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Zhu Y, Wang H, Xiang X, Hayat K, Wu R, Tian J, Zheng H, Xie M, Li B, Du S. A dose-dependent effect of UV-328 on photosynthesis: Exploring light harvesting and UV-B sensing mechanisms. JOURNAL OF HAZARDOUS MATERIALS 2024; 473:134670. [PMID: 38781858 DOI: 10.1016/j.jhazmat.2024.134670] [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: 02/16/2024] [Revised: 04/27/2024] [Accepted: 05/19/2024] [Indexed: 05/25/2024]
Abstract
Benzotriazole ultraviolet (UV) stabilizers (BUVs) have emerged as significant environmental contaminants, frequently detected in various ecosystems. While the toxicity of BUVs to aquatic organisms is well-documented, studies on their impact on plant life are scarce. Plants are crucial as they provide the primary source of energy and organic matter in ecosystems through photosynthesis. This study investigated the effects of UV-328 (2-(2-hydroxy-4',6'-di-tert-amylphenyl) benzotriazole) on plant growth indices and photosynthesis processes, employing conventional physiological experiments, RNA sequencing (RNA-seq) analysis, and computational methods. Results demonstrated a biphasic response in plant biomass and the maximum quantum yield of PS II (Fv/Fm), showing improvement at a 50 μM UV-328 treatment but reduction under 150 μM UV-328 exposure. Additionally, disruption in thylakoid morphology was observed at the higher concentration. RNA-seq and qRT-PCR analysis identified key differentially expressed genes (light-harvesting chlorophyll-protein complex Ⅰ subunit A4, light-harvesting chlorophyll b-binding protein 3, UVR8, and curvature thylakoid 1 A) related to photosynthetic light harvesting, UV-B sensing, and chloroplast structure pathways, suggesting they may contribute to the observed alterations in photosynthesis activity induced by UV-328 exposure. Molecular docking analyses further supported the binding affinity between these proteins and UV-328. Overall, this study provided comprehensive physiological and molecular insights, contributing valuable information to the evaluation of the potential risks posed by UV-328 to critical plant physiological processes.
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Affiliation(s)
- Yaxin Zhu
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China
| | - Hua Wang
- College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua 321004, China
| | - Xiaobo Xiang
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China
| | - Kashif Hayat
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China
| | - Ran Wu
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China
| | - Jiaying Tian
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China
| | - Haoyi Zheng
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China
| | - Minghui Xie
- College of Geography and Environmental Sciences, Zhejiang Normal University, Jinhua 321004, China
| | - Beier Li
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China
| | - Shaoting Du
- Key Laboratory of Pollution Exposure and Health Intervention of Zhejiang Province, Interdisciplinary Research Academy (IRA), Zhejiang Shuren University, Hangzhou 310015, China.
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Tolleter D, Smith EN, Dupont-Thibert C, Uwizeye C, Vile D, Gloaguen P, Falconet D, Finazzi G, Vandenbrouck Y, Curien G. The Arabidopsis leaf quantitative atlas: a cellular and subcellular mapping through unified data integration. QUANTITATIVE PLANT BIOLOGY 2024; 5:e2. [PMID: 38572078 PMCID: PMC10988163 DOI: 10.1017/qpb.2024.1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/19/2023] [Revised: 12/21/2023] [Accepted: 01/17/2024] [Indexed: 04/05/2024]
Abstract
Quantitative analyses and models are required to connect a plant's cellular organisation with its metabolism. However, quantitative data are often scattered over multiple studies, and finding such data and converting them into useful information is time-consuming. Consequently, there is a need to centralise the available data and to highlight the remaining knowledge gaps. Here, we present a step-by-step approach to manually extract quantitative data from various information sources, and to unify the data format. First, data from Arabidopsis leaf were collated, checked for consistency and correctness and curated by cross-checking sources. Second, quantitative data were combined by applying calculation rules. They were then integrated into a unique comprehensive, referenced, modifiable and reusable data compendium representing an Arabidopsis reference leaf. This atlas contains the metrics of the 15 cell types found in leaves at the cellular and subcellular levels.
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Affiliation(s)
- Dimitri Tolleter
- Laboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, CEA, INRAE, Grenoble, France
| | - Edward N. Smith
- Molecular Systems Biology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Groningen, The Netherlands
| | - Clémence Dupont-Thibert
- Laboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, CEA, INRAE, Grenoble, France
| | - Clarisse Uwizeye
- Laboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, CEA, INRAE, Grenoble, France
| | - Denis Vile
- Laboratoire d’Ecophysiologie des Plantes sous Stress Environnementaux (LEPSE), UMR 759, Université de Montpellier, INRAE, Institut Agro, Montpellier, France
| | - Pauline Gloaguen
- Laboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, CEA, INRAE, Grenoble, France
| | - Denis Falconet
- Laboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, CEA, INRAE, Grenoble, France
| | - Giovanni Finazzi
- Laboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, CEA, INRAE, Grenoble, France
| | | | - Gilles Curien
- Laboratoire de Physiologie Cellulaire et Végétale, Université Grenoble Alpes, CNRS, CEA, INRAE, Grenoble, France
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Schreier TB, Müller KH, Eicke S, Faulkner C, Zeeman SC, Hibberd JM. Plasmodesmal connectivity in C 4 Gynandropsis gynandra is induced by light and dependent on photosynthesis. THE NEW PHYTOLOGIST 2024; 241:298-313. [PMID: 37882365 PMCID: PMC10952754 DOI: 10.1111/nph.19343] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2022] [Accepted: 09/28/2023] [Indexed: 10/27/2023]
Abstract
In leaves of C4 plants, the reactions of photosynthesis become restricted between two compartments. Typically, this allows accumulation of C4 acids in mesophyll (M) cells and subsequent decarboxylation in the bundle sheath (BS). In C4 grasses, proliferation of plasmodesmata between these cell types is thought to increase cell-to-cell connectivity to allow efficient metabolite movement. However, it is not known whether C4 dicotyledons also show this enhanced plasmodesmal connectivity and so whether this is a general requirement for C4 photosynthesis is not clear. How M and BS cells in C4 leaves become highly connected is also not known. We investigated these questions using 3D- and 2D-electron microscopy on the C4 dicotyledon Gynandropsis gynandra as well as phylogenetically close C3 relatives. The M-BS interface of C4 G. gynandra showed higher plasmodesmal frequency compared with closely related C3 species. Formation of these plasmodesmata was induced by light. Pharmacological agents that perturbed photosynthesis reduced the number of plasmodesmata, but this inhibitory effect could be reversed by the provision of exogenous sucrose. We conclude that enhanced formation of plasmodesmata between M and BS cells is wired to the induction of photosynthesis in C4 G. gynandra.
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Affiliation(s)
- Tina B. Schreier
- Department of Plant SciencesUniversity of CambridgeDowning StreetCambridgeCB1 3EAUK
- Present address:
Department of BiologyUniversity of OxfordSouth Parks RoadOxfordOX1 3RBUK
| | - Karin H. Müller
- Cambridge Advanced Imaging Centre (CAIC)University of CambridgeDowning StreetCambridgeCB2 3DYUK
| | - Simona Eicke
- Institute of Molecular Plant BiologyETH ZurichZurichCH‐8092Switzerland
| | - Christine Faulkner
- Cell and Developmental BiologyJohn Innes CentreNorwich Research ParkNorwichNR4 7UHUK
| | - Samuel C. Zeeman
- Institute of Molecular Plant BiologyETH ZurichZurichCH‐8092Switzerland
| | - Julian M. Hibberd
- Department of Plant SciencesUniversity of CambridgeDowning StreetCambridgeCB1 3EAUK
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4
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Knoblauch J, Waadt R, Cousins AB, Kunz HH. Probing the in situ volumes of Arabidopsis leaf plastids using three-dimensional confocal and scanning electron microscopy. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2024; 117:332-341. [PMID: 37985241 DOI: 10.1111/tpj.16554] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2023] [Revised: 10/31/2023] [Accepted: 11/08/2023] [Indexed: 11/22/2023]
Abstract
Leaf plastids harbor a plethora of biochemical reactions including photosynthesis, one of the most important metabolic pathways on Earth. Scientists are eager to unveil the physiological processes within the organelle but also their interconnection with the rest of the plant cell. An increasingly important feature of this venture is to use experimental data in the design of metabolic models. A remaining obstacle has been the limited in situ volume information of plastids and other cell organelles. To fill this gap for chloroplasts, we established three microscopy protocols delivering in situ volumes based on: (i) chlorophyll fluorescence emerging from the thylakoid membrane, (ii) a CFP marker embedded in the envelope, and (iii) calculations from serial block-face scanning electron microscopy (SBFSEM). The obtained data were corroborated by comparing wild-type data with two mutant lines affected in the plastid division machinery known to produce small and large mesophyll chloroplasts, respectively. Furthermore, we also determined the volume of the much smaller guard cell plastids. Interestingly, their volume is not governed by the same components of the division machinery which defines mesophyll plastid size. Based on our three approaches, the average volume of a mature Col-0 wild-type mesophyll chloroplasts is 93 μm3 . Wild-type guard cell plastids are approximately 18 μm3 . Lastly, our comparative analysis shows that the chlorophyll fluorescence analysis can accurately determine chloroplast volumes, providing an important tool to research groups without access to transgenic marker lines expressing genetically encoded fluorescence proteins or costly SBFSEM equipment.
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Affiliation(s)
- Jan Knoblauch
- School of Biological Sciences, Washington State University, P.O. Box 644236, Pullman, Washington, 99164-4236, USA
| | - Rainer Waadt
- Institute of Plant Biology and Biotechnology, University of Münster, Schlossplatz 7, 48149, Münster, Germany
| | - Asaph B Cousins
- School of Biological Sciences, Washington State University, P.O. Box 644236, Pullman, Washington, 99164-4236, USA
| | - Hans-Henning Kunz
- School of Biological Sciences, Washington State University, P.O. Box 644236, Pullman, Washington, 99164-4236, USA
- LMU Munich, Plant Biochemistry, Großhadernerstr. 2-4, 82152, Planegg-Martinsried, Germany
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5
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Montgomery BL. Following the Principles of the Universe: Lessons from Plants on Individual and Communal Thriving. Integr Comp Biol 2023; 63:1391-1398. [PMID: 37604783 PMCID: PMC10755201 DOI: 10.1093/icb/icad117] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2023] [Revised: 08/06/2023] [Accepted: 08/13/2023] [Indexed: 08/23/2023] Open
Abstract
The means by which plants and other organisms exist in and respond to dynamic environments to support their thriving as individuals and in communities provide lessons for humans on sustainable and resilient thriving. First examined in my book, Lessons from Plants (Harvard University Press, 2021), I explore herein the following question: "How can plants teach us to be better humans?" I consider how insights gathered from plant physiology, phenotypic plasticity, and other plant growth phenomena can help us improve our lives and our society, with a focus on highlighting academic and scientific environments. Genetically identical plants can have very different appearances, metabolisms, and behaviors if the external environments in which they are growing differ in light or nutrient availability, among other environmental differences. Plants are even capable of transformative behaviors that enable them to maximize their chances of survival in dynamic and sometimes unfriendly environments, while also transforming the environment in which they exist in the process. Highlighting examples from research on, for instance, plants' responses to light and nutrient cues, I focus on insights for humans derived from lessons from plants. These lessons focus on how plants achieve their own purposes by following common principles of the universe on thriving and resilience as individuals and in communities.
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Affiliation(s)
- Beronda L Montgomery
- Department of Biology, Grinnell College, 1121 Park Street, Grinnell, IA 50112, USA
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McCue KF, Mehlferber E, Reed R, Ortiz A, Ferrel J, Khanna R. Photosynthetically active radiation is required for seedling growth promotion by volcanic dacitic tuff breccia (Azomite). PLANT DIRECT 2023; 7:e537. [PMID: 38044963 PMCID: PMC10690473 DOI: 10.1002/pld3.537] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Revised: 07/28/2023] [Accepted: 09/26/2023] [Indexed: 12/05/2023]
Abstract
A plant's growth and development are shaped by its genome and the capacity to negotiate its environment for access to light, water, and nutrients. There is a vital need to understand the interactions between the plant, its physical environment, and the fertilizers used in agriculture. In this study, a commercially available volcanic ash fertilizer, Azomite®, characterized as dacitic (rhyolitic) tuff breccia, was tested for its effect on promoting early seedling vigor. Early growth and photomorphogenesis processes are well studied in Arabidopsis. Seedling assays under different light conditions were used to dissect the underlying mechanisms involved. These assays are well established and can be translated to agriculturally important crop plants. The volcanic ash fertilizer was tested at different concentrations on seedlings grown on basic media lacking sucrose either in continuous darkness (Dc), continuous Red (Rc), Far-Red (FRc), or White Light (WLc). Micronutrients in the volcanic ash significantly increased seedling growth under Rc and WLc, but not under Dc and FRc, indicating that photosynthetically active radiation was required for the observed growth increase. Furthermore, red-light photoreceptor mutant, phyB-9, lacked the growth response, and higher amount of fertilizer reduced growth in all conditions tested. These data suggest that light triggers the ability of the seedling to utilize micronutrients in volcanic ash in a dose-dependent manner. The methods described here can be used to establish mechanisms of activity of various nutrient inputs and, coupled with whole-genome expression profiling, can lead to better insights into optimizing nutrient field applications to improve crop production.
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Affiliation(s)
- Kent F. McCue
- Agricultural Research Service, Western Regional Research Center, Crop Improvement and Genetics Research UnitUSDAAlbanyCaliforniaUSA
| | - Elijah Mehlferber
- Department of Integrative BiologyUniversity of California BerkeleyBerkeleyCaliforniaUSA
| | - Robert Reed
- Biotechnology Education & Specialized Training (BEST) Internship Program, i‐Cultiver, Inc., in collaboration with Contra Costa Community CollegeSan PabloCaliforniaUSA
| | - Alexis Ortiz
- Biotechnology Education & Specialized Training (BEST) Internship Program, i‐Cultiver, Inc., in collaboration with Contra Costa Community CollegeSan PabloCaliforniaUSA
| | - Jon Ferrel
- Azomite Mineral Products, Inc.NephiUtahUSA
- i‐Cultiver, Inc.MantecaCaliforniaUSA
| | - Rajnish Khanna
- i‐Cultiver, Inc.MantecaCaliforniaUSA
- Department of Plant BiologyCarnegie Institution for ScienceStanfordCaliforniaUSA
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7
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Wei Y, Wang S, Yu D. The Role of Light Quality in Regulating Early Seedling Development. PLANTS (BASEL, SWITZERLAND) 2023; 12:2746. [PMID: 37514360 PMCID: PMC10383958 DOI: 10.3390/plants12142746] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2023] [Revised: 07/09/2023] [Accepted: 07/20/2023] [Indexed: 07/30/2023]
Abstract
It is well-established that plants are sessile and photoautotrophic organisms that rely on light throughout their entire life cycle. Light quality (spectral composition) is especially important as it provides energy for photosynthesis and influences signaling pathways that regulate plant development in the complex process of photomorphogenesis. During previous years, significant progress has been made in light quality's physiological and biochemical effects on crops. However, understanding how light quality modulates plant growth and development remains a complex challenge. In this review, we provide an overview of the role of light quality in regulating the early development of plants, encompassing processes such as seed germination, seedling de-etiolation, and seedling establishment. These insights can be harnessed to improve production planning and crop quality by producing high-quality seedlings in plant factories and improving the theoretical framework for modern agriculture.
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Affiliation(s)
- Yunmin Wei
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518060, China
- College of Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China
| | - Shuwei Wang
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518060, China
| | - Dashi Yu
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518060, China
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8
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Lei Y, Li B, Wang X, Wei J, Wang P, Zhao J, Yu F, Qi Y. Chloroplast SRP54 and FtsH protease coordinate thylakoid membrane-associated proteostasis in Arabidopsis. PLANT PHYSIOLOGY 2023; 192:2318-2335. [PMID: 36994815 PMCID: PMC10315307 DOI: 10.1093/plphys/kiad199] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Revised: 02/24/2023] [Accepted: 03/01/2023] [Indexed: 06/19/2023]
Abstract
Thylakoid membrane protein quality control (PQC), which requires the coordination of membrane protein translocation and degradation of unassembled proteins, determines chloroplast development during de-etiolation. Despite numerous efforts, the regulation of this process in land plants is largely unknown. Here, we report the isolation and characterization of pale green Arabidopsis4 (pga4) mutants in Arabidopsis (Arabidopsis thaliana) with defects in chloroplast development during de-etiolation. Map-based cloning and complementation assays confirmed that PGA4 encodes the chloroplast Signal Recognition Particle 54 kDa (cpSRP54) protein. A heterogeneous Light-Harvesting Chlorophyll a/b Binding-Green Fluorescent Protein (LhcB2-GFP) fusion protein was generated as an indicative reporter for cpSRP54-mediated thylakoid translocation. LhcB2-GFP was dysfunctional and degraded to a short-form dLhcB2-GFP during de-etiolation through an N-terminal degradation initiated on thylakoid membranes. Further biochemical and genetic evidence demonstrated that the degradation of LhcB2-GFP to dLhcB2-GFP was disrupted in pga4 and yellow variegated2 (var2) mutants caused by mutations in the Filamentous Temperature-Sensitive H2 (VAR2/AtFtsH2) subunit of thylakoid FtsH. The yeast two-hybrid assay showed that the N-terminus of LhcB2-GFP interacts with the protease domain of VAR2/AtFtsH2. Moreover, the over-accumulated LhcB2-GFP in pga4 and var2 formed protein aggregates, which were insoluble in mild nonionic detergents. Genetically, cpSRP54 is a suppressor locus for the leaf variegation phenotype of var2. Together, these results demonstrate the coordination of cpSRP54 and thylakoid FtsH in maintaining thylakoid membrane PQC during the assembly of photosynthetic complexes and provide a trackable substrate and product for monitoring cpSRP54-dependent protein translocation and FtsH-dependent protein degradation.
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Affiliation(s)
- Yang Lei
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Bilang Li
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Xiaomin Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Junyou Wei
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Peiyi Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Jun Zhao
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Fei Yu
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Yafei Qi
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
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9
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Wickramanayake JS, Czymmek KJ. A conventional fixation volume electron microscopy protocol for plants. Methods Cell Biol 2023; 177:83-99. [PMID: 37451777 DOI: 10.1016/bs.mcb.2023.04.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
Abstract
Volume electron microscopy techniques play an important role in plant research from understanding organelles and unicellular forms to developmental studies, environmental effects and microbial interactions with large plant structures, to name a few. Due to large air voids central vacuole, cell wall and waxy cuticle, many plant tissues pose challenges when trying to achieve high quality morphology, metal staining and adequate conductivity for high-resolution volume EM studies. Here, we applied a robust conventional chemical fixation strategy to address the special challenges of plant samples and suitable for, but not limited to, serial block-face and focused ion beam scanning electron microscopy. The chemistry of this protocol was modified from an approach developed for improved and uniform staining of large brain volumes. Briefly, primary fixation was in paraformaldehyde and glutaraldehyde with malachite green followed by secondary fixation with osmium tetroxide, potassium ferrocyanide, thiocarbohydrazide, osmium tetroxide and finally uranyl acetate and lead aspartate staining. Samples were then dehydrated in acetone with a propylene oxide transition and embedded in a hard formulation Quetol 651 resin. The samples were trimmed and mounted with silver epoxy, metal coated and imaged via serial block-face scanning electron microscopy and focal charge compensation for charge suppression. High-contrast plant tobacco and duckweed leaf cellular structures were readily visible including mitochondria, Golgi, endoplasmic reticulum and nuclear envelope membranes, as well as prominent chloroplast thylakoid membranes and individual lamella in grana stacks. This sample preparation protocol serves as a reliable starting point for routine plant volume electron microscopy.
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Affiliation(s)
- Janithri S Wickramanayake
- Donald Danforth Plant Science Center, Saint Louis, MO, United States; Advanced Bioimaging Laboratory, Donald Danforth Plant Science Center, Saint Louis, MO, United States
| | - Kirk J Czymmek
- Donald Danforth Plant Science Center, Saint Louis, MO, United States; Advanced Bioimaging Laboratory, Donald Danforth Plant Science Center, Saint Louis, MO, United States.
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10
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Sierra J, Escobar-Tovar L, Leon P. Plastids: diving into their diversity, their functions, and their role in plant development. JOURNAL OF EXPERIMENTAL BOTANY 2023; 74:2508-2526. [PMID: 36738278 DOI: 10.1093/jxb/erad044] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Accepted: 01/31/2023] [Indexed: 06/06/2023]
Abstract
Plastids are a group of essential, heterogenous semi-autonomous organelles characteristic of plants that perform photosynthesis and a diversity of metabolic pathways that impact growth and development. Plastids are remarkably dynamic and can interconvert in response to specific developmental and environmental cues, functioning as a central metabolic hub in plant cells. By far the best studied plastid is the chloroplast, but in recent years the combination of modern techniques and genetic analyses has expanded our current understanding of plastid morphological and functional diversity in both model and non-model plants. These studies have provided evidence of an unexpected diversity of plastid subtypes with specific characteristics. In this review, we describe recent findings that provide insights into the characteristics of these specialized plastids and their functions. We concentrate on the emerging evidence that supports the model that signals derived from particular plastid types play pivotal roles in plant development, environmental, and defense responses. Furthermore, we provide examples of how new technologies are illuminating the functions of these specialized plastids and the overall complexity of their differentiation processes. Finally, we discuss future research directions such as the use of ectopic plastid differentiation as a valuable tool to characterize factors involved in plastid differentiation. Collectively, we highlight important advances in the field that can also impact future agricultural and biotechnological improvement in plants.
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Affiliation(s)
- Julio Sierra
- Departamento de Biología Molecular de Plantas, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, México
| | - Lina Escobar-Tovar
- Departamento de Biología Molecular de Plantas, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, México
| | - Patricia Leon
- Departamento de Biología Molecular de Plantas, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, México
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11
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Liebers M, Cozzi C, Uecker F, Chambon L, Blanvillain R, Pfannschmidt T. Biogenic signals from plastids and their role in chloroplast development. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:7105-7125. [PMID: 36002302 DOI: 10.1093/jxb/erac344] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2022] [Accepted: 08/23/2022] [Indexed: 06/15/2023]
Abstract
Plant seeds do not contain differentiated chloroplasts. Upon germination, the seedlings thus need to gain photoautotrophy before storage energies are depleted. This requires the coordinated expression of photosynthesis genes encoded in nuclear and plastid genomes. Chloroplast biogenesis needs to be additionally coordinated with the light regulation network that controls seedling development. This coordination is achieved by nucleus to plastid signals called anterograde and plastid to nucleus signals termed retrograde. Retrograde signals sent from plastids during initial chloroplast biogenesis are also called biogenic signals. They have been recognized as highly important for proper chloroplast biogenesis and for seedling development. The molecular nature, transport, targets, and signalling function of biogenic signals are, however, under debate. Several studies disproved the involvement of a number of key components that were at the base of initial models of retrograde signalling. New models now propose major roles for a functional feedback between plastid and cytosolic protein homeostasis in signalling plastid dysfunction as well as the action of dually localized nucleo-plastidic proteins that coordinate chloroplast biogenesis with light-dependent control of seedling development. This review provides a survey of the developments in this research field, summarizes the unsolved questions, highlights several recent advances, and discusses potential new working modes.
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Affiliation(s)
- Monique Liebers
- Gottfried-Wilhelm-Leibniz-Universität Hannover, Naturwissenschaftliche Fakultät, Institut für Botanik, Pflanzenphysiologie, Herrenhäuser Str. 2, D-30419 Hannover, Germany
| | - Carolina Cozzi
- Gottfried-Wilhelm-Leibniz-Universität Hannover, Naturwissenschaftliche Fakultät, Institut für Botanik, Pflanzenphysiologie, Herrenhäuser Str. 2, D-30419 Hannover, Germany
| | - Finia Uecker
- Gottfried-Wilhelm-Leibniz-Universität Hannover, Naturwissenschaftliche Fakultät, Institut für Botanik, Pflanzenphysiologie, Herrenhäuser Str. 2, D-30419 Hannover, Germany
| | - Louise Chambon
- Université Grenoble-Alpes, CNRS, CEA, INRA, IRIG-LPCV, F-38000 Grenoble, France
| | - Robert Blanvillain
- Université Grenoble-Alpes, CNRS, CEA, INRA, IRIG-LPCV, F-38000 Grenoble, France
| | - Thomas Pfannschmidt
- Gottfried-Wilhelm-Leibniz-Universität Hannover, Naturwissenschaftliche Fakultät, Institut für Botanik, Pflanzenphysiologie, Herrenhäuser Str. 2, D-30419 Hannover, Germany
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12
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Liang Z, Yeung WT, Ma J, Mai KKK, Liu Z, Chong YLF, Cai X, Kang BH. Electron tomography of prolamellar bodies and their transformation into grana thylakoids in cryofixed Arabidopsis cotyledons. THE PLANT CELL 2022; 34:3830-3843. [PMID: 35876816 PMCID: PMC9516191 DOI: 10.1093/plcell/koac205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2021] [Accepted: 07/05/2022] [Indexed: 06/15/2023]
Abstract
The para-crystalline structures of prolamellar bodies (PLBs) and light-induced etioplast-to-chloroplast transformation have been investigated via electron microscopy. However, such studies suffer from chemical fixation artifacts and limited volumes of 3D reconstruction. Here, we examined Arabidopsis thaliana cotyledon cells by electron tomography (ET) to visualize etioplasts and their conversion into chloroplasts. We employed scanning transmission ET to image large volumes and high-pressure freezing to improve sample preservation. PLB tubules were arranged in a zinc blende-type lattice-like carbon atoms in diamonds. Within 2 h after illumination, the lattice collapsed from the PLB exterior and the disorganized tubules merged to form thylakoid sheets (pre-granal thylakoids), which folded and overlapped with each other to create grana stacks. Since the nascent pre-granal thylakoids contained curved membranes in their tips, we examined the expression and localization of CURT1 (CURVATURE THYLAKOID1) proteins. CURT1A transcripts were most abundant in de-etiolating cotyledon samples, and CURT1A was concentrated at the PLB periphery. In curt1a etioplasts, PLB-associated thylakoids were swollen and failed to form grana stacks. In contrast, PLBs had cracks in their lattices in curt1c etioplasts. Our data provide evidence that CURT1A is required for pre-granal thylakoid assembly from PLB tubules during de-etiolation, while CURT1C contributes to cubic crystal growth in the dark.
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Affiliation(s)
| | - Wai-Tsun Yeung
- Centre for Cell and Developmental Biology, State Key Laboratory for Agrobiotechnology, School of Life Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China
| | - Juncai Ma
- Centre for Cell and Developmental Biology, State Key Laboratory for Agrobiotechnology, School of Life Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China
| | - Keith Ka Ki Mai
- Centre for Cell and Developmental Biology, State Key Laboratory for Agrobiotechnology, School of Life Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China
| | - Zhongyuan Liu
- Centre for Cell and Developmental Biology, State Key Laboratory for Agrobiotechnology, School of Life Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China
| | - Yau-Lun Felix Chong
- Department of Physics, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, China
| | - Xiaohao Cai
- School of Electronics and Computer Science, The University of Southampton, Southampton, UK
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13
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Pfister B, Shields JM, Kockmann T, Grossmann J, Abt MR, Stadler M, Zeeman SC. Tuning heterologous glucan biosynthesis in yeast to understand and exploit plant starch diversity. BMC Biol 2022; 20:207. [PMID: 36153520 PMCID: PMC9509603 DOI: 10.1186/s12915-022-01408-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Accepted: 09/13/2022] [Indexed: 11/30/2022] Open
Abstract
Background Starch, a vital plant-derived polysaccharide comprised of branched glucans, is essential in nutrition and many industrial applications. Starch is often modified post-extraction to alter its structure and enhance its functionality. Targeted metabolic engineering of crops to produce valuable and versatile starches requires knowledge of the relationships between starch biosynthesis, structure, and properties, but systematic studies to obtain this knowledge are difficult to conduct in plants. Here we used Saccharomyces cerevisiae as a testbed to dissect the functions of plant starch biosynthetic enzymes and create diverse starch-like polymers. Results We explored yeast promoters and terminators to tune the expression levels of the starch-biosynthesis machinery from Arabidopsis thaliana. We systematically modulated the expression of each starch synthase (SS) together with a branching enzyme (BE) in yeast. Protein quantification by parallel reaction monitoring (targeted proteomics) revealed unexpected effects of glucan biosynthesis on protein abundances but showed that the anticipated broad range of SS/BE enzyme ratios was maintained during the biosynthetic process. The different SS/BE ratios clearly influenced glucan structure and solubility: The higher the SS/BE ratio, the longer the glucan chains and the more glucans were partitioned into the insoluble fraction. This effect was irrespective of the SS isoform, demonstrating that the elongation/branching ratio controls glucan properties separate from enzyme specificity. Conclusions Our results provide a quantitative framework for the in silico design of improved starch biosynthetic processes in plants. Our study also exemplifies a workflow for the rational tuning of a complex pathway in yeast, starting from the selection and evaluation of expression modules to multi-gene assembly and targeted protein monitoring during the biosynthetic process. Supplementary Information The online version contains supplementary material available at 10.1186/s12915-022-01408-x.
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14
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Recent progress on mechanisms that allocate cellular space to plastids. FUNDAMENTAL RESEARCH 2022. [DOI: 10.1016/j.fmre.2022.09.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
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15
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The Eucalyptus grandis chloroplast proteome: Seasonal variations in leaf development. PLoS One 2022; 17:e0265134. [PMID: 36048873 PMCID: PMC9436043 DOI: 10.1371/journal.pone.0265134] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Accepted: 08/18/2022] [Indexed: 11/26/2022] Open
Abstract
Chloroplast metabolism is very sensitive to environmental fluctuations and is intimately related to plant leaf development. Characterization of the chloroplast proteome dynamics can contribute to a better understanding on plant adaptation to different climate scenarios and leaf development processes. Herein, we carried out a discovery-driven analysis of the Eucalyptus grandis chloroplast proteome during leaf maturation and throughout different seasons of the year. The chloroplast proteome from young leaves differed the most from all assessed samples. Most upregulated proteins identified in mature and young leaves were those related to catabolic-redox signaling and biogenesis processes, respectively. Seasonal dynamics revealed unique proteome features in the fall and spring periods. The most abundant chloroplast protein in humid (wet) seasons (spring and summer) was a small subunit of RuBisCO, while in the dry periods (fall and winter) the proteins that showed the most pronounced accumulation were associated with photo-oxidative damage, Calvin cycle, shikimate pathway, and detoxification. Our investigation of the chloroplast proteome dynamics during leaf development revealed significant alterations in relation to the maturation event. Our findings also suggest that transition seasons induced the most pronounced chloroplast proteome changes over the year. This study contributes to a more comprehensive understanding on the subcellular mechanisms that lead to plant leaf adaptation and ultimately gives more insights into Eucalyptus grandis phenology.
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16
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Wang X, Li Q, Zhang Y, Pan M, Wang R, Sun Y, An L, Liu X, Yu F, Qi Y. VAR2/AtFtsH2 and EVR2/BCM1/CBD1 synergistically regulate the accumulation of PSII reaction centre D1 protein during de-etiolation in Arabidopsis. PLANT, CELL & ENVIRONMENT 2022; 45:2395-2409. [PMID: 35610189 DOI: 10.1111/pce.14368] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2021] [Revised: 04/26/2022] [Accepted: 04/29/2022] [Indexed: 06/15/2023]
Abstract
Thylakoid FtsH complex participates in PSII repair cycle during high light-induced photoinhibition. The Arabidopsis yellow variegated2 (var2) mutants are defective in the VAR2/AtFtsH2 subunit of thylakoid FtsH complex. Taking advantage of the var2 leaf variegation phenotype, dissections of genetic enhancer loci have yielded novel paradigms in understanding functions of thylakoid FtsH complex. Here, we report the isolation of a new var2 enhancer, enhancer of variegation2-1 (evr2-1). We confirmed that EVR2 encodes a chloroplast protein that was known as BALANCE OF CHLOROPHYLL METABOLISM 1 (BCM1), or CHLOROPHYLL BIOSYNTHETIC DEFECT 1 (CBD1). We showed that EVR2/BCM1/CBD1 was involved in the oligomerization of photosystem I complexes. Genetic assays indicated that general defects in chlorophyll biosynthesis and the accumulation of photosynthetic complexes do not necessarily enhance var2 leaf variegation. In addition, we found that VAR2/AtFtsH2 is required for the accumulation of photosynthetic proteins during de-etiolation. Moreover, we identified PSII core proteins D1 and PsbC as potential EVR2-associated proteins using Co-IP/MS. Furthermore, the accumulation of D1 protein was greatly compromised in the var2-5 evr2-1 double mutant during de-etiolation. Together, our findings reveal a functional link between VAR2/AtFtsH2 and EVR2/BCM1/CBD1 in regulating chloroplast development and the accumulation of PSII reaction centre D1 protein during de-etiolation.
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Affiliation(s)
- Xiaomin Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Qinglong Li
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Yalin Zhang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Mi Pan
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Ruijuan Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Yifan Sun
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Lijun An
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Xiayan Liu
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Fei Yu
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
| | - Yafei Qi
- State Key Laboratory of Crop Stress Biology for Arid Areas and College of Life Sciences, Northwest A&F University, Yangling, Shaanxi, P.R. China
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17
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Luo X, Bittremieux W, Griss J, Deutsch EW, Sachsenberg T, Levitsky LI, Ivanov MV, Bubis JA, Gabriels R, Webel H, Sanchez A, Bai M, Käll L, Perez-Riverol Y. A Comprehensive Evaluation of Consensus Spectrum Generation Methods in Proteomics. J Proteome Res 2022; 21:1566-1574. [PMID: 35549218 PMCID: PMC9171829 DOI: 10.1021/acs.jproteome.2c00069] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
Spectrum clustering
is a powerful strategy to minimize redundant
mass spectra by grouping them based on similarity, with the aim of
forming groups of mass spectra from the same repeatedly measured analytes.
Each such group of near-identical spectra can be represented by its
so-called consensus spectrum for downstream processing. Although several
algorithms for spectrum clustering have been adequately benchmarked
and tested, the influence of the consensus spectrum generation step
is rarely evaluated. Here, we present an implementation and benchmark
of common consensus spectrum algorithms, including spectrum averaging,
spectrum binning, the most similar spectrum, and the best-identified
spectrum. We have analyzed diverse public data sets using two different
clustering algorithms (spectra-cluster and MaRaCluster) to evaluate
how the consensus spectrum generation procedure influences downstream
peptide identification. The BEST and BIN methods were found the most
reliable methods for consensus spectrum generation, including for
data sets with post-translational modifications (PTM) such as phosphorylation.
All source code and data of the present study are freely available
on GitHub at https://github.com/statisticalbiotechnology/representative-spectra-benchmark.
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Affiliation(s)
- Xiyang Luo
- Chongqing Key Laboratory of Big Data for Bio Intelligence, Chongqing University of Posts and Telecommunications, 400065 Chongqing, China
| | - Wout Bittremieux
- Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California 92093, United States
| | - Johannes Griss
- European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, U.K.,Department of Dermatology, Medical University of Vienna, 1090 Vienna, Austria
| | - Eric W Deutsch
- Institute for Systems Biology (ISB), Seattle, Washington 98109, United States
| | - Timo Sachsenberg
- Applied Bioinformatics, Department for Computer Science, University of Tuebingen, Sand 14, 72076 Tuebingen, Germany
| | - Lev I Levitsky
- V.L. Talrose Institute for Energy Problems of Chemical Physics, N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Moscow 142432, Russia
| | - Mark V Ivanov
- V.L. Talrose Institute for Energy Problems of Chemical Physics, N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Moscow 142432, Russia
| | - Julia A Bubis
- V.L. Talrose Institute for Energy Problems of Chemical Physics, N.N. Semenov Federal Research Center for Chemical Physics, Russian Academy of Sciences, Moscow 142432, Russia
| | - Ralf Gabriels
- VIB-UGent Center for Medical Biotechnology, B-9052 Ghent, Belgium.,Department of Biomolecular Medicine, Ghent University, B-9000 Ghent, Belgium
| | - Henry Webel
- Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen DK-2200, Denmark
| | - Aniel Sanchez
- Section for Clinical Chemistry, Department of Translational Medicine, Lund University, Skåne University Hospital Malmö, 20502 Malmö, Sweden
| | - Mingze Bai
- Chongqing Key Laboratory of Big Data for Bio Intelligence, Chongqing University of Posts and Telecommunications, 400065 Chongqing, China
| | - Lukas Käll
- Science for Life Laboratory, School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology - KTH, Box 1031, 17121 Solna, Sweden
| | - Yasset Perez-Riverol
- European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, U.K
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18
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Cackett L, Luginbuehl LH, Schreier TB, Lopez-Juez E, Hibberd JM. Chloroplast development in green plant tissues: the interplay between light, hormone, and transcriptional regulation. THE NEW PHYTOLOGIST 2022; 233:2000-2016. [PMID: 34729790 DOI: 10.1111/nph.17839] [Citation(s) in RCA: 45] [Impact Index Per Article: 22.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Accepted: 10/09/2021] [Indexed: 05/20/2023]
Abstract
Chloroplasts are best known for their role in photosynthesis, but they also allow nitrogen and sulphur assimilation, amino acid, fatty acid, nucleotide and hormone synthesis. How chloroplasts develop is therefore relevant to these diverse and fundamental biological processes, but also to attempts at their rational redesign. Light is strictly required for chloroplast formation in all angiosperms and directly regulates the expression of hundreds of chloroplast-related genes. Light also modulates the levels of several hormones including brassinosteriods, cytokinins, auxins and gibberellins, which themselves control chloroplast development particularly during early stages of plant development. Transcription factors such as GOLDENLIKE1&2 (GLK1&2), GATA NITRATE-INDUCIBLE CARBON METABOLISM-INVOLVED (GNC) and CYTOKININ-RESPONSIVE GATA FACTOR 1 (CGA1) act downstream of both light and phytohormone signalling to regulate chloroplast development. Thus, in green tissues transcription factors, light signalling and hormone signalling form a complex network regulating the transcription of chloroplast- and photosynthesis-related genes to control the development and number of chloroplasts per cell. We use this conceptual framework to identify points of regulation that could be harnessed to modulate chloroplast abundance and increase photosynthetic efficiency of crops, and to highlight future avenues to overcome gaps in current knowledge.
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Affiliation(s)
- Lee Cackett
- Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, UK
| | - Leonie H Luginbuehl
- Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, UK
| | - Tina B Schreier
- Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, UK
| | - Enrique Lopez-Juez
- Department of Biological Sciences, Royal Holloway University of London, Egham, TW20 0EX, UK
| | - Julian M Hibberd
- Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge, CB2 3EA, UK
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19
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Jedynak P, Trzebuniak KF, Chowaniec M, Zgłobicki P, Banaś AK, Mysliwa-Kurdziel B. Dynamics of Etiolation Monitored by Seedling Morphology, Carotenoid Composition, Antioxidant Level, and Photoactivity of Protochlorophyllide in Arabidopsis thaliana. FRONTIERS IN PLANT SCIENCE 2022; 12:772727. [PMID: 35265091 PMCID: PMC8900029 DOI: 10.3389/fpls.2021.772727] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Accepted: 12/28/2021] [Indexed: 06/14/2023]
Abstract
Although etiolated Arabidopsis thaliana seedlings are widely used as a model to study the de-etiolation process, the etiolation itself at the molecular level still needs elucidation. Here, we monitored the etiolation dynamics for wild type A. thaliana seedlings and lutein-deficient (lut2) mutant between 2 and 12 days of their growth in the absence of light. We analyzed the shape of the apex, the growth rate, the carotenoids and protochlorophyllide (Pchlide) accumulation, and the light-dependent protochlorophyllide oxidoreductase (LPOR) transcripts. Differences concerning the apical hook curvature and cotyledon opening among seedlings of the same age were observed, mostly after day 6 of the culture. We categorized the observed apex shapes and presented quantitatively how distribution among the categories changed during 12 days of seedling growth. The Pchlide654/Pchlide633 ratio, corresponding to the amount of the photoactive Pchlide, was the highest in the youngest seedlings, and decreased with their age. LPORA, LPORB, and LPORC transcripts were detected in etiolated seedlings, and their content decreased during seedling growth. Expression of SAG12 or SAG13 senescence markers, depletion in antioxidants, and excess ion leakage were not observed during the etiolation. Lack of lutein in the lut2 mutant resulted in slow Pchlide accumulation and affected other xanthophyll composition.
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Affiliation(s)
- Pawel Jedynak
- Department of Plant Physiology and Biochemistry, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Kamil Filip Trzebuniak
- Department of Plant Physiology and Biochemistry, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Magdalena Chowaniec
- Department of Plant Physiology and Biochemistry, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Piotr Zgłobicki
- Department of Plant Biotechnology, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Agnieszka Katarzyna Banaś
- Department of Plant Biotechnology, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Beata Mysliwa-Kurdziel
- Department of Plant Physiology and Biochemistry, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Kraków, Poland
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20
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Weiner E, Pinskey JM, Nicastro D, Otegui MS. Electron microscopy for imaging organelles in plants and algae. PLANT PHYSIOLOGY 2022; 188:713-725. [PMID: 35235662 PMCID: PMC8825266 DOI: 10.1093/plphys/kiab449] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2021] [Accepted: 08/23/2021] [Indexed: 05/31/2023]
Abstract
Recent developments in both instrumentation and image analysis algorithms have allowed three-dimensional electron microscopy (3D-EM) to increase automated image collections through large tissue volumes using serial block-face scanning EM (SEM) and to achieve near-atomic resolution of macromolecular complexes using cryo-electron tomography (cryo-ET) and sub-tomogram averaging. In this review, we discuss applications of cryo-ET to cell biology research on plant and algal systems and the special opportunities they offer for understanding the organization of eukaryotic organelles with unprecedently resolution. However, one of the most challenging aspects for cryo-ET is sample preparation, especially for multicellular organisms. We also discuss correlative light and electron microscopy (CLEM) approaches that have been developed for ET at both room and cryogenic temperatures.
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Affiliation(s)
- Ethan Weiner
- Department of Botany, University of Wisconsin, Madison 53706, Wisconsin
- Center for Quantitative Cell Imaging, University of Wisconsin, Madison 53706, Wisconsin
| | - Justine M Pinskey
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas 75390, Texas
| | - Daniela Nicastro
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas 75390, Texas
| | - Marisa S Otegui
- Department of Botany, University of Wisconsin, Madison 53706, Wisconsin
- Center for Quantitative Cell Imaging, University of Wisconsin, Madison 53706, Wisconsin
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21
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Sun T, Rao S, Zhou X, Li L. Plant carotenoids: recent advances and future perspectives. MOLECULAR HORTICULTURE 2022; 2:3. [PMID: 37789426 PMCID: PMC10515021 DOI: 10.1186/s43897-022-00023-2] [Citation(s) in RCA: 71] [Impact Index Per Article: 35.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2021] [Accepted: 01/03/2022] [Indexed: 10/05/2023]
Abstract
Carotenoids are isoprenoid metabolites synthesized de novo in all photosynthetic organisms. Carotenoids are essential for plants with diverse functions in photosynthesis, photoprotection, pigmentation, phytohormone synthesis, and signaling. They are also critically important for humans as precursors of vitamin A synthesis and as dietary antioxidants. The vital roles of carotenoids to plants and humans have prompted significant progress toward our understanding of carotenoid metabolism and regulation. New regulators and novel roles of carotenoid metabolites are continuously revealed. This review focuses on current status of carotenoid metabolism and highlights recent advances in comprehension of the intrinsic and multi-dimensional regulation of carotenoid accumulation. We also discuss the functional evolution of carotenoids, the agricultural and horticultural application, and some key areas for future research.
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Affiliation(s)
- Tianhu Sun
- Robert W. Holley Center for Agriculture and Health, USDA-Agricultural Research Service, Cornell University, Ithaca, NY, 14853, USA
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - Sombir Rao
- Robert W. Holley Center for Agriculture and Health, USDA-Agricultural Research Service, Cornell University, Ithaca, NY, 14853, USA
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA
| | - Xuesong Zhou
- Robert W. Holley Center for Agriculture and Health, USDA-Agricultural Research Service, Cornell University, Ithaca, NY, 14853, USA
- State Key Laboratory of Crop Genetics & Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, China
| | - Li Li
- Robert W. Holley Center for Agriculture and Health, USDA-Agricultural Research Service, Cornell University, Ithaca, NY, 14853, USA.
- Plant Breeding and Genetics Section, School of Integrative Plant Science, Cornell University, Ithaca, NY, 14853, USA.
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22
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Hain TM, Bykowski M, Saba M, Evans ME, Schröder-Turk GE, Kowalewska Ł. SPIRE-a software tool for bicontinuous phase recognition: application for plastid cubic membranes. PLANT PHYSIOLOGY 2022; 188:81-96. [PMID: 34662407 PMCID: PMC8774748 DOI: 10.1093/plphys/kiab476] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/27/2021] [Accepted: 09/17/2021] [Indexed: 06/13/2023]
Abstract
Bicontinuous membranes in cell organelles epitomize nature's ability to create complex functional nanostructures. Like their synthetic counterparts, these membranes are characterized by continuous membrane sheets draped onto topologically complex saddle-shaped surfaces with a periodic network-like structure. Their structure sizes, (around 50-500 nm), and fluid nature make transmission electron microscopy (TEM) the analysis method of choice to decipher their nanostructural features. Here we present a tool, Surface Projection Image Recognition Environment (SPIRE), to identify bicontinuous structures from TEM sections through interactive identification by comparison to mathematical "nodal surface" models. The prolamellar body (PLB) of plant etioplasts is a bicontinuous membrane structure with a key physiological role in chloroplast biogenesis. However, the determination of its spatial structural features has been held back by the lack of tools enabling the identification and quantitative analysis of symmetric membrane conformations. Using our SPIRE tool, we achieved a robust identification of the bicontinuous diamond surface as the dominant PLB geometry in angiosperm etioplasts in contrast to earlier long-standing assertions in the literature. Our data also provide insights into membrane storage capacities of PLBs with different volume proportions and hint at the limited role of a plastid ribosome localization directly inside the PLB grid for its proper functioning. This represents an important step in understanding their as yet elusive structure-function relationship.
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Affiliation(s)
- Tobias M Hain
- Institute of Mathematics, University of Potsdam, Potsdam D-14476, Germany
- College of Science, Health, Engineering and Education, Mathematics and Statistics, Murdoch University, Murdoch WA 6150, Australia
- Physical Chemistry, Center for Chemistry and Chemical Engineering, Lund University, Lund 22100, Sweden
| | - Michał Bykowski
- Department of Plant Anatomy and Cytology, Faculty of Biology, Institute of Experimental Plant Biology and Biotechnology, University of Warsaw, Warsaw, Poland
| | - Matthias Saba
- Adolphe Merkle Institute, University of Fribourg, Fribourg CH-1700, Switzerland
| | - Myfanwy E Evans
- Institute of Mathematics, University of Potsdam, Potsdam D-14476, Germany
| | - Gerd E Schröder-Turk
- College of Science, Health, Engineering and Education, Mathematics and Statistics, Murdoch University, Murdoch WA 6150, Australia
- Department of Applied Mathematics, The Australian National University, Research School of Physics, Canberra 2601, Australia
| | - Łucja Kowalewska
- Department of Plant Anatomy and Cytology, Faculty of Biology, Institute of Experimental Plant Biology and Biotechnology, University of Warsaw, Warsaw, Poland
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23
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Mazur R, Mostowska A, Kowalewska Ł. How to Measure Grana - Ultrastructural Features of Thylakoid Membranes of Plant Chloroplasts. FRONTIERS IN PLANT SCIENCE 2021; 12:756009. [PMID: 34691132 PMCID: PMC8527009 DOI: 10.3389/fpls.2021.756009] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2021] [Accepted: 09/09/2021] [Indexed: 06/11/2023]
Abstract
Granum is a basic structural unit of the thylakoid membrane network of plant chloroplasts. It is composed of multiple flattened membranes forming a stacked arrangement of a cylindrical shape. Grana membranes are composed of lipids and tightly packed pigment-protein complexes whose primary role is the catalysis of photosynthetic light reactions. These membranes are highly dynamic structures capable of adapting to changing environmental conditions by fine-tuning photochemical efficiency, manifested by the structural reorganization of grana stacks. Due to a nanometer length scale of the structural granum features, the application of high-resolution electron microscopic techniques is essential for a detailed analysis of the granum architecture. This mini-review overviews recent approaches to quantitative grana structure analyses from electron microscopy data, highlighting the basic manual measurements and semi-automated workflows. We outline and define structural parameters used by different authors, for instance, granum height and diameter, thylakoid thickness, end-membrane length, Stacking Repeat Distance, and Granum Lateral Irregularity. This article also presents insights into efficient and effective measurements of grana stacks visualized on 2D micrographs. The information on how to correctly interpret obtained data, taking into account the 3D nature of grana stacks projected onto 2D space of electron micrograph, is also given. Grana ultrastructural observations reveal key features of this intriguing membrane arrangement, broadening our knowledge of the thylakoid network's remarkable plasticity.
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Affiliation(s)
- Radosław Mazur
- Department of Metabolic Regulation, Institute of Biochemistry, Faculty of Biology, University of Warsaw, Warsaw, Poland
| | - Agnieszka Mostowska
- Department of Plant Anatomy and Cytology, Institute of Plant Experimental Biology and Biotechnology, Faculty of Biology, University of Warsaw, Warsaw, Poland
| | - Łucja Kowalewska
- Department of Plant Anatomy and Cytology, Institute of Plant Experimental Biology and Biotechnology, Faculty of Biology, University of Warsaw, Warsaw, Poland
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Woodson JD. All in the timing: epigenetic control of greening. THE NEW PHYTOLOGIST 2021; 231:907-909. [PMID: 34125971 DOI: 10.1111/nph.17454] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Affiliation(s)
- Jesse D Woodson
- The School of Plant Sciences, University of Arizona, Tucson, AZ, 85721-0036, USA
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Choi H, Yi T, Ha SH. Diversity of Plastid Types and Their Interconversions. FRONTIERS IN PLANT SCIENCE 2021; 12:692024. [PMID: 34220916 PMCID: PMC8248682 DOI: 10.3389/fpls.2021.692024] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Accepted: 05/24/2021] [Indexed: 05/03/2023]
Abstract
Plastids are pivotal subcellular organelles that have evolved to perform specialized functions in plant cells, including photosynthesis and the production and storage of metabolites. They come in a variety of forms with different characteristics, enabling them to function in a diverse array of organ/tissue/cell-specific developmental processes and with a variety of environmental signals. Here, we have comprehensively reviewed the distinctive roles of plastids and their transition statuses, according to their features. Furthermore, the most recent understanding of their regulatory mechanisms is highlighted at both transcriptional and post-translational levels, with a focus on the greening and non-greening phenotypes.
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Affiliation(s)
| | | | - Sun-Hwa Ha
- Department of Genetics and Biotechnology, Graduate School of Biotechnology, College of Life Sciences, Kyung Hee University, Yongin, South Korea
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Loudya N, Mishra P, Takahagi K, Uehara-Yamaguchi Y, Inoue K, Bogre L, Mochida K, López-Juez E. Cellular and transcriptomic analyses reveal two-staged chloroplast biogenesis underpinning photosynthesis build-up in the wheat leaf. Genome Biol 2021; 22:151. [PMID: 33975629 PMCID: PMC8111775 DOI: 10.1186/s13059-021-02366-3] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2020] [Accepted: 04/26/2021] [Indexed: 11/16/2022] Open
Abstract
BACKGROUND The developmental gradient in monocot leaves has been exploited to uncover leaf developmental gene expression programs and chloroplast biogenesis processes. However, the relationship between the two is barely understood, which limits the value of transcriptome data to understand the process of chloroplast development. RESULTS Taking advantage of the developmental gradient in the bread wheat leaf, we provide a simultaneous quantitative analysis for the development of mesophyll cells and of chloroplasts as a cellular compartment. This allows us to generate the first biologically-informed gene expression map of this leaf, with the entire developmental gradient from meristematic to fully differentiated cells captured. We show that the first phase of plastid development begins with organelle proliferation, which extends well beyond cell proliferation, and continues with the establishment and then the build-up of the plastid genetic machinery. The second phase is marked by the development of photosynthetic chloroplasts which occupy the available cellular space. Using a network reconstruction algorithm, we predict that known chloroplast gene expression regulators are differentially involved across those developmental stages. CONCLUSIONS Our analysis generates both the first wheat leaf transcriptional map and one of the most comprehensive descriptions to date of the developmental history of chloroplasts in higher plants. It reveals functionally distinct plastid and chloroplast development stages, identifies processes occurring in each of them, and highlights our very limited knowledge of the earliest drivers of plastid biogenesis, while providing a basis for their future identification.
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Affiliation(s)
- Naresh Loudya
- Department of Biological Sciences, Royal Holloway University of London, Egham, UK
| | - Priyanka Mishra
- Department of Biological Sciences, Royal Holloway University of London, Egham, UK
| | - Kotaro Takahagi
- RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Japan
| | | | - Komaki Inoue
- RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Japan
| | - Laszlo Bogre
- Department of Biological Sciences, Royal Holloway University of London, Egham, UK
| | - Keiichi Mochida
- RIKEN Center for Sustainable Resource Science, Tsurumi-ku, Yokohama, Japan.
- Kihara Institute for Biological Research, Yokohama City University, Totsuka-ku, Yokohama, Japan.
- RIKEN Baton Zone Program, Tsurumi-ku, Yokohama, Japan.
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Japan.
| | - Enrique López-Juez
- Department of Biological Sciences, Royal Holloway University of London, Egham, UK.
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