a pivotal regulatory process in stomatal responses to stresses. Through a redox proteomics study, a sucrose non-fermenting 1-related protein kinase (SnRK2.4) was identified to be redox-regulated in Brassica napus guard cells upon abscisic acid treatment. There are six genes encoding SnRK2.4 paralogs in B. napus Here, we show that recombinant BnSnRK2.4-1C exhibited autophosphorylation activity and preferentially phosphorylated the N-terminal region of B. napus slow anion channel (BnSLAC1-NT) over generic substrates. The in vitro activity of BnSnRK2.4-1C requires the presence of manganese (Mn2+). Phosphorylation sites of autophosphorylated BnSnRK2.4-1C were mapped, including serine and threonine residues in the activation loop. In vitro BnSnRK2.4-1C autophosphorylation activity was inhibited by oxidants such as H2O2 and recovered by active thioredoxin isoforms, indicating redox regulation of BnSnRK2.4-1C. Thiol-specific isotope tagging followed by mass spectrometry analysis revealed specific cysteine residues responsive to oxidant treatments. The in vivo activity of BnSnRK2.4-1C is inhibited by 15 min of H2O2 treatment. Taken together, these data indicate that BnSnRK2.4-1C, an SnRK preferentially expressed in guard cells, is redox-regulated with potential roles in guard cell signal transduction.
Collapse
|
28
|
Keech O, Gardeström P, Kleczkowski LA, Rouhier N. The redox control of photorespiration: from biochemical and physiological aspects to biotechnological considerations. PLANT, CELL & ENVIRONMENT 2017; 40:553-569. [PMID: 26791824 DOI: 10.1111/pce.12713] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2015] [Revised: 12/28/2015] [Accepted: 01/13/2016] [Indexed: 06/05/2023]
Abstract
Photorespiration is a complex and tightly regulated process occurring in photosynthetic organisms. This process can alter the cellular redox balance, notably via the production and consumption of both reducing and oxidizing equivalents. Under certain circumstances, these equivalents, as well as reactive oxygen or nitrogen species, can become prominent in subcellular compartments involved in the photorespiratory process, eventually promoting oxidative post-translational modifications of proteins. Keeping these changes under tight control should therefore be of primary importance. In order to review the current state of knowledge about the redox control of photorespiration, we primarily performed a careful description of the known and potential redox-regulated or oxidation sensitive photorespiratory proteins, and examined in more details two interesting cases: the glycerate kinase and the glycine cleavage system. When possible, the potential impact and subsequent physiological regulations associated with these changes have been discussed. In the second part, we reviewed the extent to which photorespiration contributes to cellular redox homeostasis considering, in particular, the set of peripheral enzymes associated with the canonical photorespiratory pathway. Finally, some recent biotechnological strategies to circumvent photorespiration for future growth improvements are discussed in the light of these redox regulations.
Collapse
Affiliation(s)
- Olivier Keech
- Department of Plant Physiology, UPSC, Umeå University, S-90187, Umeå, Sweden
| | - Per Gardeström
- Department of Plant Physiology, UPSC, Umeå University, S-90187, Umeå, Sweden
| | | | - Nicolas Rouhier
- INRA, UMR 1136 Interactions Arbres/Microorganismes, Centre INRA Nancy Lorraine, 54280, Champenoux, France
- Université de Lorraine, UMR 1136 Interactions Arbres/Microorganismes, Faculté des Sciences et Technologies, 54506, Vandoeuvre-lès-Nancy, France
| |
Collapse
|
29
|
Yin Z, Balmant K, Geng S, Zhu N, Zhang T, Dufresne C, Dai S, Chen S. Bicarbonate Induced Redox Proteome Changes in Arabidopsis Suspension Cells. FRONTIERS IN PLANT SCIENCE 2017; 8:58. [PMID: 28184230 PMCID: PMC5266719 DOI: 10.3389/fpls.2017.00058] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2016] [Accepted: 01/10/2017] [Indexed: 05/12/2023]
Abstract
Climate change as a result of increasing atmospheric CO2 affects plant growth and productivity. CO2 is not only a carbon donor for photosynthesis but also an environmental signal that can perturb cellular redox homeostasis and lead to modifications of redox-sensitive proteins. Although redox regulation of protein functions has emerged as an important mechanism in several biological processes, protein redox modifications and how they function in plant CO2 response remain unclear. Here a new iodoTMTRAQ proteomics technology was employed to analyze changes in protein redox modifications in Arabidopsis thaliana suspension cells in response to bicarbonate (mimic of elevated CO2) in a time-course study. A total of 47 potential redox-regulated proteins were identified with functions in carbohydrate and energy metabolism, transport, ROS scavenging, cell structure modulation and protein turnover. This inventory of previously unknown redox responsive proteins in Arabidopsis bicarbonate responses lays a foundation for future research toward understanding the molecular mechanisms underlying plant CO2 responses.
Collapse
Affiliation(s)
- Zepeng Yin
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Alkali Soil Natural Environmental Science Center, Ministry of Education, Northeast Forestry UniversityHarbin, China
| | - Kelly Balmant
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
| | - Sisi Geng
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
| | - Ning Zhu
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
- Interdisciplinary Center for Biotechnology Research, University of FloridaGainesville, FL, USA
| | - Tong Zhang
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
| | | | - Shaojun Dai
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Alkali Soil Natural Environmental Science Center, Ministry of Education, Northeast Forestry UniversityHarbin, China
- *Correspondence: Shaojun Dai
| | - Sixue Chen
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
- Interdisciplinary Center for Biotechnology Research, University of FloridaGainesville, FL, USA
- Sixue Chen
| |
Collapse
|
30
|
Urban MO, Vašek J, Klíma M, Krtková J, Kosová K, Prášil IT, Vítámvás P. Proteomic and physiological approach reveals drought-induced changes in rapeseeds: Water-saver and water-spender strategy. J Proteomics 2016; 152:188-205. [PMID: 27838467 DOI: 10.1016/j.jprot.2016.11.004] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2016] [Revised: 10/21/2016] [Accepted: 11/03/2016] [Indexed: 01/05/2023]
Abstract
The cultivar-dependent differences in Brassica napus L. seed yield are significantly affected by drought stress. Here, the response of leaf proteome to long-term drought (28days) was studied in cultivars (cvs): Californium (C), Cadeli (D), Navajo (N), and Viking (V). Analysis of twenty-four 2-D DIGE gels revealed 134 spots quantitatively changed at least 2-fold; from these, 79 proteins were significantly identified by MALDI-TOF/TOF. According to the differences in water use, the cultivars may be assigned to two categories: water-savers or water-spenders. In the water-savers group (cvs C+D), proteins related to nitrogen assimilation, ATP and redox homeostasis were increased under stress, while in the water-spenders category (cvs N+V), carbohydrate/energy, photosynthesis, stress related and rRNA processing proteins were increased upon stress. Taking all data together, we indicated cv C as a drought-adaptable water-saver, cv D as a medium-adaptable water-saver, cv N as a drought-adaptable water-spender, and cv V as a low-adaptable drought sensitive water-spender rapeseed. Proteomic data help to evaluate the impact of drought and the extent of genotype-based adaptability and contribute to the understanding of their plasticity. These results provide new insights into the provenience-based drought acclimation/adaptation strategy of contrasting winter rapeseeds and link data at gasometric, biochemical, and proteome level. SIGNIFICANCE Soil moisture deficit is a real problem for every crop. The data in this study demonstrates for the first time that in stem-prolongation phase cultivars respond to progressive drought in different ways and at different levels. Analysis of physiological and proteomic data showed two different water regime-related strategies: water-savers and spenders. However, not only water uptake rate itself, but also individual protein abundances, gasometric and biochemical parameters together with final biomass accumulation after stress explained genotype-based responses. Interestingly, under a mixed climate profile, both water-use patterns (savers or spenders) can be appropriate for drought adaptation. These data suggest, than complete "acclimation image" of rapeseeds in stem-prolongation phase under drought could be reached only if these characteristics are taken, explained and understood together.
Collapse
Affiliation(s)
- Milan Oldřich Urban
- Crop Research Institute, Department of Genetics and Plant Breeding, Drnovská 507/73, Prague, Czech Republic; Charles University, Department of Experimental Plant Biology, Viničná 5, Prague, Czech Republic.
| | - Jakub Vašek
- Czech University of Life Sciences Prague, Department of Genetics and Breeding, Kamýcká 129, Prague, Czech Republic
| | - Miroslav Klíma
- Crop Research Institute, Department of Genetics and Plant Breeding, Drnovská 507/73, Prague, Czech Republic
| | - Jana Krtková
- Charles University, Department of Experimental Plant Biology, Viničná 5, Prague, Czech Republic
| | - Klára Kosová
- Crop Research Institute, Department of Genetics and Plant Breeding, Drnovská 507/73, Prague, Czech Republic
| | - Ilja Tom Prášil
- Crop Research Institute, Department of Genetics and Plant Breeding, Drnovská 507/73, Prague, Czech Republic
| | - Pavel Vítámvás
- Crop Research Institute, Department of Genetics and Plant Breeding, Drnovská 507/73, Prague, Czech Republic
| |
Collapse
|
31
|
Assmann SM, Jegla T. Guard cell sensory systems: recent insights on stomatal responses to light, abscisic acid, and CO 2. CURRENT OPINION IN PLANT BIOLOGY 2016; 33:157-167. [PMID: 27518594 DOI: 10.1016/j.pbi.2016.07.003] [Citation(s) in RCA: 112] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2016] [Revised: 06/29/2016] [Accepted: 07/06/2016] [Indexed: 05/18/2023]
Abstract
By controlling the opening and closure of the stomatal pores through which gas exchange occurs, guard cells regulate two of the most important plant physiological processes: photosynthesis and transpiration. Accordingly, guard cells have evolved exquisite sensory systems. Here we summarize recent literature on guard cell sensing of light, drought (via the phytohormone abscisic acid (ABA)), and CO2. New advances in our understanding of how guard cells satisfy the energetic and osmotic requirements of stomatal opening and utilize phosphorylation to regulate the anion channels and aquaporins involved in ABA-stimulated stomatal closure are highlighted. Omics and modeling approaches are providing new information that will ultimately allow an integrated understanding of guard cell physiology.
Collapse
Affiliation(s)
- Sarah M Assmann
- Biology Department, Penn State University, 208 Mueller Laboratory, University Park, PA 16802, United States.
| | - Timothy Jegla
- Biology Department, Penn State University, 208 Mueller Laboratory, University Park, PA 16802, United States; Huck Institutes of the Life Sciences, 201 Life Sciences Building, University Park, PA 16802, United States.
| |
Collapse
|
32
|
Krzywińska E, Bucholc M, Kulik A, Ciesielski A, Lichocka M, Dębski J, Ludwików A, Dadlez M, Rodriguez PL, Dobrowolska G. Phosphatase ABI1 and okadaic acid-sensitive phosphoprotein phosphatases inhibit salt stress-activated SnRK2.4 kinase. BMC PLANT BIOLOGY 2016; 16:136. [PMID: 27297076 PMCID: PMC4907068 DOI: 10.1186/s12870-016-0817-1] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2015] [Accepted: 05/23/2016] [Indexed: 05/05/2023]
Abstract
BACKGROUND SNF1-related protein kinases 2 (SnRK2s) are key regulators of the plant response to osmotic stress. They are transiently activated in response to drought and salinity. Based on a phylogenetic analysis SnRK2s are divided into three groups. The classification correlates with their response to abscisic acid (ABA); group 1 consists SnRK2s non-activated in response to ABA, group 2, kinases non-activated or weakly activated (depending on the plant species) by ABA treatment, and group 3, ABA-activated kinases. The activity of all SnRK2s is regulated by phosphorylation. It is well established that clade A phosphoprotein phosphatases 2C (PP2Cs) are negative regulators of ABA-activated SnRK2s, whereas regulators of SnRK2s from group 1 remain unidentified. RESULTS Here, we show that ABI1, a PP2C clade A phosphatase, interacts with SnRK2.4, member of group 1 of the SnRK2 family, dephosphorylates Ser158, whose phosphorylation is needed for the kinase activity, and inhibits the kinase, both in vitro and in vivo. Our data indicate that ABI1 and the kinase regulate primary root growth in response to salinity; the phenotype of ABI1 knockout mutant (abi1td) exposed to salt stress is opposite to that of the snrk2.4 mutant. Moreover, we show that the activity of SnRK2s from group 1 is additionally regulated by okadaic acid-sensitive phosphatase(s) from the phosphoprotein phosphatase (PPP) family. CONCLUSIONS Phosphatase ABI1 and okadaic acid-sensitive phosphatases of the PPP family are negative regulators of salt stress-activated SnRK2.4. The results show that ABI1 inhibits not only the ABA-activated SnRK2s but also at least one ABA-non-activated SnRK2, suggesting that the phosphatase is involved in the cross talk between ABA-dependent and ABA-independent stress signaling pathways in plants.
Collapse
Affiliation(s)
- Ewa Krzywińska
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
- Present address: Nencki Institute of Experimental Biology, Polish Academy of Sciences, Pasteur 3, 02-093, Warsaw, Poland
| | - Maria Bucholc
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
| | - Anna Kulik
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
| | - Arkadiusz Ciesielski
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
- Present address: Department of Chemistry, Warsaw University, Pasteur 1, 02-093, Warsaw, Poland
| | - Małgorzata Lichocka
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
| | - Janusz Dębski
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
| | - Agnieszka Ludwików
- Department of Biotechnology, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University in Poznań, Umultowska 89, 61-614, Poznań, Poland
| | - Michał Dadlez
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland
- Institute of Genetics and Biotechnology, University of Warsaw, Pawińskiego 5a, 02-106, Warsaw, Poland
| | - Pedro L Rodriguez
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, ES-46022, Valencia, Spain
| | - Grażyna Dobrowolska
- Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Pawińskiego 5a, 02-106, Warsaw, Poland.
| |
Collapse
|
33
|
Zhu M, Monroe JG, Suhail Y, Villiers F, Mullen J, Pater D, Hauser F, Jeon BW, Bader JS, Kwak JM, Schroeder JI, McKay JK, Assmann SM. Molecular and systems approaches towards drought-tolerant canola crops. THE NEW PHYTOLOGIST 2016; 210:1169-1189. [PMID: 26879345 DOI: 10.1111/nph.13866] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2015] [Accepted: 12/14/2015] [Indexed: 06/05/2023]
Abstract
1169 I. 1170 II. 1170 III. 1172 IV. 1176 V. 1181 VI. 1182 1183 References 1183 SUMMARY: Modern agriculture is facing multiple challenges including the necessity for a substantial increase in production to meet the needs of a burgeoning human population. Water shortage is a deleterious consequence of both population growth and climate change and is one of the most severe factors limiting global crop productivity. Brassica species, particularly canola varieties, are cultivated worldwide for edible oil, animal feed, and biodiesel, and suffer dramatic yield loss upon drought stress. The recent release of the Brassica napus genome supplies essential genetic information to facilitate identification of drought-related genes and provides new information for agricultural improvement in this species. Here we summarize current knowledge regarding drought responses of canola, including physiological and -omics effects of drought. We further discuss knowledge gained through translational biology based on discoveries in the closely related reference species Arabidopsis thaliana and through genetic strategies such as genome-wide association studies and analysis of natural variation. Knowledge of drought tolerance/resistance responses in canola together with research outcomes arising from new technologies and methodologies will inform novel strategies for improvement of drought tolerance and yield in this and other important crop species.
Collapse
Affiliation(s)
- Mengmeng Zhu
- Biology Department, Pennsylvania State University, University Park, PA, 16802, USA
| | - J Grey Monroe
- Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO, 80523, USA
| | - Yasir Suhail
- Department of Biomedical Engineering, The Johns Hopkins School of Medicine, Baltimore, MD, 21205, USA
| | - Florent Villiers
- Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD, 20740, USA
| | - Jack Mullen
- Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO, 80523, USA
| | - Dianne Pater
- Division of Biological Sciences, Cell and Developmental Biology Section, Food and Fuel for the 21st Century Center, University of California San Diego, La Jolla, CA, 92093-016, USA
| | - Felix Hauser
- Division of Biological Sciences, Cell and Developmental Biology Section, Food and Fuel for the 21st Century Center, University of California San Diego, La Jolla, CA, 92093-016, USA
| | - Byeong Wook Jeon
- Biology Department, Pennsylvania State University, University Park, PA, 16802, USA
| | - Joel S Bader
- Department of Biomedical Engineering, The Johns Hopkins School of Medicine, Baltimore, MD, 21205, USA
- School of Medicine, The Johns Hopkins University, Baltimore, MD, 21205, USA
| | - June M Kwak
- Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD, 20740, USA
- Center for Plant Aging Research, Institute for Basic Science, Department of New Biology, DGIST, Daegu, 42988, Korea
| | - Julian I Schroeder
- Division of Biological Sciences, Cell and Developmental Biology Section, Food and Fuel for the 21st Century Center, University of California San Diego, La Jolla, CA, 92093-016, USA
| | - John K McKay
- Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO, 80523, USA
| | - Sarah M Assmann
- Biology Department, Pennsylvania State University, University Park, PA, 16802, USA
| |
Collapse
|
34
|
Yoo MJ, Ma T, Zhu N, Liu L, Harmon AC, Wang Q, Chen S. Genome-wide identification and homeolog-specific expression analysis of the SnRK2 genes in Brassica napus guard cells. PLANT MOLECULAR BIOLOGY 2016; 91:211-27. [PMID: 26898295 DOI: 10.1007/s11103-016-0456-9] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2015] [Accepted: 02/15/2016] [Indexed: 05/22/2023]
Abstract
Sucrose non-fermenting-1-related protein kinase 2 (SnRK2) proteins constitute a small plant-specific serine/threonine kinase family involved in abscisic acid (ABA) signaling and plant responses to biotic and abiotic stresses. Although SnRK2s have been well-studied in Arabidopsis thaliana, little is known about SnRK2s in Brassica napus. Here we identified 30 putative sequences encoding 10 SnRK2 proteins in the B. napus genome and the expression profiles of a subset of 14 SnRK2 genes in guard cells of B. napus. In agreement with its polyploid origin, B. napus maintains both homeologs from its diploid parents. The results of quantitative real-time PCR (qRT-PCR) and reanalysis of RNA-Seq data showed that certain BnSnRK2 genes were commonly expressed in leaf tissues in different varieties of B. napus. In particular, qRT-PCR results showed that 12 of the 14 BnSnRK2s responded to drought stress in leaves and in ABA-treated guard cells. Among them, BnSnRK2.4 and BnSnRK2.6 were of interest because of their robust responsiveness to ABA treatment and drought stress. Notably, BnSnRK2 genes exhibited up-regulation of different homeologs, particularly in response to abiotic stress. The homeolog expression bias in BnSnRK2 genes suggests that parental origin of genes might be responsible for efficient regulation of stress responses in polyploids. This work has laid a foundation for future functional characterization of the different BnSnKR2 homeologs in B. napus and its parents, especially their functions in guard cell signaling and stress responses.
Collapse
Affiliation(s)
- Mi-Jeong Yoo
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, 32610, USA
| | - Tianyi Ma
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, 32610, USA
- College of Life Sciences, Northeast Forestry University, Harbin, 150040, China
| | - Ning Zhu
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, 32610, USA
| | - Lihong Liu
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, 32610, USA
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture, Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Alice C Harmon
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, 32610, USA
- Plant Molecular and Cellular Biology, University of Florida, Gainesville, FL, 32611, USA
| | - Qiaomei Wang
- Key Laboratory of Horticultural Plant Growth, Development and Quality Improvement, Ministry of Agriculture, Department of Horticulture, Zhejiang University, Hangzhou, 310058, China
| | - Sixue Chen
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, 32610, USA.
- Plant Molecular and Cellular Biology, University of Florida, Gainesville, FL, 32611, USA.
- Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL, 32610, USA.
| |
Collapse
|
35
|
Balmant KM, Zhang T, Chen S. Protein Phosphorylation and Redox Modification in Stomatal Guard Cells. Front Physiol 2016; 7:26. [PMID: 26903877 PMCID: PMC4742557 DOI: 10.3389/fphys.2016.00026] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2015] [Accepted: 01/18/2016] [Indexed: 12/28/2022] Open
Abstract
Post-translational modification (PTM) is recognized as a major process accounting for protein structural variation, functional diversity, and the dynamics and complexity of the proteome. Since PTMs can change the structure and function of proteins, they are essential to coordinate signaling networks and to regulate important physiological processes in eukaryotes. Plants are constantly challenged by both biotic and abiotic stresses that reduce productivity, causing economic losses in crops. The plant responses involve complex physiological, cellular, and molecular processes, with stomatal movement as one of the earliest responses. In order to activate such a rapid response, stomatal guard cells employ cellular PTMs of key protein players in the signaling pathways to regulate the opening and closure of the stomatal pores. Here we discuss two major types of PTMs, protein phosphorylation and redox modification that play essential roles in stomatal movement under stress conditions. We present an overview of PTMs that occur in stomatal guard cells, especially the methods and technologies, and their applications in PTM identification and quantification. Our focus is on PTMs that modify molecular components in guard cell signaling at the stages of signal perception, second messenger production, as well as downstream signaling events and output. Improved understanding of guard cell signaling will enable generation of crops with enhanced stress tolerance, and increased yield and bioenergy through biotechnology and molecular breeding.
Collapse
Affiliation(s)
- Kelly M. Balmant
- Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
- Plant Molecular and Cellular Biology Program, University of FloridaGainesville, FL, USA
| | - Tong Zhang
- Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
| | - Sixue Chen
- Department of Biology, Genetics Institute, University of FloridaGainesville, FL, USA
- Plant Molecular and Cellular Biology Program, University of FloridaGainesville, FL, USA
- Proteomics and Mass Spectrometry, Interdisciplinary Center for Biotechnology Research, University of FloridaGainesville, FL, USA
| |
Collapse
|
36
|
Zhu M, Jeon BW, Geng S, Yu Y, Balmant K, Chen S, Assmann SM. Preparation of Epidermal Peels and Guard Cell Protoplasts for Cellular, Electrophysiological, and -Omics Assays of Guard Cell Function. Methods Mol Biol 2016; 1363:89-121. [PMID: 26577784 DOI: 10.1007/978-1-4939-3115-6_9] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/10/2022]
Abstract
Bioassays are commonly used to study stomatal phenotypes. There are multiple options in the choice of plant materials and species used for observation of stomatal and guard cell responses in vivo. Here, detailed procedures for bioassays of stomatal responses to abscisic acid (ABA) in Arabidopsis thaliana are described, including ABA promotion of stomatal closure, ABA inhibition of stomatal opening, and ABA promotion of reaction oxygen species (ROS) production in guard cells. We also include an example of a stomatal bioassay for the guard cell CO2 response using guard cell-enriched epidermal peels from Brassica napus. Highly pure preparations of guard cell protoplasts can be produced, which are also suitable for studies on guard cell signaling, as well as for studies on guard cell ion transport. Small-scale and large-scale guard cell protoplast preparations are commonly used for electrophysiological and -omics studies, respectively. We provide a procedure for small-scale guard cell protoplasting from A. thaliana. Additionally, a general protocol for large-scale preparation of guard cell protoplasts, with specifications for three different species, A. thaliana, B. napus, and Vicia faba is also provided.
Collapse
Affiliation(s)
- Mengmeng Zhu
- Biology Department, Penn State University, 208 Mueller Laboratory, University Park, PA, 16802, USA
| | - Byeong Wook Jeon
- Biology Department, Penn State University, 208 Mueller Laboratory, University Park, PA, 16802, USA
| | - Sisi Geng
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of Florida, 2033 Mowry Road, Gainesville, FL, 32610, USA
| | - Yunqing Yu
- Biology Department, Penn State University, 208 Mueller Laboratory, University Park, PA, 16802, USA
| | - Kelly Balmant
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of Florida, 2033 Mowry Road, Gainesville, FL, 32610, USA
| | - Sixue Chen
- Plant Molecular and Cellular Biology Program, Department of Biology, Genetics Institute, University of Florida, 2033 Mowry Road, Gainesville, FL, 32610, USA
| | - Sarah M Assmann
- Biology Department, Penn State University, 208 Mueller Laboratory, University Park, PA, 16802, USA.
| |
Collapse
|
37
|
Černý M, Novák J, Habánová H, Cerna H, Brzobohatý B. Role of the proteome in phytohormonal signaling. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2015; 1864:1003-15. [PMID: 26721743 DOI: 10.1016/j.bbapap.2015.12.008] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2015] [Revised: 11/30/2015] [Accepted: 12/16/2015] [Indexed: 02/07/2023]
Abstract
Phytohormones are orchestrators of plant growth and development. A lot of time and effort has been invested in attempting to comprehend their complex signaling pathways but despite success in elucidating some key components, molecular mechanisms in the transduction pathways are far from being resolved. The last decade has seen a boom in the analysis of phytohormone-responsive proteins. Abscisic acid, auxin, brassinosteroids, cytokinin, ethylene, gibberellins, nitric oxide, oxylipins, strigolactones, salicylic acid--all have been analyzed to various degrees. For this review, we collected data from proteome-wide analyses resulting in a list of over 2000 annotated proteins from Arabidopsis proteomics and nearly 500 manually filtered protein families merged from all the data available from different species. We present the currently accepted model of phytohormone signaling, highlight the contributions made by proteomic-based research and describe the key nodes in phytohormone signaling networks, as revealed by proteome analysis. These include ubiquitination and proteasome mediated degradation, calcium ion signaling, redox homeostasis, and phosphoproteome dynamics. Finally, we discuss potential pitfalls and future perspectives in the field. This article is part of a Special Issue entitled: Plant Proteomics--a bridge between fundamental processes and crop production, edited by Dr. Hans-Peter Mock.
Collapse
Affiliation(s)
- Martin Černý
- Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. and CEITEC - Central European Institute of Technology, Mendel University in Brno, Zemědělská 1, CZ-613 00 Brno, Czech Republic.
| | - Jan Novák
- Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. and CEITEC - Central European Institute of Technology, Mendel University in Brno, Zemědělská 1, CZ-613 00 Brno, Czech Republic.
| | - Hana Habánová
- Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. and CEITEC - Central European Institute of Technology, Mendel University in Brno, Zemědělská 1, CZ-613 00 Brno, Czech Republic.
| | - Hana Cerna
- Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. and CEITEC - Central European Institute of Technology, Mendel University in Brno, Zemědělská 1, CZ-613 00 Brno, Czech Republic.
| | - Břetislav Brzobohatý
- Laboratory of Plant Molecular Biology, Institute of Biophysics AS CR, v.v.i. and CEITEC - Central European Institute of Technology, Mendel University in Brno, Zemědělská 1, CZ-613 00 Brno, Czech Republic.
| |
Collapse
|
38
|
Zhang T, Zhu M, Zhu N, Strul JM, Dufresne CP, Schneider JD, Harmon AC, Chen S. Identification of thioredoxin targets in guard cell enriched epidermal peels using cysTMT proteomics. J Proteomics 2015; 133:48-53. [PMID: 26691838 DOI: 10.1016/j.jprot.2015.12.008] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2015] [Revised: 11/21/2015] [Accepted: 12/04/2015] [Indexed: 12/19/2022]
Abstract
UNLABELLED Thioredoxins (Trx) play central roles in cellular redox regulation. Although hundreds of Trx targets have been identified using different approaches, the capture of targets in a quantitative and efficient manner is challenging. Here we report a high-throughput method using cysteine reactive tandem mass tag (cysTMT) labeling followed by liquid chromatography (LC)-mass spectrometry (MS) to screen for Trx targets. Compared to existing methods, this approach allows for i) three replicates of pairwise comparison in a single LC-MS run to reduce run-to-run variation; ii) efficient enrichment of cysteine-containing peptides that requires low protein input; and iii) accurate quantification of the cysteine redox status and localization of the Trx targeted cysteine residues. Application of this method in guard cell-enriched epidermal peels from Brassica napus revealed 80 Trx h targets involved in a broad range of processes, including photosynthesis, stress response, metabolism and cell signaling. The adaption of this protocol in other systems will greatly improve our understanding of the Trx function in regulating cellular redox homeostasis. BIOLOGICAL SIGNIFICANCE Redox homeostasis is tightly regulated for proper cellular activities. Specific protein-protein interactions between redox active molecules such as thioredoxin (Trx) and target proteins constitute the basis for redox-regulated biological processes. The use of cysTMT quantitative proteomics for studying Trx reactions enabled identification of potential Trx targets that provide important insights into the redox regulation in guard cells, a specialized plant cell type responsible for sensing of environmental signals, gas exchange and plant productivity.
Collapse
Affiliation(s)
- Tong Zhang
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA
| | - Mengmeng Zhu
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA
| | - Ning Zhu
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA
| | - Johanna M Strul
- Department of Chemical Engineering, University of Florida, Gainesville, FL 32610, USA
| | - Craig P Dufresne
- Thermo Fisher Scientific, 1400 Northpoint Parkway, West Palm Beach, FL 33407, USA
| | - Jacqueline D Schneider
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA; Department of Chemical Engineering, University of Florida, Gainesville, FL 32610, USA
| | - Alice C Harmon
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Sixue Chen
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA; Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA.
| |
Collapse
|
39
|
Bhat R, Kaur T, Khajuria M, Vyas R, Vyas D. Purification and Characterization of a Novel Redox-Regulated Isoform of Myrosinase (β-Thioglucoside Glucohydrolase) from Lepidium latifolium L. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2015; 63:10218-10226. [PMID: 26527478 DOI: 10.1021/acs.jafc.5b04468] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Myrosinase (ExPASy entry EC 3.2.1.147) is involved in the hydrolysis of glucosinolates to isothiocyanates, nitriles, and thiocyanates that are responsible for various ecological and health benefits. Myrosinase was purified from the leaves of Lepidium latifolium, a high-altitude plant, to homogeneity in a three-step purification process. Purified enzyme exists as dimer in native form (∼160 kDa) with a subunit size of ∼70 kDa. The enzyme exhibited maximum activity at pH 6.0 and 50 °C. With sinigrin as substrate, the enzyme showed Km and Vmax values of 171 ± 23 μM and 0.302 μmol min(-1) mg(-1), respectively. The enzyme was found to be redox-regulated, with an increase in Vmax and Kcat in the presence of GSH. Reduced forms of the enzyme were found to be more active. This thiol-regulated kinetic behavior of myrosinase signifies enzyme's strategy to fine-tune its activity in different redox environments, thus regulating its biological effects.
Collapse
Affiliation(s)
- Rohini Bhat
- Biodiversity and Applied Botany Division, ‡Formulation and Drug Development Division, and §Academy of Scientific and Innovative Research, Indian Institute of Integrative Medicine (CSIR) , Canal Road, Jammu, Jammu and Kashmir 180001, India
| | - Tarandeep Kaur
- Biodiversity and Applied Botany Division, ‡Formulation and Drug Development Division, and §Academy of Scientific and Innovative Research, Indian Institute of Integrative Medicine (CSIR) , Canal Road, Jammu, Jammu and Kashmir 180001, India
| | - Manu Khajuria
- Biodiversity and Applied Botany Division, ‡Formulation and Drug Development Division, and §Academy of Scientific and Innovative Research, Indian Institute of Integrative Medicine (CSIR) , Canal Road, Jammu, Jammu and Kashmir 180001, India
| | - Ruchika Vyas
- Biodiversity and Applied Botany Division, ‡Formulation and Drug Development Division, and §Academy of Scientific and Innovative Research, Indian Institute of Integrative Medicine (CSIR) , Canal Road, Jammu, Jammu and Kashmir 180001, India
| | - Dhiraj Vyas
- Biodiversity and Applied Botany Division, ‡Formulation and Drug Development Division, and §Academy of Scientific and Innovative Research, Indian Institute of Integrative Medicine (CSIR) , Canal Road, Jammu, Jammu and Kashmir 180001, India
| |
Collapse
|
40
|
Munemasa S, Hauser F, Park J, Waadt R, Brandt B, Schroeder JI. Mechanisms of abscisic acid-mediated control of stomatal aperture. CURRENT OPINION IN PLANT BIOLOGY 2015; 28:154-62. [PMID: 26599955 PMCID: PMC4679528 DOI: 10.1016/j.pbi.2015.10.010] [Citation(s) in RCA: 323] [Impact Index Per Article: 35.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2015] [Revised: 10/20/2015] [Accepted: 10/27/2015] [Indexed: 05/18/2023]
Abstract
Drought stress triggers an increase in the level of the plant hormone abscisic acid (ABA), which initiates a signaling cascade to close stomata and reduce water loss. Recent studies have revealed that guard cells control cytosolic ABA concentration through the concerted actions of biosynthesis, catabolism as well as transport across membranes. Substantial progress has been made at understanding the molecular mechanisms of how the ABA signaling core module controls the activity of anion channels and thereby stomatal aperture. In this review, we focus on our current mechanistic understanding of ABA signaling in guard cells including the role of the second messenger Ca(2+) as well as crosstalk with biotic stress responses.
Collapse
Affiliation(s)
- Shintaro Munemasa
- Graduate School of Environmental and Life Science, Okayama University, 1-1-1 Tsushima-naka, Kita-ku, Okayama 7008530, Japan
| | - Felix Hauser
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0116, USA
| | - Jiyoung Park
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0116, USA
| | - Rainer Waadt
- University of Heidelberg, Centre for Organismal Studies, Plant Developmental Biology, Im Neuenheimer Feld 230, 69120 Heidelberg, Germany
| | - Benjamin Brandt
- Structural Plant Biology Laboratory, Department for Botany and Plant Biology, University of Geneva, 30 Quai E. Ansermet, 1211 Geneva, Switzerland
| | - Julian I Schroeder
- Division of Biological Sciences, Cell and Developmental Biology Section, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0116, USA.
| |
Collapse
|
41
|
Daloso DM, Antunes WC, Pinheiro DP, Waquim JP, Araújo WL, Loureiro ME, Fernie AR, Williams TCR. Tobacco guard cells fix CO2 by both Rubisco and PEPcase while sucrose acts as a substrate during light-induced stomatal opening. PLANT, CELL & ENVIRONMENT 2015; 38:2353-71. [PMID: 25871738 DOI: 10.1111/pce.12555] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2015] [Revised: 04/07/2015] [Accepted: 04/09/2015] [Indexed: 05/21/2023]
Abstract
Transcriptomic and proteomic studies have improved our knowledge of guard cell function; however, metabolic changes in guard cells remain relatively poorly understood. Here we analysed metabolic changes in guard cell-enriched epidermal fragments from tobacco during light-induced stomatal opening. Increases in sucrose, glucose and fructose were observed during light-induced stomatal opening in the presence of sucrose in the medium while no changes in starch were observed, suggesting that the elevated fructose and glucose levels were a consequence of sucrose rather than starch breakdown. Conversely, reduction in sucrose was observed during light- plus potassium-induced stomatal opening. Concomitant with the decrease in sucrose, we observed an increase in the level as well as in the (13) C enrichment in metabolites of, or associated with, the tricarboxylic acid cycle following incubation of the guard cell-enriched preparations in (13) C-labelled bicarbonate. Collectively, the results obtained support the hypothesis that sucrose is catabolized within guard cells in order to provide carbon skeletons for organic acid production. Furthermore, they provide a qualitative demonstration that CO2 fixation occurs both via ribulose-1,5-biphosphate carboxylase/oxygenase (Rubisco) and phosphoenolpyruvate carboxylase (PEPcase). The combined data are discussed with respect to current models of guard cell metabolism and function.
Collapse
Affiliation(s)
- Danilo M Daloso
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, 36570-900, Minas Gerais, Brazil
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, 14476, Germany
| | - Werner C Antunes
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, 36570-900, Minas Gerais, Brazil
- Departamento de Biologia, Universidade Estadual de Maringá, Maringá, Paraná, 87020-900, Brazil
| | - Daniela P Pinheiro
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, 36570-900, Minas Gerais, Brazil
| | - Jardel P Waquim
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, 36570-900, Minas Gerais, Brazil
| | - Wagner L Araújo
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, 36570-900, Minas Gerais, Brazil
| | - Marcelo E Loureiro
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, 36570-900, Minas Gerais, Brazil
| | - Alisdair R Fernie
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, 14476, Germany
| | - Thomas C R Williams
- Departamento de Biologia Vegetal, Universidade Federal de Viçosa, Viçosa, 36570-900, Minas Gerais, Brazil
- Departamento de Botânica, Universidade de Brasilia, Brasilia, Distrito Federal, 70910-900, Brazil
| |
Collapse
|
42
|
Liu Y, Fredrickson JK, Sadler NC, Nandhikonda P, Smith RD, Wright AT. Advancing understanding of microbial bioenergy conversion processes by activity-based protein profiling. BIOTECHNOLOGY FOR BIOFUELS 2015; 8:156. [PMID: 26413155 PMCID: PMC4582708 DOI: 10.1186/s13068-015-0343-7] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2015] [Accepted: 09/16/2015] [Indexed: 06/02/2023]
Abstract
The development of renewable biofuels is a global priority, but success will require novel technologies that greatly improve our understanding of microbial systems biology. An approach with great promise in enabling functional characterization of microbes is activity-based protein profiling (ABPP), which employs chemical probes to directly measure enzyme function in discrete enzyme classes in vivo and/or in vitro, thereby facilitating the rapid discovery of new biocatalysts and enabling much improved biofuel production platforms. We review general design strategies in ABPP, and highlight recent advances that are or could be pivotal to biofuels processes including applications of ABPP to cellulosic bioethanol, biodiesel, and phototrophic production of hydrocarbons. We also examine the key challenges and opportunities of ABPP in renewable biofuels research. The integration of ABPP with molecular and systems biology approaches will shed new insight on the catalytic and regulatory mechanisms of functional enzymes and their synergistic effects in the field of biofuels production.
Collapse
Affiliation(s)
- Yun Liu
- />Beijing Key Laboratory of Bioprocess, College of Life Science and Technology, Beijing University of Chemical Technology, 100029 Beijing, China
| | - James K. Fredrickson
- />Biological Sciences Division, Pacific Northwest National Laboratory, 902 Battelle Blvd, MSIN J4-02, Box 999, Richland, WA 99352 USA
| | - Natalie C. Sadler
- />Biological Sciences Division, Pacific Northwest National Laboratory, 902 Battelle Blvd, MSIN J4-02, Box 999, Richland, WA 99352 USA
| | - Premchendar Nandhikonda
- />Biological Sciences Division, Pacific Northwest National Laboratory, 902 Battelle Blvd, MSIN J4-02, Box 999, Richland, WA 99352 USA
| | - Richard D. Smith
- />Biological Sciences Division, Pacific Northwest National Laboratory, 902 Battelle Blvd, MSIN J4-02, Box 999, Richland, WA 99352 USA
| | - Aaron T. Wright
- />Biological Sciences Division, Pacific Northwest National Laboratory, 902 Battelle Blvd, MSIN J4-02, Box 999, Richland, WA 99352 USA
| |
Collapse
|
43
|
Koh J, Chen G, Yoo MJ, Zhu N, Dufresne D, Erickson JE, Shao H, Chen S. Comparative Proteomic Analysis of Brassica napus in Response to Drought Stress. J Proteome Res 2015; 14:3068-81. [PMID: 26086353 DOI: 10.1021/pr501323d] [Citation(s) in RCA: 67] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Drought is one of the most widespread stresses leading to retardation of plant growth and development. We examined proteome changes of an important oil seed crop, canola (Brassica napus L.), under drought stress over a 14-day period. Using iTRAQ LC-MS/MS, we identified 1976 proteins expressed during drought stress. Among them, 417 proteins showed significant changes in abundance, and 136, 244, 286, and 213 proteins were differentially expressed in the third, seventh, 10th, and 14th day of stress, respectively. Functional analysis indicated that the number of proteins associated with metabolism, protein folding and degradation, and signaling decreased, while those related to energy (photosynthesis), protein synthesis, and stress and defense increased in response to drought stress. The seventh and 10th-day profiles were similar to each other but with more post-translational modifications (PTMs) at day 10. Interestingly, 181 proteins underwent PTMs; 49 of them were differentially changed in drought-stressed plants, and 33 were observed at the 10th day. Comparison of protein expression changes with those of gene transcription showed a positive correlation in B. napus, although different patterns between transcripts and proteins were observed at each time point. Under drought stress, most protein abundance changes may be attributed to gene transcription, and PTMs clearly contribute to protein diversity and functions.
Collapse
Affiliation(s)
| | - Gang Chen
- §Yangzhou University, Yangzhou, 225009 Jiangsu, China
| | | | | | - Daniel Dufresne
- ⊥Palm Beach Central High School, Wellington, Florida 33411, United States
| | | | - Hongbo Shao
- #Yantai Institute of Costal Zone Research, Chinese Academy of Sciences, Yantai, 264003 Shandong, China
| | | |
Collapse
|
44
|
Misra BB, Acharya BR, Granot D, Assmann SM, Chen S. The guard cell metabolome: functions in stomatal movement and global food security. FRONTIERS IN PLANT SCIENCE 2015; 6:334. [PMID: 26042131 PMCID: PMC4436583 DOI: 10.3389/fpls.2015.00334] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2015] [Accepted: 04/28/2015] [Indexed: 05/06/2023]
Abstract
Guard cells represent a unique single cell-type system for the study of cellular responses to abiotic and biotic perturbations that affect stomatal movement. Decades of effort through both classical physiological and functional genomics approaches have generated an enormous amount of information on the roles of individual metabolites in stomatal guard cell function and physiology. Recent application of metabolomics methods has produced a substantial amount of new information on metabolome control of stomatal movement. In conjunction with other "omics" approaches, the knowledge-base is growing to reach a systems-level description of this single cell-type. Here we summarize current knowledge of the guard cell metabolome and highlight critical metabolites that bear significant impact on future engineering and breeding efforts to generate plants/crops that are resistant to environmental challenges and produce high yield and quality products for food and energy security.
Collapse
Affiliation(s)
- Biswapriya B. Misra
- Department of Biology, Genetics Institute, Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL, USA
| | | | - David Granot
- Department of Vegetable Research, Institute of Plant Sciences, Agricultural Research Organization, Bet-Dagan, Israel
| | | | - Sixue Chen
- Department of Biology, Genetics Institute, Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL, USA
- Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL, USA
| |
Collapse
|
45
|
Liu P, Zhang H, Yu B, Xiong L, Xia Y. Proteomic identification of early salicylate- and flg22-responsive redox-sensitive proteins in Arabidopsis. Sci Rep 2015; 5:8625. [PMID: 25720653 PMCID: PMC4342551 DOI: 10.1038/srep08625] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2014] [Accepted: 01/27/2015] [Indexed: 12/04/2022] Open
Abstract
Accumulation of reactive oxygen species (ROS) is one of the early defense responses against pathogen infection in plants. The mechanism about the initial and direct regulation of the defense signaling pathway by ROS remains elusive. Perturbation of cellular redox homeostasis by ROS is believed to alter functions of redox-sensitive proteins through their oxidative modifications. Here we report an OxiTRAQ-based proteomic study in identifying proteins whose cysteines underwent oxidative modifications in Arabidopsis cells during the early response to salicylate or flg22, two defense pathway elicitors that are known to disturb cellular redox homeostasis. Among the salicylate- and/or flg22-responsive redox-sensitive proteins are those involved in transcriptional regulation, chromatin remodeling, RNA processing, post-translational modifications, and nucleocytoplasmic shuttling. The identification of the salicylate-/flg22-responsive redox-sensitive proteins provides a foundation from which further study can be conducted toward understanding biological significance of their oxidative modifications during the plant defense response.
Collapse
Affiliation(s)
- Pei Liu
- 1] Department of Biology, Hong Kong Baptist University, Kowloon, Hong Kong [2] Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | - Huoming Zhang
- Biosciences Core Laboratory, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | - Boying Yu
- Department of Biology, Hong Kong Baptist University, Kowloon, Hong Kong
| | - Liming Xiong
- Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia
| | - Yiji Xia
- 1] Department of Biology, Hong Kong Baptist University, Kowloon, Hong Kong [2] Partner State Key Laboratory of Agrobiotechnology, Chinese University of Hong Kong, Shatin, Hong Kong
| |
Collapse
|
46
|
Balmant KM, Parker J, Yoo MJ, Zhu N, Dufresne C, Chen S. Redox proteomics of tomato in response to Pseudomonas syringae infection. HORTICULTURE RESEARCH 2015; 2:15043. [PMID: 26504582 PMCID: PMC4591677 DOI: 10.1038/hortres.2015.43] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2015] [Revised: 08/20/2015] [Accepted: 08/20/2015] [Indexed: 05/21/2023]
Abstract
Unlike mammals with adaptive immunity, plants rely on their innate immunity based on pattern-triggered immunity (PTI) and effector-triggered immunity (ETI) for pathogen defense. Reactive oxygen species, known to play crucial roles in PTI and ETI, can perturb cellular redox homeostasis and lead to changes of redox-sensitive proteins through modification of cysteine sulfhydryl groups. Although redox regulation of protein functions has emerged as an important mechanism in several biological processes, little is known about redox proteins and how they function in PTI and ETI. In this study, cysTMT proteomics technology was used to identify similarities and differences of protein redox modifications in tomato resistant (PtoR) and susceptible (prf3) genotypes in response to Pseudomonas syringae pv tomato (Pst) infection. In addition, the results of the redox changes were compared and corrected with the protein level changes. A total of 90 potential redox-regulated proteins were identified with functions in carbohydrate and energy metabolism, biosynthesis of cysteine, sucrose and brassinosteroid, cell wall biogenesis, polysaccharide/starch biosynthesis, cuticle development, lipid metabolism, proteolysis, tricarboxylic acid cycle, protein targeting to vacuole, and oxidation-reduction. This inventory of previously unknown protein redox switches in tomato pathogen defense lays a foundation for future research toward understanding the biological significance of protein redox modifications in plant defense responses.
Collapse
Affiliation(s)
- Kelly Mayrink Balmant
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, USA
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL, USA
| | - Jennifer Parker
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, USA
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL, USA
| | - Mi-Jeong Yoo
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, USA
| | - Ning Zhu
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, USA
| | - Craig Dufresne
- Thermo Fisher Scientific, 1400 Northpoint Parkway, West Palm Beach, FL, USA
| | - Sixue Chen
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL, USA
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL, USA
- Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL, USA
- E-mail:
| |
Collapse
|
47
|
Parker J, Balmant K, Zhu F, Zhu N, Chen S. cysTMTRAQ-An integrative method for unbiased thiol-based redox proteomics. Mol Cell Proteomics 2015; 14:237-42. [PMID: 25316711 PMCID: PMC4288258 DOI: 10.1074/mcp.o114.041772] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2014] [Revised: 09/12/2014] [Indexed: 11/06/2022] Open
Abstract
Protein redox regulation plays important roles in many biological processes. Protein cysteine thiols are sensitive to redox changes and may function as redox switches, which turn signaling and metabolic pathways on or off to ensure speedy responses to environmental stimuli or stresses. Here we report a novel integrative proteomics method called cysTMTRAQ that combines two types of isobaric tags, cysteine tandem mass tags and isobaric tag for relative and absolute quantification, in one experiment. The method not only enables simultaneous analysis of cysteine redox changes and total protein level changes, but also allows the determination of bona fide redox modified cysteines in proteins through the correction of protein turnover. Overlooking the factor of protein-level changes in the course of protein posttranslational modification experiments could lead to misleading results. The capability to analyze protein posttranslational modification dynamics and protein-level changes in one experiment will advance proteomic studies in many areas of biology and medicine.
Collapse
Affiliation(s)
- Jennifer Parker
- From the ‡Department of Biology, Genetics Institute, University of Florida, Gainesville, Florida 32611; §Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, Florida 32610
| | - Kelly Balmant
- From the ‡Department of Biology, Genetics Institute, University of Florida, Gainesville, Florida 32611; §Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, Florida 32610
| | - Fanchao Zhu
- From the ‡Department of Biology, Genetics Institute, University of Florida, Gainesville, Florida 32611
| | - Ning Zhu
- From the ‡Department of Biology, Genetics Institute, University of Florida, Gainesville, Florida 32611
| | - Sixue Chen
- From the ‡Department of Biology, Genetics Institute, University of Florida, Gainesville, Florida 32611; §Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, Florida 32610; ‖Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, Florida 32610
| |
Collapse
|
48
|
Zhang T, Zhu M, Song WY, Harmon AC, Chen S. Oxidation and phosphorylation of MAP kinase 4 cause protein aggregation. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2014; 1854:156-65. [PMID: 25433264 DOI: 10.1016/j.bbapap.2014.11.006] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2014] [Revised: 10/12/2014] [Accepted: 11/19/2014] [Indexed: 01/22/2023]
Abstract
Mitogen-activated protein kinase (MPK) cascades are highly conserved signaling pathways that respond to environmental cues. Arabidopsis MPK4 has been identified as a stress-responsive protein kinase. Here we demonstrate that Brassica napus MPK4 (BnMPK4) is activated by hydrogen peroxide (H2O2) and phytohormone abscisic acid (ABA). Transient expression of a constitutively active BnMPK4 causes H2O2 production and cell death in Nicotiana benthamiana leaves. However, little is known about how H2O2 contributes to the regulation of MPK4 kinase function. Biochemical analysis revealed that recombinant BnMPK4 autophosphorylates on both threonine and tyrosine residues in the activation loop. In the presence of H2O2, phosphorylation of BnMPK4 caused protein aggregation in vitro. The aggregation of BnMPK4 could be reversed to the monomeric form by reducing reagents. Point-mutation of cysteine codons indicated that cysteine 232 is involved in protein aggregation. Our results suggest that BnMPK4 is involved in reactive oxygen species (ROS) signaling and metabolism, and its aggregation may be modulated by redox.
Collapse
Affiliation(s)
- Tong Zhang
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA
| | - Mengmeng Zhu
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA
| | - Wen-yuan Song
- Department of Plant Pathology, University of Florida, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Alice C Harmon
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Sixue Chen
- Department of Biology, University of Florida, Gainesville, FL 32610, USA; Genetics Institute, University of Florida, Gainesville, FL 32610, USA; Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA; Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA.
| |
Collapse
|
49
|
Abstract
Reactive oxygen species (ROS) have been shown to be potent signaling molecules. Today, oxidation of cysteine residues is a well-recognized posttranslational protein modification, but the signaling processes steered by such oxidations are poorly understood. To gain insight into the cysteine thiol-dependent ROS signaling in Arabidopsis thaliana, we identified the hydrogen peroxide (H2O2)-dependent sulfenome: that is, proteins with at least one cysteine thiol oxidized to a sulfenic acid. By means of a genetic construct consisting of a fusion between the C-terminal domain of the yeast (Saccharomyces cerevisiae) AP-1-like (YAP1) transcription factor and a tandem affinity purification tag, we detected ∼ 100 sulfenylated proteins in Arabidopsis cell suspensions exposed to H2O2 stress. The in vivo YAP1-based trapping of sulfenylated proteins was validated by a targeted in vitro analysis of dehydroascorbate reductase2 (DHAR2). In DHAR2, the active site nucleophilic cysteine is regulated through a sulfenic acid-dependent switch, leading to S-glutathionylation, a protein modification that protects the protein against oxidative damage.
Collapse
|