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Shen X, Sun M, Nie B, Li X. Physiological adaptation of Cyperus esculentus L. seedlings to varying concentrations of saline-alkaline stress: Insights from photosynthetic performance. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2024; 214:108911. [PMID: 38976943 DOI: 10.1016/j.plaphy.2024.108911] [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: 04/23/2024] [Revised: 06/30/2024] [Accepted: 07/03/2024] [Indexed: 07/10/2024]
Abstract
Soil salinization effects plant photosynthesis in a number of global ecosystems. In this study, photosynthetic and physiological parameters were used to elucidate the impacts of saline-alkaline stress on Cyperus esculentus L. (C. esculentus) seedling photosynthesis. The results demonstrate that salt stress, alkali stress and mixed salt and alkali stress treatments all have similar bell-shaped influences on photosynthesis. At low concentrations (0-100 mmol L-1), saline-alkaline stress promoted net photosynthetic rate, transpiration rate and water use efficiency in C. esculentus. However, as the treatments increased in intensity (100-200 mmol L-1), plant photosynthetic parameters began to decline. We interpreted this as the capacity of C. esculentus to improve osmoregulatory capacity in low saline-alkaline stress treatments by accumulating photosynthetic pigment, proline and malondialdehyde to counterbalance the induced stress - an adaptive mechanism that failed once concentrations reached a critical threshold (100 mmol L-1). Stomatal conductance, maximum photosynthetic rate and actual photosynthetic rate all decreased with increasing concentration of the stress treatments, and intercellular carbon dioxide showed a decreasing and then increasing trend. These results indicated that when the saline-alkaline stress concentrations were low, C. esculentus seedlings showed obvious adaptive ability, but when the concentration increased further, the physiological processes of C. esculentus seedlings were significantly affected, with an obvious decrease in photosynthetic efficiency. This study provides a new understanding of the photosynthetic adaptation strategies of C. esculentus seedlings to varying concentrations of saline-alkaline stress.
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Affiliation(s)
- Xin Shen
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 83001, China; Xinjiang Key Laboratory of Desert Plant Roots Ecology and Vegetation Restoration, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, China; Cele National Station of Observation and Research for Desert-Grassland Ecosystems, Cele, 848300, Xinjiang, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Mengxin Sun
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 83001, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Bixia Nie
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 83001, China; Xinjiang Key Laboratory of Desert Plant Roots Ecology and Vegetation Restoration, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, China; Cele National Station of Observation and Research for Desert-Grassland Ecosystems, Cele, 848300, Xinjiang, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Xiangyi Li
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 83001, China; Xinjiang Key Laboratory of Desert Plant Roots Ecology and Vegetation Restoration, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, 830011, China; Cele National Station of Observation and Research for Desert-Grassland Ecosystems, Cele, 848300, Xinjiang, China; University of Chinese Academy of Sciences, Beijing, 100049, China.
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Sun G, Zhang C, Shan X, Zhang Z, Wang W, Lu W, Dai Z, E L, Wang Y, Ma Z, Hou X. Conjunctive BSA-Seq and BSR-Seq to Map the Genes of Yellow Leaf Mutations in Hot Peppers ( Capsicum annuum L.). Genes (Basel) 2024; 15:1115. [PMID: 39336705 PMCID: PMC11430990 DOI: 10.3390/genes15091115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2024] [Revised: 08/17/2024] [Accepted: 08/22/2024] [Indexed: 09/30/2024] Open
Abstract
Yellow leaf mutations have been widely used to study the chloroplast structures, the pigment synthesis, the photosynthesis mechanisms and the chlorophyll biosynthesis pathways across various species. For this study, a spontaneous mutant with the yellow leaf color named 96-140YBM was employed to explore the primary genetic elements that lead to the variations in the leaf color of hot peppers. To identify the pathways and genes associated with yellow leaf phenotypes, we applied sequencing-based Bulked Segregant Analysis (BSA-Seq) combined with BSR-Seq. We identified 4167 differentially expressed genes (DEGs) in the mutant pool compared with the wild-type pool. The results indicated that DEGs were involved in zeatin biosynthesis, plant hormone signal transduction, signal transduction mechanisms, post-translational modification and protein turnover. A total of 437 candidates were identified by the BSA-Seq, while the BSR-Seq pinpointed four candidate regions in chromosomes 8 and 9, containing 222 candidate genes. Additionally, the combination of BSA-Seq and BSR-Seq showed that there were 113 overlapping candidate genes between the two methods, among which 8 common candidates have been previously reported to be related to the development of chloroplasts, the photomorphogenesis and chlorophyll formation of plant chloroplasts and chlorophyll biogenesis. qRT-PCR analysis of the 8 common candidates showed higher expression levels in the mutant pool compared with the wild-type pool. Among the overlapping candidates, the DEG analysis showed that the CaKAS2 and CaMPH2 genes were down-regulated in the mutant pool compared to the wild type, suggesting that these genes may be key contributors to the yellow leaf phenotype of 96-140YBM. This research will deepen our understanding of the genetic basis of leaf color formation and provide valuable information for the breeding of hot peppers with diverse leaf colors.
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Affiliation(s)
- Guosheng Sun
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China; (G.S.); (C.Z.); (W.W.); (L.E.); (Y.W.)
- Zhenjiang Institute of Agricultural Sciences in Hilly Area of Jiangsu Province, 1# Hongjing Road, Jurong 212400, China; (X.S.); (Z.Z.); (W.L.); (Z.D.)
| | - Changwei Zhang
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China; (G.S.); (C.Z.); (W.W.); (L.E.); (Y.W.)
| | - Xi Shan
- Zhenjiang Institute of Agricultural Sciences in Hilly Area of Jiangsu Province, 1# Hongjing Road, Jurong 212400, China; (X.S.); (Z.Z.); (W.L.); (Z.D.)
| | - Zhenchao Zhang
- Zhenjiang Institute of Agricultural Sciences in Hilly Area of Jiangsu Province, 1# Hongjing Road, Jurong 212400, China; (X.S.); (Z.Z.); (W.L.); (Z.D.)
| | - Wenlong Wang
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China; (G.S.); (C.Z.); (W.W.); (L.E.); (Y.W.)
| | - Wenjun Lu
- Zhenjiang Institute of Agricultural Sciences in Hilly Area of Jiangsu Province, 1# Hongjing Road, Jurong 212400, China; (X.S.); (Z.Z.); (W.L.); (Z.D.)
| | - Zhongliang Dai
- Zhenjiang Institute of Agricultural Sciences in Hilly Area of Jiangsu Province, 1# Hongjing Road, Jurong 212400, China; (X.S.); (Z.Z.); (W.L.); (Z.D.)
| | - Liu E
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China; (G.S.); (C.Z.); (W.W.); (L.E.); (Y.W.)
| | - Yaolong Wang
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China; (G.S.); (C.Z.); (W.W.); (L.E.); (Y.W.)
| | - Zhihu Ma
- Zhenjiang Institute of Agricultural Sciences in Hilly Area of Jiangsu Province, 1# Hongjing Road, Jurong 212400, China; (X.S.); (Z.Z.); (W.L.); (Z.D.)
| | - Xilin Hou
- State Key Laboratory of Crop Genetics & Germplasm Enhancement and Utilization, Nanjing Agricultural University, Nanjing 210095, China; (G.S.); (C.Z.); (W.W.); (L.E.); (Y.W.)
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Otake M, Teranishi M, Komatsu C, Hara M, Yoshiyama KO, Hidema J. Poaceae plants transfer cyclobutane pyrimidine dimer photolyase to chloroplasts for ultraviolet-B resistance. PLANT PHYSIOLOGY 2024; 195:326-342. [PMID: 38345835 PMCID: PMC11060685 DOI: 10.1093/plphys/kiae060] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Accepted: 01/07/2024] [Indexed: 05/02/2024]
Abstract
Photoreactivation enzyme that repairs cyclobutane pyrimidine dimer (CPD) induced by ultraviolet-B radiation, commonly called CPD photolyase (PHR) is essential for plants living under sunlight. Rice (Oryza sativa) PHR (OsPHR) is a unique triple-targeting protein. The signal sequences required for its translocation to the nucleus or mitochondria are located in the C-terminal region but have yet to be identified for chloroplasts. Here, we identified sequences located in the N-terminal region, including the serine-phosphorylation site at position 7 of OsPHR, and found that OsPHR is transported/localized to chloroplasts via a vesicle transport system under the control of serine-phosphorylation. However, the sequence identified in this study is only conserved in some Poaceae species, and in many other plants, PHR is not localized to the chloroplasts. Therefore, we reasoned that Poaceae species need the ability to repair CPD in the chloroplast genome to survive under sunlight and have uniquely acquired this mechanism for PHR chloroplast translocation.
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Affiliation(s)
- Momo Otake
- Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan
| | - Mika Teranishi
- Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan
| | - Chiharu Komatsu
- Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan
| | - Mamoru Hara
- Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan
| | | | - Jun Hidema
- Graduate School of Life Sciences, Tohoku University, Sendai 980-8577, Japan
- Division for the Establishment of Frontier Sciences of the Organization for Advanced Studies, Tohoku University, Sendai, Miyagi 980-8577, Japan
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Bautista-Valle MV, Camacho-Vazquez C, Elizalde-Contreras JM, Monribot-Villanueva JL, Limón AMV, Bojórquez-Velázquez E, Zamora-Briseño JA, Jorrin-Novo JV, Ruiz-May E. Comparing and integrating TMT-SPS-MS3 and label-free quantitative approaches for proteomics scrutiny in recalcitrant Mango (Mangifera indica L.) peel tissue during postharvest period. Proteomics 2024; 24:e2300239. [PMID: 37681534 DOI: 10.1002/pmic.202300239] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/05/2023] [Revised: 08/14/2023] [Accepted: 08/18/2023] [Indexed: 09/09/2023]
Abstract
Despite substantial advances in the use of proteomic technologies, their widespread application in fruit tissues of non-model and recalcitrant species remains limited. This hampers the understanding of critical molecular events during the postharvest period of fleshy tropical fruits. Therefore, we evaluated label-free quantitation (LFQ) and TMT-SPS-MS3 (TMT) approaches to analyse changes in the protein profile of mango peels during postharvest period. We compared two extraction methods (phenol and chloroform/methanol) and two peptide fractionation schemes (SCX and HPRP). We accurately identified 3065 proteins, of which, 1492 were differentially accumulated over at 6 days after harvesting (DAH). Both LFQ and TMT approaches share 210 differential proteins including cell wall proteins associated with fruit softening, as well as aroma and flavour-related proteins, which were increased during postharvest period. The phenolic protein extraction and the high-pH reverse-phase peptide fractionation was the most effective pipeline for relative quantification. Nevertheless, the information provided by the other tested strategies was significantly complementary. Besides, LFQ spectra allowed us to track down intact N-glycopeptides corroborating N-glycosylations on the surface of a desiccation-related protein. This work represents the largest proteomic comparison of mango peels during postharvest period made so far, shedding light on the molecular foundation of edible fruit during ripening.
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Affiliation(s)
- Mirna V Bautista-Valle
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
| | - Carolina Camacho-Vazquez
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
| | - José M Elizalde-Contreras
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
| | - Juan Luis Monribot-Villanueva
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
| | - Abraham M Vidal Limón
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
| | - Esaú Bojórquez-Velázquez
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
| | - Jesús Alejandro Zamora-Briseño
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
| | - Jesús V Jorrin-Novo
- Department of Biochemistry and Molecular Biology, ETSIAM, University of Cordoba, Cordoba, Spain
| | - Eliel Ruiz-May
- Red de Estudios Moleculares Avanzados, Clúster Científico y Tecnológico BioMimic®, Instituto de Ecología A.C. (INECOL), Carretera Antigua a Coatepec No. 351, Xalapa, Veracruz, México
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Guo J, Yao Q, Dong J, Hou J, Jia P, Chen X, Li G, Zhao Q, Wang J, Liu F, Wang Z, Shan Y, Zhang T, Fu A, Wang F. Immunophilin FKB20-2 participates in oligomerization of Photosystem I in Chlamydomonas. PLANT PHYSIOLOGY 2024; 194:1631-1645. [PMID: 38039102 DOI: 10.1093/plphys/kiad645] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2023] [Revised: 10/26/2023] [Accepted: 11/05/2023] [Indexed: 12/03/2023]
Abstract
PSI is a sophisticated photosynthesis protein complex that fuels the light reaction of photosynthesis in algae and vascular plants. While the structure and function of PSI have been studied extensively, the dynamic regulation on PSI oligomerization and high light response is less understood. In this work, we characterized a high light-responsive immunophilin gene FKB20-2 (FK506-binding protein 20-2) required for PSI oligomerization and high light tolerance in Chlamydomonas (Chlamydomonas reinhardtii). Biochemical assays and 77-K fluorescence measurement showed that loss of FKB20-2 led to the reduced accumulation of PSI core subunits and abnormal oligomerization of PSI complexes and, particularly, reduced PSI intermediate complexes in fkb20-2. It is noteworthy that the abnormal PSI oligomerization was observed in fkb20-2 even under dark and dim light growth conditions. Coimmunoprecipitation, MS, and yeast 2-hybrid assay revealed that FKB20-2 directly interacted with the low molecular weight PSI subunit PsaG, which might be involved in the dynamic regulation of PSI-light-harvesting complex I supercomplexes. Moreover, abnormal PSI oligomerization caused accelerated photodamage to PSII in fkb20-2 under high light stress. Together, we demonstrated that immunophilin FKB20-2 affects PSI oligomerization probably by interacting with PsaG and plays pivotal roles during Chlamydomonas tolerance to high light.
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Affiliation(s)
- Jia Guo
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Qiang Yao
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Jie Dong
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Jinrong Hou
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Pulian Jia
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Xueying Chen
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Guoyang Li
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Qi Zhao
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
- Shaanxi Key Laboratory for Carbon Neutral Technology, Xi'an 710069, China
| | - Jingyi Wang
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
- Shaanxi Key Laboratory for Carbon Neutral Technology, Xi'an 710069, China
| | - Fang Liu
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Ziyu Wang
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Yuying Shan
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Tengyue Zhang
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
| | - Aigen Fu
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
- Shaanxi Key Laboratory for Carbon Neutral Technology, Xi'an 710069, China
| | - Fei Wang
- College of Life Sciences, Northwest University, Xi'an 710069, China
- Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, Northwest University, Xi'an 710069, China
- Shaanxi Key Laboratory for Carbon Neutral Technology, Xi'an 710069, China
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Song Y, Zhang H, Liu S, Chang Y, Zhang Y, Feng H, Zhang X, Sun M, Sha W, Li Y, Dai S. Na2CO3-responsive mechanism insight from quantitative proteomics and SlRUB gene function in Salix linearistipularis seedlings. TREE PHYSIOLOGY 2024; 44:tpae011. [PMID: 38263488 DOI: 10.1093/treephys/tpae011] [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: 09/08/2023] [Revised: 12/28/2023] [Accepted: 01/07/2024] [Indexed: 01/25/2024]
Abstract
Mongolian willow (Salix linearistipularis) is a naturally occurring woody dioecious plant in the saline soils of north-eastern China, which has a high tolerance to alkaline salts. Although transcriptomics studies have identified a large number of salinity-responsive genes, the mechanism of salt tolerance in Mongolian willow is not clear. Here, we found that in response to Na2CO3 stress, Mongolian willow regulates osmotic homeostasis by accumulating proline and soluble sugars and scavenges reactive oxygen species (ROS) by antioxidant enzymes and non-enzymatic antioxidants. Our quantitative proteomics study identified 154 salt-sensitive proteins mainly involved in maintaining the stability of the photosynthetic system and ROS homeostasis to cope with Na2CO3 stress. Among them, Na2CO3-induced rubredoxin (RUB) was predicted to be associated with 122 proteins for the modulation of these processes. The chloroplast-localized S. linearistipularis rubredoxin (SlRUB) was highly expressed in leaves and was significantly induced under Na2CO3 stress. Phenotypic analysis of overexpression, mutation and complementation materials of RUB in Arabidopsis suggests that SlRUB is critical for the regulation of photosynthesis, ROS scavenging and other metabolisms in the seedlings of Mongolian willow to cope with Na2CO3 stress. This provides more clues to better understand the alkali-responsive mechanism and RUB functions in the woody Mongolian willow.
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Affiliation(s)
- Yingying Song
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, No. 26 Hexing Road, Xiangfang District, Harbin 150040, China
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, No. 100 Guilin Road, Xuhui District, Shanghai 200234, China
| | - Heng Zhang
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, No. 100 Guilin Road, Xuhui District, Shanghai 200234, China
| | - Shijia Liu
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, No. 26 Hexing Road, Xiangfang District, Harbin 150040, China
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, No. 100 Guilin Road, Xuhui District, Shanghai 200234, China
| | - Yu Chang
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, No. 26 Hexing Road, Xiangfang District, Harbin 150040, China
| | - Yongxue Zhang
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, No. 100 Guilin Road, Xuhui District, Shanghai 200234, China
| | - Huiting Feng
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, No. 26 Hexing Road, Xiangfang District, Harbin 150040, China
| | - Xuebin Zhang
- State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, No. 1 Jinming Avenue, Longting District, Kaifeng 475001, China
| | - Meihong Sun
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, No. 100 Guilin Road, Xuhui District, Shanghai 200234, China
| | - Wei Sha
- College of Life Sciences and Agriculture and Forestry, Qiqihar University, No. 42 Wenhua Street, Jianhua District, Qiqihar 161006, China
| | - Ying Li
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration, Ministry of Education, College of Life Sciences, Northeast Forestry University, No. 26 Hexing Road, Xiangfang District, Harbin 150040, China
| | - Shaojun Dai
- Development Center of Plant Germplasm Resources, College of Life Sciences, Shanghai Normal University, No. 100 Guilin Road, Xuhui District, Shanghai 200234, China
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van Wijk KJ, Leppert T, Sun Z, Kearly A, Li M, Mendoza L, Guzchenko I, Debley E, Sauermann G, Routray P, Malhotra S, Nelson A, Sun Q, Deutsch EW. Detection of the Arabidopsis Proteome and Its Post-translational Modifications and the Nature of the Unobserved (Dark) Proteome in PeptideAtlas. J Proteome Res 2024; 23:185-214. [PMID: 38104260 DOI: 10.1021/acs.jproteome.3c00536] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2023]
Abstract
This study describes a new release of the Arabidopsis thaliana PeptideAtlas proteomics resource (build 2023-10) providing protein sequence coverage, matched mass spectrometry (MS) spectra, selected post-translational modifications (PTMs), and metadata. 70 million MS/MS spectra were matched to the Araport11 annotation, identifying ∼0.6 million unique peptides and 18,267 proteins at the highest confidence level and 3396 lower confidence proteins, together representing 78.6% of the predicted proteome. Additional identified proteins not predicted in Araport11 should be considered for the next Arabidopsis genome annotation. This release identified 5198 phosphorylated proteins, 668 ubiquitinated proteins, 3050 N-terminally acetylated proteins, and 864 lysine-acetylated proteins and mapped their PTM sites. MS support was lacking for 21.4% (5896 proteins) of the predicted Araport11 proteome: the "dark" proteome. This dark proteome is highly enriched for E3 ligases, transcription factors, and for certain (e.g., CLE, IDA, PSY) but not other (e.g., THIONIN, CAP) signaling peptides families. A machine learning model trained on RNA expression data and protein properties predicts the probability that proteins will be detected. The model aids in discovery of proteins with short half-life (e.g., SIG1,3 and ERF-VII TFs) and for developing strategies to identify the missing proteins. PeptideAtlas is linked to TAIR, tracks in JBrowse, and several other community proteomics resources.
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Affiliation(s)
- Klaas J van Wijk
- Section of Plant Biology, School of Integrative Plant Sciences (SIPS), Cornell University, Ithaca, New York 14853, United States
| | - Tami Leppert
- Institute for Systems Biology (ISB), Seattle, Washington 98109, United States
| | - Zhi Sun
- Institute for Systems Biology (ISB), Seattle, Washington 98109, United States
| | - Alyssa Kearly
- Boyce Thompson Institute, Ithaca, New York 14853, United States
| | - Margaret Li
- Institute for Systems Biology (ISB), Seattle, Washington 98109, United States
| | - Luis Mendoza
- Institute for Systems Biology (ISB), Seattle, Washington 98109, United States
| | - Isabell Guzchenko
- Section of Plant Biology, School of Integrative Plant Sciences (SIPS), Cornell University, Ithaca, New York 14853, United States
| | - Erica Debley
- Section of Plant Biology, School of Integrative Plant Sciences (SIPS), Cornell University, Ithaca, New York 14853, United States
| | - Georgia Sauermann
- Section of Plant Biology, School of Integrative Plant Sciences (SIPS), Cornell University, Ithaca, New York 14853, United States
| | - Pratyush Routray
- Section of Plant Biology, School of Integrative Plant Sciences (SIPS), Cornell University, Ithaca, New York 14853, United States
| | - Sagunya Malhotra
- Institute for Systems Biology (ISB), Seattle, Washington 98109, United States
| | - Andrew Nelson
- Boyce Thompson Institute, Ithaca, New York 14853, United States
| | - Qi Sun
- Computational Biology Service Unit, Cornell University, Ithaca, New York 14853, United States
| | - Eric W Deutsch
- Institute for Systems Biology (ISB), Seattle, Washington 98109, United States
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Rahman MW, Deokar AA, Lindsay D, Tar’an B. Novel Alleles from Cicer reticulatum L. for Genetic Improvement of Cultivated Chickpeas Identified through Genome Wide Association Analysis. Int J Mol Sci 2024; 25:648. [PMID: 38203819 PMCID: PMC10779240 DOI: 10.3390/ijms25010648] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Revised: 12/24/2023] [Accepted: 01/03/2024] [Indexed: 01/12/2024] Open
Abstract
The availability of wild chickpea (Cicer reticulatum L.) accessions has the potential to be used for the improvement of important traits in cultivated chickpeas. The main objectives of this study were to evaluate the phenotypic and genetic variations of chickpea progeny derived from interspecific crosses between C. arietinum and C. reticulatum, and to establish the association between single nucleotide polymorphism (SNP) markers and a series of important agronomic traits in chickpea. A total of 486 lines derived from interspecific crosses between C. arietinum (CDC Leader) and 20 accessions of C. reticulatum were evaluated at different locations in Saskatchewan, Canada in 2017 and 2018. Significant variations were observed for seed weight per plant, number of seeds per plant, thousand seed weight, and plant biomass. Path coefficient analysis showed significant positive direct effects of the number of seeds per plant, thousand seed weight, and biomass on the total seed weight. Cluster analysis based on the agronomic traits generated six groups that allowed the identification of potential heterotic groups within the interspecific lines for yield improvement and resistance to ascochyta blight disease. Genotyping of the 381 interspecific lines using a modified genotyping by sequencing (tGBS) generated a total of 14,591 SNPs. Neighbour-joining cluster analysis using the SNP data grouped the lines into 20 clusters. The genome wide association analysis identified 51 SNPs that had significant associations with different traits. Several candidate genes associated with early flowering and yield components were identified. The candidate genes and the significant SNP markers associated with different traits have a potential to aid the trait introgression in the breeding program.
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Affiliation(s)
| | | | | | - Bunyamin Tar’an
- Department of Plant Sciences, University of Saskatchewan, Saskatoon, SK S7N 5A8, Canada
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9
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Gomes KM, Nunn BL, Chappell PD, Jenkins BD. Subcellular proteomics for determining iron-limited remodeling of plastids in the model diatom Thalassiosira pseudonana (Bacillariophyta). JOURNAL OF PHYCOLOGY 2023; 59:1085-1099. [PMID: 37615442 DOI: 10.1111/jpy.13379] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Revised: 07/13/2023] [Accepted: 07/14/2023] [Indexed: 08/25/2023]
Abstract
Diatoms are important primary producers in the world's oceans, yet their growth is constrained in large regions by low bioavailable iron (Fe). Low-Fe stress-induced limitation of primary production is due to requirements for Fe in components of essential metabolic pathways including photosynthesis and other chloroplast plastid functions. Studies have shown that under low-Fe stress, diatoms alter plastid-specific processes, including components of electron transport. These physiological changes suggest changes of protein content and in protein abundances within the diatom plastid. While in silico predictions provide putative information on plastid-localized proteins, knowledge of diatom plastid proteins remains limited in comparison to well-studied model photosynthetic organisms. To address this, we employed shotgun proteomics to investigate the proteome of subcellular plastid-enriched fractions from Thalassiosira pseudonana to gain a better understanding of how the plastid proteome is remodeled in response to Fe limitation. Using mass spectrometry-based peptide identification and quantification, we analyzed T. pseudonana grown under Fe-replete and -limiting conditions. Through these analyses, we inferred the relative quantities of each protein, revealing that Fe limitation regulates major metabolic pathways in the plastid, including the Calvin cycle. Additionally, we observed changes in the expression of light-harvesting proteins. In silico localization predictions of proteins identified in this plastid-enriched proteome allowed for an in-depth comparison of theoretical versus observed plastid-localization, providing evidence for the potential of additional protein import pathways into the diatom plastid.
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Affiliation(s)
- Kristofer M Gomes
- Department of Biological Sciences, University of Rhode Island, Rhode Island, Kingston, USA
| | - Brook L Nunn
- Department of Genome Sciences, University of Washington, Washington, Seattle, USA
| | - P Dreux Chappell
- College of Marine Science, University of South Florida, Florida, St. Petersburg, USA
| | - Bethany D Jenkins
- Department of Cell and Molecular Biology, University of Rhode Island, Rhode Island, Kingston, USA
- Graduate School of Oceanography, University of Rhode Island, Rhode Island, Narragansett, USA
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10
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Bhattacharya O, Ortiz I, Hendricks N, Walling LL. The tomato chloroplast stromal proteome compendium elucidated by leveraging a plastid protein-localization prediction Atlas. FRONTIERS IN PLANT SCIENCE 2023; 14:1020275. [PMID: 37701797 PMCID: PMC10493611 DOI: 10.3389/fpls.2023.1020275] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Accepted: 06/22/2023] [Indexed: 09/14/2023]
Abstract
Tomato (Solanum lycopersicum) is a model species for studying fruit development, wounding, herbivory, and pathogen attack. Despite tomato's world-wide economic importance and the role of chloroplasts as metabolic hubs and integrators of environmental cues, little is known about the stromal proteome of tomato. Using a high-yielding protocol for chloroplast and stromal protein isolation, MudPIT nano-LC-MS/MS analyses, a robust in-house protein database (the Atlas) for predicting the plastid localization of tomato proteins, and rigorous selection criteria for inclusion/exclusion in the stromal proteome, we identified 1,278 proteins of the tomato stromal proteome. We provide one of the most robust stromal proteomes available to date with empirical evidence for 545 and 92 proteins not previously described for tomato plastids and the Arabidopsis stroma, respectively. The relative abundance of tomato stromal proteins was determined using the exponentially modified protein abundance index (emPAI). Comparison of the abundance of tomato and Arabidopsis stromal proteomes provided evidence for the species-specific nature of stromal protein homeostasis. The manual curation of the tomato stromal proteome classified proteins into ten functional categories resulting in an accessible compendium of tomato chloroplast proteins. After curation, only 91 proteins remained as unknown, uncharacterized or as enzymes with unknown functions. The curation of the tomato stromal proteins also indicated that tomato has a number of paralogous proteins, not present in Arabidopsis, which accumulated to different levels in chloroplasts. As some of these proteins function in key metabolic pathways or in perceiving or transmitting signals critical for plant adaptation to biotic and abiotic stress, these data suggest that tomato may modulate the bidirectional communication between chloroplasts and nuclei in a novel manner. The stromal proteome provides a fertile ground for future mechanistic studies in the field of tomato chloroplast-nuclear signaling and are foundational for our goal of elucidating the dynamics of the stromal proteome controlled by the solanaceous-specific, stromal, and wound-inducible leucine aminopeptidase A of tomato.
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Affiliation(s)
- Oindrila Bhattacharya
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA, United States
| | - Irma Ortiz
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA, United States
| | - Nathan Hendricks
- Institute of Integrative Genome Biology, University of California, Riverside, Riverside, CA, United States
| | - Linda L. Walling
- Department of Botany and Plant Sciences, University of California, Riverside, Riverside, CA, United States
- Institute of Integrative Genome Biology, University of California, Riverside, Riverside, CA, United States
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11
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Wang L, Patena W, Van Baalen KA, Xie Y, Singer ER, Gavrilenko S, Warren-Williams M, Han L, Harrigan HR, Hartz LD, Chen V, Ton VTNP, Kyin S, Shwe HH, Cahn MH, Wilson AT, Onishi M, Hu J, Schnell DJ, McWhite CD, Jonikas MC. A chloroplast protein atlas reveals punctate structures and spatial organization of biosynthetic pathways. Cell 2023; 186:3499-3518.e14. [PMID: 37437571 DOI: 10.1016/j.cell.2023.06.008] [Citation(s) in RCA: 17] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2022] [Revised: 05/06/2023] [Accepted: 06/11/2023] [Indexed: 07/14/2023]
Abstract
Chloroplasts are eukaryotic photosynthetic organelles that drive the global carbon cycle. Despite their importance, our understanding of their protein composition, function, and spatial organization remains limited. Here, we determined the localizations of 1,034 candidate chloroplast proteins using fluorescent protein tagging in the model alga Chlamydomonas reinhardtii. The localizations provide insights into the functions of poorly characterized proteins; identify novel components of nucleoids, plastoglobules, and the pyrenoid; and reveal widespread protein targeting to multiple compartments. We discovered and further characterized cellular organizational features, including eleven chloroplast punctate structures, cytosolic crescent structures, and unexpected spatial distributions of enzymes within the chloroplast. We also used machine learning to predict the localizations of other nuclear-encoded Chlamydomonas proteins. The strains and localization atlas developed here will serve as a resource to accelerate studies of chloroplast architecture and functions.
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Affiliation(s)
- Lianyong Wang
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Weronika Patena
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Kelly A Van Baalen
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Yihua Xie
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Emily R Singer
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Sophia Gavrilenko
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | | | - Linqu Han
- Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA; MSU-DOE Plant Research Lab, Michigan State University, East Lansing, MI 48824, USA
| | - Henry R Harrigan
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Linnea D Hartz
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Vivian Chen
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Vinh T N P Ton
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Saw Kyin
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Henry H Shwe
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Matthew H Cahn
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Alexandra T Wilson
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Masayuki Onishi
- Department of Biology, Duke University, Durham, NC 27708, USA
| | - Jianping Hu
- Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA; MSU-DOE Plant Research Lab, Michigan State University, East Lansing, MI 48824, USA
| | - Danny J Schnell
- Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA
| | - Claire D McWhite
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA
| | - Martin C Jonikas
- Department of Molecular Biology, Princeton University, Princeton, NJ 08544, USA; Howard Hughes Medical Institute, Princeton University, Princeton, NJ 08544, USA.
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12
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Nadeeva EM, Ignatova LK, Rudenko NN, Vetoshkina DV, Naydov IA, Kozuleva MA, Ivanov BN. Features of Photosynthesis in Arabidopsis thaliana Plants with Knocked Out Gene of Alpha Carbonic Anhydrase 2. PLANTS (BASEL, SWITZERLAND) 2023; 12:plants12091763. [PMID: 37176821 PMCID: PMC10180811 DOI: 10.3390/plants12091763] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Revised: 04/14/2023] [Accepted: 04/18/2023] [Indexed: 05/15/2023]
Abstract
The knockout of the At2g28210 gene encoding α-carbonic anhydrase 2 (α-CA2) in Arabidopsis thaliana (Columbia) led to alterations in photosynthetic processes. The effective quantum yields of both photosystem II (PSII) and photosystem I (PSI) were higher in α-carbonic anhydrase 2 knockout plants (α-CA2-KO), and the reduction state of plastoquinone pool was lower than in wild type (WT). The electron transport rate in the isolated thylakoids measured with methyl viologen was higher in α-CA2-KO plants. The amounts of reaction centers of PSII and PSI were similar in WT and α-CA2-KO plants. The non-photochemical quenching of chlorophyll a fluorescence in α-CA2-KO leaves was lower at the beginning of illumination, but became slightly higher than in WT leaves when the steady state was achieved. The degree of state transitions in the leaves was lower in α-CA2-KO than in WT plants. Measurements of the electrochromic carotenoid absorbance shift (ECS) revealed that the light-dependent pH gradient (ΔpH) across the thylakoid membrane was lower in the leaves of α-CA2-KO plants than in WT plants. The starch content in α-CA2-KO leaves was lower than in WT plants. The expression levels of the genes encoding chloroplast CAs in α-CA2-KO changed noticeably, whereas the expression levels of genes of cytoplasmic CAs remained almost the same. It is proposed that α-CA2 may be situated in the chloroplasts.
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Affiliation(s)
- Elena M Nadeeva
- Institute of Basic Biological Problems, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", 142290 Pushchino, Moscow Region, Russia
| | - Lyudmila K Ignatova
- Institute of Basic Biological Problems, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", 142290 Pushchino, Moscow Region, Russia
| | - Natalia N Rudenko
- Institute of Basic Biological Problems, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", 142290 Pushchino, Moscow Region, Russia
| | - Daria V Vetoshkina
- Institute of Basic Biological Problems, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", 142290 Pushchino, Moscow Region, Russia
| | - Ilya A Naydov
- Institute of Basic Biological Problems, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", 142290 Pushchino, Moscow Region, Russia
| | - Marina A Kozuleva
- Institute of Basic Biological Problems, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", 142290 Pushchino, Moscow Region, Russia
| | - Boris N Ivanov
- Institute of Basic Biological Problems, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", 142290 Pushchino, Moscow Region, Russia
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13
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Rudenko NN, Permyakova NV, Ignatova LK, Nadeeva EM, Zagorskaya AA, Deineko EV, Ivanov BN. The Role of Carbonic Anhydrase αCA4 in Photosynthetic Reactions in Arabidopsis thaliana Studied, Using the Cas9 and T-DNA Induced Mutations in Its Gene. PLANTS (BASEL, SWITZERLAND) 2022; 11:plants11233303. [PMID: 36501340 PMCID: PMC9735932 DOI: 10.3390/plants11233303] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 11/25/2022] [Accepted: 11/27/2022] [Indexed: 05/27/2023]
Abstract
An homozygous mutant line of Arabidopsis thaliana with a knocked out At4g20990 gene encoding thylakoid carbonic anhydrase αCA4 was created using a CRISPR/Cas9 genome editing system. The effects of the mutation were compared with those in two mutant lines obtained by the T-DNA insertion method. In αCA4 knockouts of all three lines, non-photochemical quenching of chlorophyll a fluorescence was lower than in the wild type (WT) plants due to a decrease in its energy-dependent component. The αCA4 knockout also affected the level of expression of the genes encoding all proteins of the PSII light harvesting antennae, the genes encoding cytoplasmic and thylakoid CAs and the genes induced by plant immune signals. The production level of starch synthesis during the light period, as well as the level of its utilization during the darkness, were significantly higher in these mutants than in WT plants. These data confirm that the previously observed differences between insertional mutants and WT plants were not the result of the negative effects of T-DNA insertion transgenesis but the results of αCA4 gene knockout. Overall, the data indicate the involvement of αCA4 in the photosynthetic reactions in the thylakoid membrane, in particular in processes associated with the protection of higher plants' photosynthetic apparatus from photoinhibition.
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Affiliation(s)
- Natalia N. Rudenko
- Institute of Basic Biological Problems, Federal Research Center «Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences» Pushchino, Moscow Region 142290, Russia
| | - Natalya V. Permyakova
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, Novosibirsk 630090, Russia
| | - Lyudmila K. Ignatova
- Institute of Basic Biological Problems, Federal Research Center «Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences» Pushchino, Moscow Region 142290, Russia
| | - Elena M. Nadeeva
- Institute of Basic Biological Problems, Federal Research Center «Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences» Pushchino, Moscow Region 142290, Russia
| | - Alla A. Zagorskaya
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, Novosibirsk 630090, Russia
| | - Elena V. Deineko
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, Novosibirsk 630090, Russia
| | - Boris N. Ivanov
- Institute of Basic Biological Problems, Federal Research Center «Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences» Pushchino, Moscow Region 142290, Russia
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14
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Adler L, Díaz-Ramos A, Mao Y, Pukacz KR, Fei C, McCormick AJ. New horizons for building pyrenoid-based CO2-concentrating mechanisms in plants to improve yields. PLANT PHYSIOLOGY 2022; 190:1609-1627. [PMID: 35961043 PMCID: PMC9614477 DOI: 10.1093/plphys/kiac373] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2022] [Accepted: 07/06/2022] [Indexed: 05/06/2023]
Abstract
Many photosynthetic species have evolved CO2-concentrating mechanisms (CCMs) to improve the efficiency of CO2 assimilation by Rubisco and reduce the negative impacts of photorespiration. However, the majority of plants (i.e. C3 plants) lack an active CCM. Thus, engineering a functional heterologous CCM into important C3 crops, such as rice (Oryza sativa) and wheat (Triticum aestivum), has become a key strategic ambition to enhance yield potential. Here, we review recent advances in our understanding of the pyrenoid-based CCM in the model green alga Chlamydomonas reinhardtii and engineering progress in C3 plants. We also discuss recent modeling work that has provided insights into the potential advantages of Rubisco condensation within the pyrenoid and the energetic costs of the Chlamydomonas CCM, which, together, will help to better guide future engineering approaches. Key findings include the potential benefits of Rubisco condensation for carboxylation efficiency and the need for a diffusional barrier around the pyrenoid matrix. We discuss a minimal set of components for the CCM to function and that active bicarbonate import into the chloroplast stroma may not be necessary for a functional pyrenoid-based CCM in planta. Thus, the roadmap for building a pyrenoid-based CCM into plant chloroplasts to enhance the efficiency of photosynthesis now appears clearer with new challenges and opportunities.
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Affiliation(s)
- Liat Adler
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, UK
| | - Aranzazú Díaz-Ramos
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, UK
| | - Yuwei Mao
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, UK
| | - Krzysztof Robin Pukacz
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, UK
| | - Chenyi Fei
- Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08544, USA
| | - Alistair J McCormick
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3BF, UK
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15
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Langella E, Di Fiore A, Alterio V, Monti SM, De Simone G, D’Ambrosio K. α-CAs from Photosynthetic Organisms. Int J Mol Sci 2022; 23:ijms231912045. [PMID: 36233343 PMCID: PMC9570166 DOI: 10.3390/ijms231912045] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Revised: 09/19/2022] [Accepted: 09/26/2022] [Indexed: 11/17/2022] Open
Abstract
Carbonic anhydrases (CAs) are ubiquitous enzymes that catalyze the reversible carbon dioxide hydration reaction. Among the eight different CA classes existing in nature, the α-class is the largest one being present in animals, bacteria, protozoa, fungi, and photosynthetic organisms. Although many studies have been reported on these enzymes, few functional, biochemical, and structural data are currently available on α-CAs isolated from photosynthetic organisms. Here, we give an overview of the most recent literature on the topic. In higher plants, these enzymes are engaged in both supplying CO2 at the Rubisco and determining proton concentration in PSII membranes, while in algae and cyanobacteria they are involved in carbon-concentrating mechanism (CCM), photosynthetic reactions and in detecting or signaling changes in the CO2 level in the environment. Crystal structures are only available for three algal α-CAs, thus not allowing to associate specific structural features to cellular localizations or physiological roles. Therefore, further studies on α-CAs from photosynthetic organisms are strongly needed to provide insights into their structure–function relationship.
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16
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Chen Y, Wang K, Chen H, Yang H, Zheng T, Huang X, Fan G. Simultaneously genetic selection of wheat yield and grain protein quality in rice-wheat and soybean-wheat cropping systems through critical nitrogen efficiency-related traits. FRONTIERS IN PLANT SCIENCE 2022; 13:899387. [PMID: 36247613 PMCID: PMC9558111 DOI: 10.3389/fpls.2022.899387] [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: 03/18/2022] [Accepted: 08/29/2022] [Indexed: 06/16/2023]
Abstract
Analyzing the contribution of nitrogen (N) uptake and its utilization in grain yield and protein quality-related traits in rice-wheat (RW) and soybean-wheat (SW) cropping systems is essential for simultaneous improvements in the two target traits. A field experiment with nine wheat genotypes was conducted in 2018-19 and 2019-20 cropping years to investigate N uptake and utilization-related traits associated with high wheat yield and good protein quality. Results showed that N uptake efficiency (NUpE) in the RW cropping system and N utilization efficiency (NUtE) in the SW cropping system explained 77.6 and 65.2% of yield variation, respectively, due to the contribution of fertile spikes and grain number per spike to grain yield varied depending on soil water and N availability in the two rotation systems. Lower grain protein content in the RW cropping system in comparison to the SW cropping system was mainly related to lower individual N accumulation at maturity, resulting from higher fertile spikes, rather than N harvest index (NHI). However, NHI in the SW cropping system accounted for greater variation in grain protein content. Both gluten index and post-anthesis N uptake were mainly affected by genotype, and low gluten index caused by high post-anthesis N uptake may be related to the simultaneous increase in kernel weight. N remobilization process associated with gluten quality was driven by increased sink N demand resulting from high grain number per unit area in the RW cropping system; confinement of low sink N demand and source capability resulted in low grain number per spike and water deficit limiting photosynthesis of flag leaf in the SW cropping system. CY-25 obtained high yield and wet gluten content at the expense of gluten index in the two wheat cropping systems, due to low plant height and high post-anthesis N uptake and kernel weight. From these results, we concluded that plant height, kernel weight, and post-anthesis N uptake were the critically agronomic and NUE-related traits for simultaneous selection of grain yield and protein quality. Our research results provided useful guidelines for improving both grain yield and protein quality by identifying desirable N-efficient genotypes in the two rotation systems.
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Affiliation(s)
- Yufeng Chen
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Kun Wang
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Haolan Chen
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
| | - Hongkun Yang
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Ministry of Science and Technology, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Eco-Physiology and Farming System in Southwest China, Ministry of Agriculture and Rural Affairs, Sichuan Agricultural University, Chengdu, China
| | - Ting Zheng
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Ministry of Science and Technology, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Eco-Physiology and Farming System in Southwest China, Ministry of Agriculture and Rural Affairs, Sichuan Agricultural University, Chengdu, China
| | - Xiulan Huang
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Ministry of Science and Technology, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Eco-Physiology and Farming System in Southwest China, Ministry of Agriculture and Rural Affairs, Sichuan Agricultural University, Chengdu, China
| | - Gaoqiong Fan
- Crop Ecophysiology and Cultivation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu, China
- State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Ministry of Science and Technology, Sichuan Agricultural University, Chengdu, China
- Key Laboratory of Crop Eco-Physiology and Farming System in Southwest China, Ministry of Agriculture and Rural Affairs, Sichuan Agricultural University, Chengdu, China
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17
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Rudenko NN, Ignatova LK, Naydov IA, Novichkova NS, Ivanov BN. Effect of CO2 Content in Air on the Activity of Carbonic Anhydrases in Cytoplasm, Chloroplasts, and Mitochondria and the Expression Level of Carbonic Anhydrase Genes of the α- and β-Families in Arabidopsis thaliana Leaves. PLANTS 2022; 11:plants11162113. [PMID: 36015416 PMCID: PMC9414674 DOI: 10.3390/plants11162113] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Revised: 08/11/2022] [Accepted: 08/12/2022] [Indexed: 11/16/2022]
Abstract
The carbonic anhydrase (CA) activities of the preparations of cytoplasm, mitochondria, chloroplast stroma, and chloroplast thylakoids, as well as the expression levels of genes encoding αCA1, αCA2, αCA4, βCA1, βCA2, βCA3, βCA4, βCA5, and βCA6, were measured in the leaves of Arabidopsis thaliana plants, acclimated to different CO2 content in the air: low (150 ppm, lCO2), normal (450 ppm, nCO2), and high (1200 ppm, hCO2). To evaluate the photosynthetic apparatus operation, the carbon assimilation and chlorophyll a fluorescence were measured under the same conditions. It was found that the CA activities of the preparations of cytoplasm, chloroplast stroma, and chloroplast thylakoids measured after two weeks of acclimation were higher, the lower CO2 concentration in the air. That was preceded by an increase in the expression levels of genes encoding the cytoplasmic form of βCA1, and other cytoplasmic CAs, βCA2, βCA3, and βCA4, as well as of the chloroplast CAs, βCA5, and the stromal forms of βCA1 in a short-term range 1–2 days after the beginning of the acclimation. The dependence on the CO2 content in the air was most noticeable for the CA activity of the preparations of the stroma; it was two orders higher in lCO2 plants than in hCO2 plants. The CA activity of thylakoid membranes from lCO2 plants was higher than that in nCO2 and hCO2 plants; however, in these plants, a significant increase in the expression levels of the genes encoding αCA2 and αCA4 located in thylakoid membranes was not observed. The CA activity of mitochondria and the expression level of the mitochondrial βCA6 gene did not depend on the content of carbon dioxide. Taken together, the data implied that in the higher plants, the supply of inorganic carbon to carboxylation sites is carried out with the cooperative functioning of CAs located in the cytoplasm and CAs located in the chloroplasts.
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18
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Adamiec M, Dobrogojski J, Wojtyla Ł, Luciński R. Stress-related expression of the chloroplast EGY3 pseudoprotease and its possible impact on chloroplasts' proteome composition. FRONTIERS IN PLANT SCIENCE 2022; 13:965143. [PMID: 35937369 PMCID: PMC9355673 DOI: 10.3389/fpls.2022.965143] [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: 06/09/2022] [Accepted: 07/04/2022] [Indexed: 06/15/2023]
Abstract
The EGY3 is a pseudoprotease, located in the thylakoid membrane, that shares homology with the family of site-2-proteases (S2P). Although S2P proteases are present in the cells of all living organisms, the EGY3 was found only in plant cells. The sequence of the pseudoprotease is highly conserved in the plant kingdom; however, little is known about its physiological importance. Results obtained with real-time PCR indicated that the expression of the EGY3 gene is dramatically induced during the first few hours of exposure to high light and high-temperature stress. The observed increase in transcript abundance correlates with protein accumulation level, which indicates that EGY3 participates in response to both high-temperature and high light stresses. The lack of the pseudoprotease leads, in both stresses, to lower concentrations of hydrogen peroxide. However, the decrease of chloroplast copper/zinc superoxide dismutase 2 level was observed only during the high light stress. In both analyzed stressful conditions, proteins related to RubisCO folding, glycine metabolism, and photosystem I were identified as differently accumulating in egy3 mutant lines and WT plants; however, the functional status of PSII during analyzed stressful conditions remains very similar. Our results lead to a conclusion that EGY3 pseudoprotease participates in response to high light and high-temperature stress; however, its role is associated rather with photosystem I and light-independent reactions of photosynthesis.
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Affiliation(s)
- Małgorzata Adamiec
- Department of Plant Physiology, Faculty of Biology, Institute of Experimental Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
| | - Jędrzej Dobrogojski
- Department of Biochemistry and Biotechnology, Faculty of Agronomy, Horticulture and Bioengineering, University of Life Sciences, Poznań, Poland
| | - Łukasz Wojtyla
- Department of Plant Physiology, Faculty of Biology, Institute of Experimental Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
| | - Robert Luciński
- Department of Plant Physiology, Faculty of Biology, Institute of Experimental Biology, Adam Mickiewicz University in Poznań, Poznań, Poland
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19
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Bhunia RK, Menard GN, Eastmond PJ. A native promoter–gene fusion created by CRISPR/Cas9‐mediated genomic deletion offers a transgene‐free method to drive oil accumulation in leaves. FEBS Lett 2022; 596:1865-1870. [PMID: 35490366 PMCID: PMC9545981 DOI: 10.1002/1873-3468.14365] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Revised: 04/14/2022] [Accepted: 04/19/2022] [Indexed: 11/11/2022]
Abstract
Achieving gain‐of‐function phenotypes without inserting foreign DNA is an important challenge for plant biotechnologists. Here, we show that a gene can be brought under the control of a promoter from an upstream gene by deleting the intervening genomic sequence using dual‐guide CRISPR/Cas9. We fuse the promoter of a nonessential photosynthesis‐related gene to DIACYLGLYCEROL ACYLTRANSFERASE 2 (DGAT2) in the lipase‐deficient sugar‐dependent 1 mutant of Arabidopsis thaliana to drive ectopic oil accumulation in leaves. DGAT2 expression is enhanced more than 20‐fold and the triacylglycerol content increases by around 30‐fold. This deletion strategy offers a transgene‐free route to engineering traits that rely on transcriptional gain‐of‐function, such as producing high lipid forage to increase the productivity and sustainability of ruminant farming.
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Affiliation(s)
- Rupam Kumar Bhunia
- Department of Plant Science Rothamsted Research Harpenden, Hertfordshire AL5 2JQ UK
- National Agri‐Food Biotechnology Institute (NABI) Mohali, Punjab 140306 India
| | - Guillaume N. Menard
- Department of Plant Science Rothamsted Research Harpenden, Hertfordshire AL5 2JQ UK
| | - Peter J. Eastmond
- Department of Plant Science Rothamsted Research Harpenden, Hertfordshire AL5 2JQ UK
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20
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Chen W, Huang J, Chen S, Zhang L, Rochaix JD, Peng L, Xin Q. Stromal Protein Chloroplast Development and Biogenesis1 Is Essential for Chloroplast Development and Biogenesis in Arabidopsis thaliana. FRONTIERS IN PLANT SCIENCE 2022; 13:815859. [PMID: 35222475 PMCID: PMC8866770 DOI: 10.3389/fpls.2022.815859] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/15/2021] [Accepted: 01/17/2022] [Indexed: 06/14/2023]
Abstract
Although numerous studies have been carried out on chloroplast development and biogenesis, the underlying regulatory mechanisms are still largely elusive. Here, we characterized a chloroplast stromal protein Chloroplast Development and Biogenesis1 (CDB1). The knockout cdb1 mutant exhibits a seedling-lethal and ivory leaf phenotype. Immunoblot and RNA blot analyses show that accumulation of chloroplast ribosomes is compromised in cdb1, resulting in an almost complete loss of plastid-encoded proteins including the core subunits of the plastid-encoded RNA polymerase (PEP) RpoB and RpoC2, and therefore in impaired PEP activity. Orthologs of CDB1 are found in green algae and land plants. Moreover, a protein shows high similarity with CDB1, designated as CDB1-Like (CDB1L), is present in angiosperms. Absence of CDB1L results in impaired embryo development. While CDB1 is specifically located in the chloroplast stroma, CDB1L is localized in both chloroplasts and mitochondria in Arabidopsis. Thus, our results demonstrate that CDB1 is indispensable for chloroplast development and biogenesis through its involvement in chloroplast ribosome assembly whereas CDB1L may fulfill a similar function in both mitochondria and chloroplasts.
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Affiliation(s)
- Weijie Chen
- Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Jingang Huang
- Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Shiwei Chen
- Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Lin Zhang
- Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Jean-David Rochaix
- Departments of Molecular Biology and Plant Biology, University of Geneva, Geneva, Switzerland
| | - Lianwei Peng
- Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, China
| | - Qiang Xin
- Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, China
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21
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Hooper CM, Castleden IR, Tanz SK, Grasso SV, Millar AH. Subcellular Proteomics as a Unified Approach of Experimental Localizations and Computed Prediction Data for Arabidopsis and Crop Plants. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2022; 1346:67-89. [PMID: 35113396 DOI: 10.1007/978-3-030-80352-0_4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
In eukaryotic organisms, subcellular protein location is critical in defining protein function and understanding sub-functionalization of gene families. Some proteins have defined locations, whereas others have low specificity targeting and complex accumulation patterns. There is no single approach that can be considered entirely adequate for defining the in vivo location of all proteins. By combining evidence from different approaches, the strengths and weaknesses of different technologies can be estimated, and a location consensus can be built. The Subcellular Location of Proteins in Arabidopsis database ( http://suba.live/ ) combines experimental data sets that have been reported in the literature and is analyzing these data to provide useful tools for biologists to interpret their own data. Foremost among these tools is a consensus classifier (SUBAcon) that computes a proposed location for all proteins based on balancing the experimental evidence and predictions. Further tools analyze sets of proteins to define the abundance of cellular structures. Extending these types of resources to plant crop species has been complex due to polyploidy, gene family expansion and contraction, and the movement of pathways and processes within cells across the plant kingdom. The Crop Proteins of Annotated Location database ( http://crop-pal.org/ ) has developed a range of subcellular location resources including a species-specific voting consensus for 12 plant crop species that offers collated evidence and filters for current crop proteomes akin to SUBA. Comprehensive cross-species comparison of these data shows that the sub-cellular proteomes (subcellulomes) depend only to some degree on phylogenetic relationship and are more conserved in major biosynthesis than in metabolic pathways. Together SUBA and cropPAL created reference subcellulomes for plants as well as species-specific subcellulomes for cross-species data mining. These data collections are increasingly used by the research community to provide a subcellular protein location layer, inform models of compartmented cell function and protein-protein interaction network, guide future molecular crop breeding strategies, or simply answer a specific question-where is my protein of interest inside the cell?
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Affiliation(s)
- Cornelia M Hooper
- The Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, Australia
| | - Ian R Castleden
- The Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, Australia
| | - Sandra K Tanz
- The Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, Australia
| | - Sally V Grasso
- The Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, Australia
| | - A Harvey Millar
- The Centre of Excellence in Plant Energy Biology, The University of Western Australia, Crawley, WA, Australia.
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22
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Zhang L, Zhang Z, Fang S, Liu Y, Shang X. Metabolome and Transcriptome Analyses Unravel the Molecular Regulatory Mechanisms Involved in Photosynthesis of Cyclocarya paliurus under Salt Stress. Int J Mol Sci 2022; 23:ijms23031161. [PMID: 35163101 PMCID: PMC8835658 DOI: 10.3390/ijms23031161] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2021] [Revised: 01/17/2022] [Accepted: 01/17/2022] [Indexed: 12/04/2022] Open
Abstract
Photosynthesis is the primary life process in nature, and how to improve photosynthetic capacity under abiotic stresses is crucial to carbon fixation and plant productivity. As a multi-functional tree species, the leaves of Cyclocarya paliurus possess antihypertensive and hypoglycemic activities. However, the regulatory mechanism involved in the photosynthetic process of C. paliurus exposed to salinity has not yet been elucidated. In this study, the photosynthetic characteristics of C. paliurus seedlings, such as photosynthetic rate (Pn), stomatal conductance (Gs), and electron transfer rate (ETR), were investigated under different salt concentrations, while the metabolome and transcriptome analyses were conducted to unravel its molecular regulatory mechanisms. Salt stress not only significantly affected photosynthetic characteristics of C. paliurus seedlings, but also severely modified the abundance of metabolites (such as fumaric acid, sedoheptulose-7-phosphate, d-fructose-1,6-bisphosphate, and 3-phospho-d-glyceroyl phosphate) involved in central carbon metabolism, and the expression of photosynthetic genes. Through the co-expression network analysis, a total of 27 transcription factors (including ERFs, IDD, DOF, MYB, RAP) were identified to regulate photosynthetic genes under salt stress. Our findings preliminarily clarify the molecular regulatory network involved in the photosynthetic process of C. paliurus under salt stress and would drive progress in improving the photosynthetic capacity and productivity of C. paliurus by molecular technology.
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Affiliation(s)
- Lei Zhang
- College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.Z.); (Z.Z.); (Y.L.); (X.S.)
| | - Zijie Zhang
- College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.Z.); (Z.Z.); (Y.L.); (X.S.)
| | - Shengzuo Fang
- College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.Z.); (Z.Z.); (Y.L.); (X.S.)
- Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China
- Correspondence: or ; Tel.: +86-25-854-28603
| | - Yang Liu
- College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.Z.); (Z.Z.); (Y.L.); (X.S.)
| | - Xulan Shang
- College of Forestry, Nanjing Forestry University, Nanjing 210037, China; (L.Z.); (Z.Z.); (Y.L.); (X.S.)
- Co-Innovation Centre for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China
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23
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Goussi R, Manfredi M, Marengo E, Derbali W, Cantamessa S, Barbato R, Manaa A. Thylakoid proteome variation of Eutrema salsugineum in response to drought and salinity combined stress. BIOCHIMICA ET BIOPHYSICA ACTA. BIOENERGETICS 2021; 1862:148482. [PMID: 34418359 DOI: 10.1016/j.bbabio.2021.148482] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Revised: 07/30/2021] [Accepted: 08/16/2021] [Indexed: 11/19/2022]
Abstract
It is well known that plant responses to stress involve different events occurring at different places of the cell/leaf and at different time scales in relation with the plant development. In fact, the organelles proteomes include a wide range of proteins that could include a wide range of proteins showing a considerable change in cellular functions and metabolism process. On this basis, a comparative proteomics analysis and fluorescence induction measurements were performed to investigate the photosynthetic performance and the relative thylakoid proteome variation in Eutrema salsugineum cultivated under salt stress (200 mM NaCl), water deficit stress (PEG) and combined treatment (PEG + NaCl) as a hyperosmotic stress. The obtained results showed a significant decrease of plant growth under drought stress conditions, with the appearance of some toxicity symptoms, especially in plants subjected to combined treatment. Application of salt or water stress alone showed no apparent change in the chlorophyll a fluorescence transients, primary photochemistry (fluorescence kinetics of the O-J phase), the PQ pool state (J-I phase changes), (Fv/Fm) and (Fk/Fj) ratios. However, a considerable decrease of all these parameters was observed under severe osmotic stress (PEG + NaCl). The thylakoid proteome analysis revealed 58 proteins showing a significant variation in their abundance between treatments (up or down regulation). The combined treatment (PEG + NaCl) induced a decrease in the expression of the whole PSII core subunit (D1, D2, CP43, CP47, PsbE and PsbH), whereas the OEC subunits proteins remained constant. An increase in the amount of PsaD, PsaE, PsaF, PsaH, PsaK and PsaN was detected under drought stress (PEG5%). No significant change in the accumulation of Cyt b6 and Cyt f was observed. Some regulated proteins involved in cellular redox homeostasis were detected (glutamine synthetase, phosphoglycerate kinase, transketolase), and showed a significant decrease under the combined treatment. Some oxidative stress related proteins were significantly up-regulated under salt or drought stress and could play a crucial role in the PSI photoprotection and the control of ROS production level.
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Affiliation(s)
- Rahma Goussi
- Laboratory of Extremophile Plants, Centre of Biotechnology of Borj Cedria, B.P. 901, Hammam-Lif 2050, Tunisia; Faculté des Sciences de Tunis, Université Tunis El Manar, 2092, Tunisia; Dipartimento di Scienze e Innovazione Tecnologica, Università del Piemonte Orientale, viale Teresa Michel 11, 15121 Alessandria, Italy
| | - Marcello Manfredi
- Department of Translational Medicine, University of Piemonte Orientale, Novara, Italy; Center for Translational Research on Autoimmune & Allergic Diseases - CAAD, University of Piemonte Orientale, Novara, Italy
| | - Emilio Marengo
- Dipartimento di Scienze e Innovazione Tecnologica, Università del Piemonte Orientale, viale Teresa Michel 11, 15121 Alessandria, Italy
| | - Walid Derbali
- Laboratory of Extremophile Plants, Centre of Biotechnology of Borj Cedria, B.P. 901, Hammam-Lif 2050, Tunisia; Faculté des Sciences de Tunis, Université Tunis El Manar, 2092, Tunisia
| | - Simone Cantamessa
- Dipartimento di Scienze e Innovazione Tecnologica, Università del Piemonte Orientale, viale Teresa Michel 11, 15121 Alessandria, Italy; CREA - Research Centre for Forestry and Wood - Italy
| | - Roberto Barbato
- Dipartimento di Scienze e Innovazione Tecnologica, Università del Piemonte Orientale, viale Teresa Michel 11, 15121 Alessandria, Italy
| | - Arafet Manaa
- Laboratory of Extremophile Plants, Centre of Biotechnology of Borj Cedria, B.P. 901, Hammam-Lif 2050, Tunisia.
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24
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Rudenko NN, Ivanov BN. Unsolved Problems of Carbonic Anhydrases Functioning in Photosynthetic Cells of Higher C3 Plants. BIOCHEMISTRY. BIOKHIMIIA 2021; 86:1243-1255. [PMID: 34903154 DOI: 10.1134/s0006297921100072] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
The review presents current data on carbonic anhydrases found in various compartments of photosynthetic cells of higher plants. The available data on expression of genes some of carbonic anhydrases and its dependence on environmental factors and plant age are considered. The existing hypotheses on the functions of carbonic anhydrases of plasma membrane, cytoplasm, as well as of stroma and thylakoids of chloroplast, first of all, the hypothesis on participation of these enzymes in supplying carbon dioxide molecules to ribulose-bisphosphate carboxylase (Rubisco) are analyzed. Difficulties of establishing physiological role of the plant cell carbonic anhydrase are discussed in detail.
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Affiliation(s)
- Natalia N Rudenko
- Institute of Basic Biological Problems, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia
| | - Boris N Ivanov
- Institute of Basic Biological Problems, Pushchino Scientific Center for Biological Research, Russian Academy of Sciences, Pushchino, Moscow Region, 142290, Russia.
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25
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Gupta SK, Sharma M, Maurya VK, Deeba F, Pandey V. Effects of ethylenediurea (EDU) on apoplast and chloroplast proteome in two wheat varieties under high ambient ozone: an approach to investigate EDU's mode of action. PROTOPLASMA 2021; 258:1009-1028. [PMID: 33641010 DOI: 10.1007/s00709-021-01617-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Accepted: 01/22/2021] [Indexed: 06/12/2023]
Abstract
Rising tropospheric ozone (O3) is a serious threat to plants and animals in the present climate change scenario. High tropospheric O3 has the capability to disrupt cellular organelles leading to impaired photosynthesis and significant yield reduction. Apoplast and chloroplast are two important cellular components in a plant system. Their proteomic response with ethylenediurea (EDU) treatment under tropospheric O3 has not been explored till date. EDU (an organic compound) protects plants exclusively against harmful O3 effects through activation of antioxidant defense mechanism. The present study investigated the mode of action of EDU (hereafter MAE) by identifying proteins involved in apoplast and chloroplast pathways. Two wheat varieties viz. Kundan and PBW 343 (hereafter K and P respectively) and three EDU treatments (0= control, 200, and 300 ppm) have been used for the study. In apoplast isolates, proteins such as superoxide dismutase (SOD), amino methyltransferase, catalase, and Germin-like protein have shown active role by maintaining antioxidant defense system under EDU treatment. Differential expression of these proteins leads to enhanced antioxidative defense mechanisms inside and outside the cell. Chloroplast proteins such as Rubisco, Ferredoxin NADP- reductase (FNR), fructose,1-6 bis phosphatase (FBPase), ATP synthase, vacuolar proton ATPase, and chaperonin have regulated their abundance to minimize ozone stress under EDU treatment. After analyzing apoplast and chloroplast protein abundance, we have drawn a schematic representation of the MAE working mechanism. The present study showed that plants can be capable of O3 tolerance, which could be improved by optimizing the apoplast ROS pool under EDU treatment.
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Affiliation(s)
- Sunil K Gupta
- Plant Ecology and Climate Change Science Division, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, Uttar Pradesh, 201 002, India
- CAS Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla, 666 303, Yunnan, China
| | - Marisha Sharma
- Plant Ecology and Climate Change Science Division, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
| | - Vivek K Maurya
- Plant Ecology and Climate Change Science Division, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
| | - Farah Deeba
- Plant Ecology and Climate Change Science Division, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
- Biotechnology Department, CSIR-Central Institute of Medicinal and Aromatic Plants, Lucknow, 226 015, India
| | - Vivek Pandey
- Plant Ecology and Climate Change Science Division, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India.
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, Uttar Pradesh, 201 002, India.
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26
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Characterization of the Free and Membrane-Associated Fractions of the Thylakoid Lumen Proteome in Arabidopsis thaliana. Int J Mol Sci 2021; 22:ijms22158126. [PMID: 34360890 PMCID: PMC8346976 DOI: 10.3390/ijms22158126] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2021] [Revised: 07/25/2021] [Accepted: 07/26/2021] [Indexed: 11/16/2022] Open
Abstract
The thylakoid lumen houses proteins that are vital for photosynthetic electron transport, including water-splitting at photosystem (PS) II and shuttling of electrons from cytochrome b6f to PSI. Other lumen proteins maintain photosynthetic activity through biogenesis and turnover of PSII complexes. Although all lumen proteins are soluble, these known details have highlighted interactions of some lumen proteins with thylakoid membranes or thylakoid-intrinsic proteins. Meanwhile, the functional details of most lumen proteins, as well as their distribution between the soluble and membrane-associated lumen fractions, remain unknown. The current study isolated the soluble free lumen (FL) and membrane-associated lumen (MAL) fractions from Arabidopsis thaliana, and used gel- and mass spectrometry-based proteomics methods to analyze the contents of each proteome. These results identified 60 lumenal proteins, and clearly distinguished the difference between the FL and MAL proteomes. The most abundant proteins in the FL fraction were involved in PSII assembly and repair, while the MAL proteome was enriched in proteins that support the oxygen-evolving complex (OEC). Novel proteins, including a new PsbP domain-containing isoform, as well as several novel post-translational modifications and N-termini, are reported, and bi-dimensional separation of the lumen proteome identified several protein oligomers in the thylakoid lumen.
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27
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Ma L, Li G. Arabidopsis FAR-RED ELONGATED HYPOCOTYL3 negatively regulates carbon starvation responses. PLANT, CELL & ENVIRONMENT 2021; 44:1816-1829. [PMID: 33715163 DOI: 10.1111/pce.14044] [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: 09/25/2020] [Revised: 03/01/2021] [Accepted: 03/06/2021] [Indexed: 06/12/2023]
Abstract
Light is one of the most important environmental factors that affects various cellular processes in plant growth and development; it is also crucial for the metabolism of carbohydrates as it provides the energy source for photosynthesis. Under extended darkness conditions, carbon starvation responses are triggered by depletion of stored energy. Although light rapidly inhibits starvation responses, the molecular mechanisms by which light signalling affects this process remain largely unknown. In this study, we showed that the Arabidopsis thaliana light signalling protein FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and its homolog FAR-RED IMPAIRED RESPONSE1 (FAR1) are essential for plant survival after extended darkness treatment at both seedling and adult stages. Transmission electron microscopy analyses revealed that disruption of both FHY3 and FAR1 resulted in destruction of chloroplast envelopes and thylakoid membranes under extended darkness conditions. Furthermore, treatment with sucrose, but not glucose, completely rescued carbon starvation-induced cell death in the rosette leaves and arrested early seedling establishment in the fhy3 far1 plants. We thus concluded that the light signalling proteins FHY3 and FAR1 negatively regulate carbon starvation responses in Arabidopsis.
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Affiliation(s)
- Lin Ma
- School of Biological Science and Technology, University of Jinan, Jinan, China
- State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Tai'an, China
| | - Gang Li
- State Key Laboratory of Crop Biology, College of Life Sciences, Shandong Agricultural University, Tai'an, China
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28
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Zhang W, Wang H, Dong J, Zhang T, Xiao H. Comparative chloroplast genomes and phylogenetic analysis of Aquilegia. APPLICATIONS IN PLANT SCIENCES 2021; 9:e11412. [PMID: 33854846 PMCID: PMC8027367 DOI: 10.1002/aps3.11412] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2020] [Accepted: 01/07/2021] [Indexed: 05/25/2023]
Abstract
PREMISE Aquilegia is an ideal taxon for studying the evolution of adaptive radiation. Current phylogenies of Aquilegia based on different molecular markers are inconsistent, and therefore a clear and accurate phylogeny remains uncertain. Analyzing the chloroplast genome, with its simple structure and low recombination rate, may help solve this problem. METHODS Next-generation sequencing data were generated or downloaded for Aquilegia species, enabling their chloroplast genomes to be assembled. The assemblies were used to estimate the genome characteristics and infer the phylogeny of Aquilegia. RESULTS In this study, chloroplast genome sequences were assembled for Aquilegia species distributed across Asia, North America, and Europe. Three of the genes analyzed (petG, rpl36, and atpB) were shown to be under positive selection and may be related to adaptation. The phylogenetic tree of Aquilegia showed that its member species formed two clades with high support, North American and European species, with the Asian species being paraphyletic; A. parviflora and A. amurensis clustered with the North American species, while the remaining Asian species were found in the European clade. In addition, A. oxysepala var. kansuensis should be considered as a separate species rather than a variety. DISCUSSION The complete chloroplast genomes of these Aquilegia species provide new insights into the reconstruction of the phylogeny of related species and contribute to the further study of this genus.
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Affiliation(s)
- Wei Zhang
- Key Laboratory of Molecular Epigenetics of Ministry of EducationNortheast Normal UniversityChangchun130024China
| | - Huaying Wang
- Key Laboratory of Molecular Epigenetics of Ministry of EducationNortheast Normal UniversityChangchun130024China
| | - Jianhua Dong
- Key Laboratory of Molecular Epigenetics of Ministry of EducationNortheast Normal UniversityChangchun130024China
| | - Tengjiao Zhang
- Key Laboratory of Molecular Epigenetics of Ministry of EducationNortheast Normal UniversityChangchun130024China
| | - Hongxing Xiao
- Key Laboratory of Molecular Epigenetics of Ministry of EducationNortheast Normal UniversityChangchun130024China
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29
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Rudenko NN, Ignatova LK, Nadeeva-Zhurikova EM, Fedorchuk TP, Ivanov BN, Borisova-Mubarakshina MM. Advances in understanding the physiological role and locations of carbonic anhydrases in C3 plant cells. PROTOPLASMA 2021; 258:249-262. [PMID: 33118061 DOI: 10.1007/s00709-020-01566-1] [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: 08/21/2020] [Accepted: 10/05/2020] [Indexed: 05/09/2023]
Abstract
The review describes the structures of plant carbonic anhydrases (CAs), enzymes catalyzing the interconversion of inorganic carbon forms and belonging to different families, as well as the interaction of inhibitors and activators of CA activity with the active sites of CAs in representatives of these families. We outline the data that shed light on the location of CAs in green cells of C3 plants, algae and angiosperms, with the emphasis on the recently obtained data. The proven and proposed functions of CAs in these organisms are listed. The possibility of the involvement of several chloroplast CAs in acceleration of the conversion of bicarbonate to CO2 and in supply of CO2 for fixation by Rubisco is particularly considered. Special attention is paid to CAs in various parts of thylakoids and to discussion about current knowledge of their possible physiological roles. The review states that, despite the significant progress in application of the mutants with suppressed CAs synthesis, the approach based on the use of the inhibitors of CA activity in some cases remains quite effective. Combination of these two approaches, namely determining the effect of CA activity inhibitors in plants with certain knocked-out CA genes, turns out to be very useful for understanding the functions of other CAs.
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Affiliation(s)
- Natalia N Rudenko
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center, Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, Moscow Region, Russia, 142290.
| | - Lyudmila K Ignatova
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center, Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, Moscow Region, Russia, 142290
| | - Elena M Nadeeva-Zhurikova
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center, Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, Moscow Region, Russia, 142290
| | - Tatiana P Fedorchuk
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center, Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, Moscow Region, Russia, 142290
| | - Boris N Ivanov
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center, Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, Moscow Region, Russia, 142290
| | - Maria M Borisova-Mubarakshina
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center, Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences, Pushchino, Moscow Region, Russia, 142290
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Shahmir F, Pauls KP. Identification, Gene Structure, and Expression of BnMicEmUP: A Gene Upregulated in Embryogenic Brassica napus Microspores. FRONTIERS IN PLANT SCIENCE 2021; 11:576008. [PMID: 33519838 PMCID: PMC7845737 DOI: 10.3389/fpls.2020.576008] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/24/2020] [Accepted: 11/09/2020] [Indexed: 06/12/2023]
Abstract
Microspores of Brassica napus can be diverted from normal pollen development into embryogenesis by treating them with a mild heat shock. As microspore embryogenesis closely resembles zygotic embryogenesis, it is used as model for studying the molecular mechanisms controlling embryo formation. A previous study comparing the transcriptomes of three-day-old sorted embryogenic and pollen-like (non-embryogenic) microspores identified a gene homologous to AT1G74730 of unknown function that was upregulated 8-fold in the embryogenic cells. In the current study, the gene was isolated and sequenced from B. napus and named BnMicEmUP (B. napus microspore embryogenesis upregulated gene). Four forms of BnMicEmUP mRNA and three forms of genomic DNA were identified. BnMicEmUP2,3 was upregulated more than 7-fold by day 3 in embryogenic microspore cultures compared to non-induced cultures. BnMicEmUP1,4 was highly expressed in leaves. Transient expression studies of BnMicEmUP3::GFP fusion protein in Nicotiana benthamiana and in stable Arabidopsis transgenics showed that it accumulates in chloroplasts. The features of the BnMicEmUP protein, which include a chloroplast targeting region, a basic region, and a large region containing 11 complete leucine-rich repeats, suggest that it is similar to a bZIP PEND (plastid envelope DNA-binding protein) protein, a DNA binding protein found in the inner envelope membrane of developing chloroplasts. Here, we report that the BnMicEmUP3 overexpression in Arabidopsis increases the sensitivity of seedlings to exogenous abscisic acid (ABA). The BnMicEmUP proteins appear to be transcription factors that are localized in plastids and are involved in plant responses to biotic and abiotic environmental stresses; as well as the results obtained from this study can be used to improve crop yield.
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Flannery SE, Hepworth C, Wood WHJ, Pastorelli F, Hunter CN, Dickman MJ, Jackson PJ, Johnson MP. Developmental acclimation of the thylakoid proteome to light intensity in Arabidopsis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2021; 105:223-244. [PMID: 33118270 PMCID: PMC7898487 DOI: 10.1111/tpj.15053] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2020] [Revised: 10/13/2020] [Accepted: 10/21/2020] [Indexed: 05/03/2023]
Abstract
Photosynthetic acclimation, the ability to adjust the composition of the thylakoid membrane to optimise the efficiency of electron transfer to the prevailing light conditions, is crucial to plant fitness in the field. While much is known about photosynthetic acclimation in Arabidopsis, to date there has been no study that combines both quantitative label-free proteomics and photosynthetic analysis by gas exchange, chlorophyll fluorescence and P700 absorption spectroscopy. Using these methods we investigated how the levels of 402 thylakoid proteins, including many regulatory proteins not previously quantified, varied upon long-term (weeks) acclimation of Arabidopsis to low (LL), moderate (ML) and high (HL) growth light intensity and correlated these with key photosynthetic parameters. We show that changes in the relative abundance of cytb6 f, ATP synthase, FNR2, TIC62 and PGR6 positively correlate with changes in estimated PSII electron transfer rate and CO2 assimilation. Improved photosynthetic capacity in HL grown plants is paralleled by increased cyclic electron transport, which positively correlated with NDH, PGRL1, FNR1, FNR2 and TIC62, although not PGR5 abundance. The photoprotective acclimation strategy was also contrasting, with LL plants favouring slowly reversible non-photochemical quenching (qI), which positively correlated with LCNP, while HL plants favoured rapidly reversible quenching (qE), which positively correlated with PSBS. The long-term adjustment of thylakoid membrane grana diameter positively correlated with LHCII levels, while grana stacking negatively correlated with CURT1 and RIQ protein abundance. The data provide insights into how Arabidopsis tunes photosynthetic electron transfer and its regulation during developmental acclimation to light intensity.
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Affiliation(s)
- Sarah E. Flannery
- Department of Molecular Biology and BiotechnologyUniversity of SheffieldFirth CourtWestern BankSheffieldUK
| | - Christopher Hepworth
- Department of Molecular Biology and BiotechnologyUniversity of SheffieldFirth CourtWestern BankSheffieldUK
| | - William H. J. Wood
- Department of Molecular Biology and BiotechnologyUniversity of SheffieldFirth CourtWestern BankSheffieldUK
| | - Federica Pastorelli
- Department of Molecular Biology and BiotechnologyUniversity of SheffieldFirth CourtWestern BankSheffieldUK
| | - Christopher N. Hunter
- Department of Molecular Biology and BiotechnologyUniversity of SheffieldFirth CourtWestern BankSheffieldUK
| | - Mark J. Dickman
- Department of Chemical and Biological EngineeringChELSI InstituteUniversity of SheffieldSheffieldUK
| | - Philip J. Jackson
- Department of Molecular Biology and BiotechnologyUniversity of SheffieldFirth CourtWestern BankSheffieldUK
- Department of Chemical and Biological EngineeringChELSI InstituteUniversity of SheffieldSheffieldUK
| | - Matthew P. Johnson
- Department of Molecular Biology and BiotechnologyUniversity of SheffieldFirth CourtWestern BankSheffieldUK
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Baslam M, Mitsui T, Sueyoshi K, Ohyama T. Recent Advances in Carbon and Nitrogen Metabolism in C3 Plants. Int J Mol Sci 2020; 22:E318. [PMID: 33396811 PMCID: PMC7795015 DOI: 10.3390/ijms22010318] [Citation(s) in RCA: 44] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2020] [Revised: 12/23/2020] [Accepted: 12/23/2020] [Indexed: 12/19/2022] Open
Abstract
C and N are the most important essential elements constituting organic compounds in plants. The shoots and roots depend on each other by exchanging C and N through the xylem and phloem transport systems. Complex mechanisms regulate C and N metabolism to optimize plant growth, agricultural crop production, and maintenance of the agroecosystem. In this paper, we cover the recent advances in understanding C and N metabolism, regulation, and transport in plants, as well as their underlying molecular mechanisms. Special emphasis is given to the mechanisms of starch metabolism in plastids and the changes in responses to environmental stress that were previously overlooked, since these changes provide an essential store of C that fuels plant metabolism and growth. We present general insights into the system biology approaches that have expanded our understanding of core biological questions related to C and N metabolism. Finally, this review synthesizes recent advances in our understanding of the trade-off concept that links C and N status to the plant's response to microorganisms.
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Affiliation(s)
- Marouane Baslam
- Laboratory of Biochemistry, Faculty of Agriculture, Niigata University, Niigata 950-2181, Japan; (M.B.); (T.M.)
| | - Toshiaki Mitsui
- Laboratory of Biochemistry, Faculty of Agriculture, Niigata University, Niigata 950-2181, Japan; (M.B.); (T.M.)
- Department of Life and Food Sciences, Graduate School of Science and Technology, Niigata University, Niigata 950-2181, Japan;
| | - Kuni Sueyoshi
- Department of Life and Food Sciences, Graduate School of Science and Technology, Niigata University, Niigata 950-2181, Japan;
| | - Takuji Ohyama
- Department of Life and Food Sciences, Graduate School of Science and Technology, Niigata University, Niigata 950-2181, Japan;
- Faculty of Applied Biosciences, Tokyo University of Agriculture, Tokyo 156-8502, Japan
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33
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Santamaría-Fernández M, Lübeck M. Production of leaf protein concentrates in green biorefineries as alternative feed for monogastric animals. Anim Feed Sci Technol 2020. [DOI: 10.1016/j.anifeedsci.2020.114605] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Effects of Water Stress on Photosynthesis, Yield, and Water Use Efficiency in Winter Wheat. WATER 2020. [DOI: 10.3390/w12082127] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
Drought has become one of the major constraints to agricultural development, particularly in areas that lack water. Studying the effects of different water stresses on the photosynthesis, growth, yield, water use efficiency (WUE) and irrigation water productivity (IWP) of winter wheat will provide data for the development of scientific irrigation strategies for water-saving agricultural methods. According to the size of the field water capacity, four different water stress levels were set, i.e., 30–40% (severe stress), 40–50% (moderate stress), 50–60% (mild stress) and 60–80% (well-watered) of field water capacity, controlling the amount of irrigation through an automatic irrigation system. The results showed that the seasonal changes in photosynthetic parameters, such as net photosynthetic rate (Pn), intercellular carbon concentration (Ci), stomatal conductance (Gs) and transpiration (E), significantly decreased under moderate and severe stress. As a result, the height, biomass and grain size of winter wheat decreased significantly, which led to low WUE and IWP. The Pn of the mild stress group only slightly decreased compared to that of the well-watered group, and was actually higher during the flowering and grain-filling stages, resulting in increases in dry biomass and 1000 grain weight of 2.07% and 1.95%, respectively. Higher WUE and IWP were attributed to higher yields and less water use. Thus, mild stress (60–80% field water capacity) resulted in the optimal use of water resources without a significant reduction in yield in the North China Plain (NCP). Therefore, mild stress can be considered a suitable environment for winter wheat growth in arid areas.
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Baslam M, Mitsui T, Hodges M, Priesack E, Herritt MT, Aranjuelo I, Sanz-Sáez Á. Photosynthesis in a Changing Global Climate: Scaling Up and Scaling Down in Crops. FRONTIERS IN PLANT SCIENCE 2020; 11:882. [PMID: 32733499 PMCID: PMC7357547 DOI: 10.3389/fpls.2020.00882] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Accepted: 05/29/2020] [Indexed: 05/06/2023]
Abstract
Photosynthesis is the major process leading to primary production in the Biosphere. There is a total of 7000bn tons of CO2 in the atmosphere and photosynthesis fixes more than 100bn tons annually. The CO2 assimilated by the photosynthetic apparatus is the basis of crop production and, therefore, of animal and human food. This has led to a renewed interest in photosynthesis as a target to increase plant production and there is now increasing evidence showing that the strategy of improving photosynthetic traits can increase plant yield. However, photosynthesis and the photosynthetic apparatus are both conditioned by environmental variables such as water availability, temperature, [CO2], salinity, and ozone. The "omics" revolution has allowed a better understanding of the genetic mechanisms regulating stress responses including the identification of genes and proteins involved in the regulation, acclimation, and adaptation of processes that impact photosynthesis. The development of novel non-destructive high-throughput phenotyping techniques has been important to monitor crop photosynthetic responses to changing environmental conditions. This wealth of data is being incorporated into new modeling algorithms to predict plant growth and development under specific environmental constraints. This review gives a multi-perspective description of the impact of changing environmental conditions on photosynthetic performance and consequently plant growth by briefly highlighting how major technological advances including omics, high-throughput photosynthetic measurements, metabolic engineering, and whole plant photosynthetic modeling have helped to improve our understanding of how the photosynthetic machinery can be modified by different abiotic stresses and thus impact crop production.
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Affiliation(s)
- Marouane Baslam
- Laboratory of Biochemistry, Faculty of Agriculture, Niigata University, Niigata, Japan
| | - Toshiaki Mitsui
- Laboratory of Biochemistry, Faculty of Agriculture, Niigata University, Niigata, Japan
- Graduate School of Science and Technology, Niigata University, Niigata, Japan
| | - Michael Hodges
- Institute of Plant Sciences Paris-Saclay (IPS2), CNRS, INRAE, Université Paris-Saclay, Université Evry, Université Paris Diderot, Paris, France
| | - Eckart Priesack
- Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, German Research Center for Environmental Health, Neuherberg, Germany
| | - Matthew T. Herritt
- USDA-ARS Plant Physiology and Genetics Research, US Arid-Land Agricultural Research Center, Maricopa, AZ, United States
| | - Iker Aranjuelo
- Agrobiotechnology Institute (IdAB-CSIC), Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, Mutilva, Spain
| | - Álvaro Sanz-Sáez
- Department of Crop, Soil, and Environmental Sciences, Auburn University, Auburn, AL, United States
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Tang L, Yang G, Ma M, Liu X, Li B, Xie J, Fu Y, Chen T, Yu Y, Chen W, Jiang D, Cheng J. An effector of a necrotrophic fungal pathogen targets the calcium-sensing receptor in chloroplasts to inhibit host resistance. MOLECULAR PLANT PATHOLOGY 2020; 21:686-701. [PMID: 32105402 PMCID: PMC7170781 DOI: 10.1111/mpp.12922] [Citation(s) in RCA: 52] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2019] [Revised: 01/14/2020] [Accepted: 01/20/2020] [Indexed: 05/03/2023]
Abstract
SsITL, a secretory protein of the necrotrophic phytopathogen Sclerotinia sclerotiorum, was previously reported to suppress host immunity at the early stages of infection. However, the molecular mechanism that SsITL uses to inhibit plant defence against S. sclerotiorum has not yet been elucidated. Here, we report that SsITL interacted with a chloroplast-localized calcium-sensing receptor, CAS, in chloroplasts. We found that CAS is a positive regulator of the salicylic acid signalling pathway in plant immunity to S. sclerotiorum and CAS-mediated resistance against S. sclerotiorum depends on Ca2+ signalling. Furthermore, we showed that SsITL could interfere with the plant salicylic acid (SA) signalling pathway and SsITL-expressing transgenic plants were more susceptible to S. sclerotiorum. However, truncated SsITLs (SsITL-NT1 or SsITL-CT1) that lost the ability to interact with CAS do not affect plant resistance to S. sclerotiorum. Taken together, our findings reveal that SsITL inhibits SA accumulation during the early stage of infection by interacting with CAS and then facilitating the infection by S. sclerotiorum.
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Affiliation(s)
- Liguang Tang
- State Key Laboratory of Agricultural MicrobiologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Guogen Yang
- School of Plant ProtectionAnhui Agricultural UniversityHefeiChina
| | - Ming Ma
- State Key Laboratory of Agricultural MicrobiologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Xiaofan Liu
- State Key Laboratory of Agricultural MicrobiologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Bo Li
- State Key Laboratory of Agricultural MicrobiologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Jiatao Xie
- State Key Laboratory of Agricultural MicrobiologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Yanping Fu
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Tao Chen
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Yang Yu
- College of Plant ProtectionSouthwest UniversityChongqing CityChina
| | - Weidong Chen
- United States Department of AgricultureAgricultural Research ServiceWashington State UniversityPullmanWAUSA
| | - Daohong Jiang
- State Key Laboratory of Agricultural MicrobiologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
| | - Jiasen Cheng
- State Key Laboratory of Agricultural MicrobiologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
- The Provincial Key Lab of Plant Pathology of Hubei ProvinceCollege of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan, Hubei ProvinceChina
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Moseler A, Selles B, Rouhier N, Couturier J. Novel insights into the diversity of the sulfurtransferase family in photosynthetic organisms with emphasis on oak. THE NEW PHYTOLOGIST 2020; 226:967-977. [PMID: 31032955 DOI: 10.1111/nph.15870] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2019] [Accepted: 04/21/2019] [Indexed: 05/21/2023]
Abstract
Sulfurtransferases (STRs) constitute a large and complex protein family characterized by the presence of a rhodanese domain and implicated in diverse molecular and signaling processes as sulfur carriers. Although sulfurtransferases are present in the three domains of life and share evolutionary relationships, a high variability exists at different levels including the protein length and active site sequence, the presence of an indispensable catalytic cysteine residue, the domain arrangement and the subcellular localization. Because only Arabidopsis thaliana sequences have been inventoried so far, this paper aims at providing a detailed classification and inventory of evolutionary features of this family in photosynthetic organisms using comparative genomics, focusing on the oak genome. Based on the expansion of STRs in higher photosynthetic organisms, we classified the STR family in nine clusters depending on their primary sequence and domain arrangement. We found that oak possesses at least one isoform in all defined clusters and that clusters IV, V and VI contain plant-specific isoforms that are located mostly in chloroplasts. The novel classification proposed here provides the basis for functional genomics approaches in order to dissect the biochemical characteristics and physiological functions of individual STR representatives.
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Affiliation(s)
- Anna Moseler
- Université de Lorraine, Inra, IAM, F-54000, Nancy, France
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Herritt MT, Fritschi FB. Characterization of Photosynthetic Phenotypes and Chloroplast Ultrastructural Changes of Soybean ( Glycine max) in Response to Elevated Air Temperatures. FRONTIERS IN PLANT SCIENCE 2020; 11:153. [PMID: 32210985 PMCID: PMC7069378 DOI: 10.3389/fpls.2020.00153] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2019] [Accepted: 01/31/2020] [Indexed: 05/28/2023]
Abstract
Heat stress negatively affects photosynthesis in crop plants. Chlorophyll fluorescence provides information about the efficiency of the light-dependent reactions of photosynthesis and can be measured non-destructively and rapidly. Four soybean (Glycine max) genotypes were grown in controlled environments at 28/20°C (control), followed by imposition of control, 38/28°C, and 45/28°C day/night temperature regimes for 7 days. Coordinated chlorophyll fluorescence, gas exchange, and chloroplast ultrastructure measurements were conducted over the course of the 7-day temperature treatments and revealed contrasting responses among the different genotypes. Although generally similar, the extent of the impact of elevated temperatures on net photosynthesis differed among genotypes. Despite dramatic effects on photosynthetic light reactions, net photosynthetic rates were not reduced by exposure to 45°C on the 1st day of treatment imposition. Temporal dynamics of light reaction characteristics over the course of the 7-day heat-wave simulation revealed distinct responses among the genotypes. Similarly, chloroplast ultrastructure examination identified contrasting responses of DT97-4290 and PI603166, particularly with respect to starch characteristics. These changes were positively associated with differences in the percent area of chloroplasts that were occupied by starch grains. Elevated temperature increased number and size of starch grains on the 1st day of DT97-4290 which was coordinated with increased minimum chlorophyll fluorescence (F0) and reduced leaf net CO2 assimilation (A). Whereas on the 7th day the elevated temperature treatment showed reduced numbers and sizes of starch grains in chloroplasts and was coordinated with similar levels of F0 and A to the control treatment. Unlike starch dynamics of PI603166 which elevated temperature had little effect on. The genotypic differences in photosynthetic and chloroplast ultrastructure responses to elevated temperatures identified here are of interest for the development of more tolerant soybean cultivars and to facilitate the dissection of molecular mechanisms underpinning heat stress tolerance of soybean photosynthesis.
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Affiliation(s)
- Matthew T. Herritt
- US Arid Land Agricultural Research Center, United States Department of Agriculture, Agricultural Research Service, Maricopa, AZ, United States
| | - Felix B. Fritschi
- Division of Plant Science, University of Missouri, Columbia, MO, United States
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Singh R, Liyanage R, Gupta C, Lay JO, Pereira A, Rojas CM. The Arabidopsis Proteins AtNHR2A and AtNHR2B Are Multi-Functional Proteins Integrating Plant Immunity With Other Biological Processes. FRONTIERS IN PLANT SCIENCE 2020; 11:232. [PMID: 32194606 PMCID: PMC7064621 DOI: 10.3389/fpls.2020.00232] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/18/2019] [Accepted: 02/14/2020] [Indexed: 06/10/2023]
Abstract
AtNHR2A (Arabidopsis thaliana nonhost resistance 2A) and AtNHR2B (Arabidopsis thaliana nonhost resistance 2B) are two proteins that participate in nonhost resistance, a broad-spectrum mechanism of plant immunity that protects plants against the majority of potential pathogens. AtNHR2A and AtNHR2B are localized to the cytoplasm, chloroplasts, and other subcellular compartments of unknown identity. The multiple localizations of AtNHR2A and AtNHR2B suggest that these two proteins are highly dynamic and versatile, likely participating in multiple biological processes. In spite of their importance, the specific functions of AtNHR2A and AtNHR2B have not been elucidated. Thus, to aid in the functional characterization of these two proteins and identify the biological processes in which these proteins operate, we used immunoprecipitation coupled with mass spectrometry (IP-MS) to identify proteins interacting with AtNHR2A and AtNHR2B and to generate their interactome network. Further validation of three of the identified proteins provided new insights into specific pathways and processes related to plant immunity where AtNHR2A and AtNHR2B participate. Moreover, the comprehensive analysis of the AtNHR2A- and AtNHR2B-interacting proteins using published empirical information revealed that the functions of AtNHR2A and AtNHR2B are not limited to plant immunity but encompass other biological processes.
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Affiliation(s)
- Raksha Singh
- Department of Plant Pathology, University of Arkansas, Fayetteville, AR, United States
- Crop Production and Pest Control Research Unit, U.S. Department of Agriculture-Agricultural Research Service, Purdue University, West Lafayette, IN, United States
| | - Rohana Liyanage
- Department of Chemistry and Biochemistry, University of Arkansas, Fayetteville, AR, United States
| | - Chirag Gupta
- Department of Crop, Soil and Environmental Sciences, University of Arkansas, Fayetteville, AR, United States
| | - Jackson O. Lay
- Department of Chemistry and Biochemistry, University of Arkansas, Fayetteville, AR, United States
| | - Andy Pereira
- Department of Crop, Soil and Environmental Sciences, University of Arkansas, Fayetteville, AR, United States
| | - Clemencia M. Rojas
- Department of Plant Pathology, University of Arkansas, Fayetteville, AR, United States
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Rudenko NN, Fedorchuk TP, Terentyev VV, Dymova OV, Naydov IA, Golovko TK, Borisova-Mubarakshina MM, Ivanov BN. The role of carbonic anhydrase α-CA4 in the adaptive reactions of photosynthetic apparatus: the study with α-CA4 knockout plants. PROTOPLASMA 2020; 257:489-499. [PMID: 31784823 DOI: 10.1007/s00709-019-01456-1] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2019] [Accepted: 11/05/2019] [Indexed: 05/24/2023]
Abstract
The role of α-carbonic anhydrase 4 (α-CA4) in photosynthetic machinery functioning in thylakoid membranes was studied, using Arabidopsis thaliana wild type plants (WT) and the plants with knockout of At4g20990 gene encoding α-CA4 (αCA4-mut) grown both in low light (LL, 80 μmol quanta m-2 s-1) or in high light (HL, 400 μmol quanta m-2 s-1). It was found that a content of PsbS protein, one of determinants of non-photochemical quenching of chlorophyll fluorescence, increased in mutants by 30% and 100% compared with WT plants in LL and in HL, respectively. Violaxanthin cycle pigments content and violaxanthin deepoxidase activity in HL were also higher in αCA4-mut than in WT plants. The content of PSII core protein, D1, when adapting to HL, decreased in WT plants and remained unchanged in mutants. This indicates, that the decrease in the content of Lhcb1 and Lhcb2 proteins in HL (Rudenko et al. Protoplasma 55(1):69-78, 2018) in WT plants resulted from decrease of both Photosystem II (PSII) complex content and content of these proteins in this complex, whereas in αCA4-mut plants from the latter process only. The absence of α-CA4 did not affect the rate of electron transport through Photosystem I (PSI) in thylakoids of mutant vs. WT, but led to 50-80% increase in the rate of electron transport from H2O to QA, evidencing the location of α-CA4 close to PSII. The latter difference may raise the question about its causal connection with the difference in the D1 protein content change during adapting to increased illumination in the presence and the absence of α-CA4.
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Affiliation(s)
- Natalia N Rudenko
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Pushchino, Moscow Region, 142290, Russia.
| | - Tatyana P Fedorchuk
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Pushchino, Moscow Region, 142290, Russia
| | - Vasily V Terentyev
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Pushchino, Moscow Region, 142290, Russia
| | - Olga V Dymova
- Institute of Biology, Komi Research Center, Ural Branch, Russian Academy of Sciences, Syktyvkar, 167000, Russia
| | - Ilya A Naydov
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Pushchino, Moscow Region, 142290, Russia
| | - Tamara K Golovko
- Institute of Biology, Komi Research Center, Ural Branch, Russian Academy of Sciences, Syktyvkar, 167000, Russia
| | - Maria M Borisova-Mubarakshina
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Pushchino, Moscow Region, 142290, Russia
| | - Boris N Ivanov
- Institute of Basic Biological Problems of the Russian Academy of Sciences, Federal Research Center "Pushchino Scientific Center for Biological Research of the Russian Academy of Sciences", Pushchino, Moscow Region, 142290, Russia
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Herritt MT, Pauli D, Mockler TC, Thompson AL. Chlorophyll fluorescence imaging captures photochemical efficiency of grain sorghum ( Sorghum bicolor) in a field setting. PLANT METHODS 2020; 16:109. [PMID: 32793296 PMCID: PMC7419188 DOI: 10.1186/s13007-020-00650-0] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2020] [Accepted: 08/01/2020] [Indexed: 05/22/2023]
Abstract
BACKGROUND Photosynthesis is one of the most important biological reactions and forms the basis of crop productivity and yield on which a growing global population relies. However, to develop improved plant cultivars that are capable of increased productivity, methods that can accurately and quickly quantify photosynthetic efficiency in large numbers of genotypes under field conditions are needed. Chlorophyll fluorescence imaging is a rapid, non-destructive measurement that can provide insight into the efficiency of the light-dependent reactions of photosynthesis. RESULTS To test and validate a field-deployed fluorescence imaging system on the TERRA-REF field scanalyzer, leaves of potted sorghum plants were treated with a photosystem II inhibitor, DCMU, to reduce photochemical efficiency (FV/FM). The ability of the fluorescence imaging system to detect changes in fluorescence was determined by comparing the image-derived values with a handheld fluorometer. This study demonstrated that the imaging system was able to accurately measure photochemical efficiency (FV/FM) and was highly correlated (r = 0.92) with the handheld fluorometer values. Additionally, the fluorescence imaging system was able to track the decrease in photochemical efficiency due to treatment of DCMU over a 7 day period. CONCLUSIONS The system's ability to capture the temporal dynamics of the plants' response to this induced stress, which has comparable dynamics to abiotic and biotic stressors found in field environments, indicates the system is operating correctly. With the validation of the fluorescence imaging system, physiological and genetic studies can be undertaken that leverage the fluorescence imaging capabilities and throughput of the field scanalyzer.
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Affiliation(s)
- Matthew T. Herritt
- U.S. Department of Agriculture, Agricultural Research Service, U.S. Arid-Land Agricultural Research Center, Maricopa, AZ 85138 USA
| | - Duke Pauli
- The School of Plant Sciences, University of Arizona, Tucson, AZ 85721 USA
| | - Todd C. Mockler
- The School of Plant Sciences, University of Arizona, Tucson, AZ 85721 USA
- Donald Danforth Plant Science Center, Saint Louis, MO 63132 USA
| | - Alison L. Thompson
- U.S. Department of Agriculture, Agricultural Research Service, U.S. Arid-Land Agricultural Research Center, Maricopa, AZ 85138 USA
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Wessendorf RL, Lu Y. Photosynthetic characterization of transgenic Synechocystis expressing a plant thiol/disulfide-modulating protein. PLANT SIGNALING & BEHAVIOR 2019; 15:1709708. [PMID: 31889463 PMCID: PMC7053882 DOI: 10.1080/15592324.2019.1709708] [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: 10/28/2019] [Revised: 12/18/2019] [Accepted: 12/22/2019] [Indexed: 06/10/2023]
Abstract
A previous study showed that introducing an Arabidopsis thaliana thiol/disulfide-modulating protein, Low Quantum Yield of Photosystem II 1 (LQY1), into the cyanobacterium Synechocystis sp. PCC6803 increased the efficiency of Photosystem II (PSII) photochemistry. In the present study, the authors provided additional evidence for the role of AtLQY1 in improving PSII photochemical efficiency and cell growth. Light response curve analysis showed that AtLQY1-expressing Synechocystis grown at a moderate growth light intensity (50 µmol photons m-2 s-1) had higher minimal, maximal, and variable fluorescence than the empty-vector control, under a wide range of actinic light intensities. Light induction and dark recovery curves demonstrated that AtLQY1-expressing Synechocystis grown at the moderate growth light intensity had higher effective PSII quantum yield, higher photochemical quenching, lower regulated heat dissipation (non-photochemical quenching), low amounts of reduced plastoquinone, and higher amounts of oxidized plastoquinone than the empty-vector control. Furthermore, growth curve analysis indicated that AtLQY1-expressing Synechocystis grew faster than the empty-vector control at the moderate growth light intensity. These results suggest that transgenic expression of AtLQY1 in Synechocystis significantly improves PSII photochemical efficiency and overall cell growth.
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Affiliation(s)
- Ryan L. Wessendorf
- Department of Biological Sciences, Western Michigan University, Kalamazoo, MI, USA
| | - Yan Lu
- Department of Biological Sciences, Western Michigan University, Kalamazoo, MI, USA
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Testone G, Baldoni E, Iannelli MA, Nicolodi C, Di Giacomo E, Pietrini F, Mele G, Giannino D, Frugis G. Transcription Factor Networks in Leaves of Cichorium endivia: New Insights into the Relationship Between Photosynthesis and Leaf Development. PLANTS (BASEL, SWITZERLAND) 2019; 8:E531. [PMID: 31766484 PMCID: PMC6963412 DOI: 10.3390/plants8120531] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/22/2019] [Revised: 11/14/2019] [Accepted: 11/15/2019] [Indexed: 11/18/2022]
Abstract
Cichorium endivia is a leafy crop closely related to Lactuca sativa that comprises two major botanical varieties characterized by a high degree of intraspecific morphological variation: var. latifolium with broad leaves (escarole) and var. crispum with narrow crisp curly leaves (endive). To investigate the relationship between leaf morphology and photosynthetic activity, escaroles and endives were used as a crop model due to the striking morphological diversity of their leaves. We constructed a leaf database for transcription factors (TFs) and photosynthesis-related genes from a refined C. endivia transcriptome and used RNA-seq transcriptomic data from leaves of four commercial endive and escarole cultivars to explore transcription factor regulatory networks. Cluster and gene co-expression network (GCN) analyses identified two main anticorrelated modules that control photosynthesis. Analysis of the GCN network topological properties identified known and novel hub genes controlling photosynthesis, and candidate developmental genes at the boundaries between shape and function. Differential expression analysis between broad and curly leaves suggested three novel TFs putatively involved in leaf shape diversity. Physiological analysis of the photosynthesis properties and gene expression studies on broad and curly leaves provided new insights into the relationship between leaf shape and function.
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Affiliation(s)
- Giulio Testone
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
| | - Elena Baldoni
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Consiglio Nazionale delle Ricerche (CNR), Via Bassini 15, 20133 Milano, Italy
| | - Maria Adelaide Iannelli
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
| | - Chiara Nicolodi
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
| | - Elisabetta Di Giacomo
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
| | - Fabrizio Pietrini
- Istituto di Ricerca sugli Ecosistemi Terrestri (IRET), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km 29,300, 00015 Monterotondo Scalo (Roma), Italy;
| | - Giovanni Mele
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
| | - Donato Giannino
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
| | - Giovanna Frugis
- Istituto di Biologia e Biotecnologia Agraria (IBBA), Operative Unit of Rome, Consiglio Nazionale delle Ricerche (CNR), Via Salaria Km. 29,300, 00015 Monterotondo Scalo (Roma), Italy; (G.T.); (E.B.); (M.A.I.); (C.N.); (E.D.G.); (G.M.); (D.G.)
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Lande NV, Barua P, Gayen D, Kumar S, Chakraborty S, Chakraborty N. Proteomic dissection of the chloroplast: Moving beyond photosynthesis. J Proteomics 2019; 212:103542. [PMID: 31704367 DOI: 10.1016/j.jprot.2019.103542] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2019] [Revised: 09/15/2019] [Accepted: 10/03/2019] [Indexed: 01/28/2023]
Abstract
Chloroplast, the photosynthetic machinery, converts photoenergy to ATP and NADPH, which powers the production of carbohydrates from atmospheric CO2 and H2O. It also serves as a major production site of multivariate pro-defense molecules, and coordinate with other organelles for cell defense. Chloroplast harbors 30-50% of total cellular proteins, out of which 80% are membrane residents and are difficult to solubilize. While proteome profiling has illuminated vast areas of biological protein space, a great deal of effort must be invested to understand the proteomic landscape of the chloroplast, which plays central role in photosynthesis, energy metabolism and stress-adaptation. Therefore, characterization of chloroplast proteome would not only provide the foundation for future investigation of expression and function of chloroplast proteins, but would open up new avenues for modulation of plant productivity through synchronizing chloroplastic key components. In this review, we summarize the progress that has been made to build new understanding of the chloroplast proteome and implications of chloroplast dynamicsing generate metabolic energy and modulating stress adaptation.
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Affiliation(s)
- Nilesh Vikram Lande
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Pragya Barua
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Dipak Gayen
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Sunil Kumar
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Subhra Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India
| | - Niranjan Chakraborty
- National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India.
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45
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Macroorganisation and flexibility of thylakoid membranes. Biochem J 2019; 476:2981-3018. [DOI: 10.1042/bcj20190080] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2019] [Revised: 09/19/2019] [Accepted: 10/03/2019] [Indexed: 02/07/2023]
Abstract
Abstract
The light reactions of photosynthesis are hosted and regulated by the chloroplast thylakoid membrane (TM) — the central structural component of the photosynthetic apparatus of plants and algae. The two-dimensional and three-dimensional arrangement of the lipid–protein assemblies, aka macroorganisation, and its dynamic responses to the fluctuating physiological environment, aka flexibility, are the subject of this review. An emphasis is given on the information obtainable by spectroscopic approaches, especially circular dichroism (CD). We briefly summarise the current knowledge of the composition and three-dimensional architecture of the granal TMs in plants and the supramolecular organisation of Photosystem II and light-harvesting complex II therein. We next acquaint the non-specialist reader with the fundamentals of CD spectroscopy, recent advances such as anisotropic CD, and applications for studying the structure and macroorganisation of photosynthetic complexes and membranes. Special attention is given to the structural and functional flexibility of light-harvesting complex II in vitro as revealed by CD and fluorescence spectroscopy. We give an account of the dynamic changes in membrane macroorganisation associated with the light-adaptation of the photosynthetic apparatus and the regulation of the excitation energy flow by state transitions and non-photochemical quenching.
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46
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Kiss É, Knoppová J, Aznar GP, Pilný J, Yu J, Halada P, Nixon PJ, Sobotka R, Komenda J. A Photosynthesis-Specific Rubredoxin-Like Protein Is Required for Efficient Association of the D1 and D2 Proteins during the Initial Steps of Photosystem II Assembly. THE PLANT CELL 2019; 31:2241-2258. [PMID: 31320483 PMCID: PMC6751121 DOI: 10.1105/tpc.19.00155] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Revised: 06/04/2019] [Accepted: 07/18/2019] [Indexed: 05/20/2023]
Abstract
Oxygenic photosynthesis relies on accessory factors to promote the assembly and maintenance of the photosynthetic apparatus in the thylakoid membranes. The highly conserved membrane-bound rubredoxin-like protein RubA has previously been implicated in the accumulation of both PSI and PSII, but its mode of action remains unclear. Here, we show that RubA in the cyanobacterium Synechocystis sp PCC 6803 is required for photoautotrophic growth in fluctuating light and acts early in PSII biogenesis by promoting the formation of the heterodimeric D1/D2 reaction center complex, the site of primary photochemistry. We find that RubA, like the accessory factor Ycf48, is a component of the initial D1 assembly module as well as larger PSII assembly intermediates and that the redox-responsive rubredoxin-like domain is located on the cytoplasmic surface of PSII complexes. Fusion of RubA to Ycf48 still permits normal PSII assembly, suggesting a spatiotemporal proximity of both proteins during their action. RubA is also important for the accumulation of PSI, but this is an indirect effect stemming from the downregulation of light-dependent chlorophyll biosynthesis induced by PSII deficiency. Overall, our data support the involvement of RubA in the redox control of PSII biogenesis.
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Affiliation(s)
- Éva Kiss
- Laboratory of Photosynthesis, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, 379 01 Třeboň, Czech Republic
| | - Jana Knoppová
- Laboratory of Photosynthesis, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, 379 01 Třeboň, Czech Republic
| | - Guillem Pascual Aznar
- Laboratory of Photosynthesis, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, 379 01 Třeboň, Czech Republic
- Faculty of Science, University of South Bohemia, 37005 České Budějovice, Czech Republic
| | - Jan Pilný
- Laboratory of Photosynthesis, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, 379 01 Třeboň, Czech Republic
| | - Jianfeng Yu
- Wolfson Laboratories, Department of Life Sciences, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom
| | - Petr Halada
- Laboratory of Molecular Structure Characterization, Institute of Microbiology of the Czech Academy of Sciences, 14220 Praha 4-Krc, Czech Republic
| | - Peter J Nixon
- Wolfson Laboratories, Department of Life Sciences, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom
| | - Roman Sobotka
- Laboratory of Photosynthesis, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, 379 01 Třeboň, Czech Republic
- Faculty of Science, University of South Bohemia, 37005 České Budějovice, Czech Republic
| | - Josef Komenda
- Laboratory of Photosynthesis, Centre Algatech, Institute of Microbiology of the Czech Academy of Sciences, 379 01 Třeboň, Czech Republic
- Faculty of Science, University of South Bohemia, 37005 České Budějovice, Czech Republic
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Selles B, Moseler A, Rouhier N, Couturier J. Rhodanese domain-containing sulfurtransferases: multifaceted proteins involved in sulfur trafficking in plants. JOURNAL OF EXPERIMENTAL BOTANY 2019; 70:4139-4154. [PMID: 31055601 DOI: 10.1093/jxb/erz213] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2019] [Accepted: 04/29/2019] [Indexed: 05/25/2023]
Abstract
Sulfur is an essential element for the growth and development of plants, which synthesize cysteine and methionine from the reductive assimilation of sulfate. Besides its incorporation into proteins, cysteine is the building block for the biosynthesis of numerous sulfur-containing molecules and cofactors. The required sulfur atoms are extracted either directly from cysteine by cysteine desulfurases or indirectly after its catabolic transformation to 3-mercaptopyruvate, a substrate for sulfurtransferases (STRs). Both enzymes are transiently persulfidated in their reaction cycle, i.e. the abstracted sulfur atom is bound to a reactive cysteine residue in the form of a persulfide group. Trans-persulfidation reactions occur when sulfur atoms are transferred to nucleophilic acceptors such as glutathione, proteins, or small metabolites. STRs form a ubiquitous, multigenic protein family. They are characterized by the presence of at least one rhodanese homology domain (Rhd), which usually contains the catalytic, persulfidated cysteine. In this review, we focus on Arabidopsis STRs, presenting the sequence characteristics of all family members as well as their biochemical and structural features. The physiological functions of particular STRs in the biosynthesis of molybdenum cofactor, thio-modification of cytosolic tRNAs, arsenate tolerance, cysteine catabolism, and hydrogen sulfide formation are also discussed.
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Affiliation(s)
| | - Anna Moseler
- Université de Lorraine, Inra, IAM, Nancy, France
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48
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Espinoza-Corral R, Heinz S, Klingl A, Jahns P, Lehmann M, Meurer J, Nickelsen J, Soll J, Schwenkert S. Plastoglobular protein 18 is involved in chloroplast function and thylakoid formation. JOURNAL OF EXPERIMENTAL BOTANY 2019; 70:3981-3993. [PMID: 30976809 PMCID: PMC6685665 DOI: 10.1093/jxb/erz177] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Accepted: 04/02/2019] [Indexed: 05/05/2023]
Abstract
Plastoglobules are lipoprotein particles that are found in different types of plastids. They contain a very specific and specialized set of lipids and proteins. Plastoglobules are highly dynamic in size and shape, and are therefore thought to participate in adaptation processes during either abiotic or biotic stresses or transitions between developmental stages. They are suggested to function in thylakoid biogenesis, isoprenoid metabolism, and chlorophyll degradation. While several plastoglobular proteins contain identifiable domains, others provide no structural clues to their function. In this study, we investigate the role of plastoglobular protein 18 (PG18), which is conserved from cyanobacteria to higher plants. Analysis of a PG18 loss-of-function mutant in Arabidopsis thaliana demonstrated that PG18 plays an important role in thylakoid formation; the loss of PG18 results in impaired accumulation, assembly, and function of thylakoid membrane complexes. Interestingly, the mutant accumulated less chlorophyll and carotenoids, whereas xanthophyll cycle pigments were increased. Accumulation of photosynthetic complexes is similarly affected in both a Synechocystis and an Arabidopsis PG18 mutant. However, the ultrastructure of cyanobacterial thylakoids is not compromised by the lack of PG18, probably due to its less complex architecture.
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Affiliation(s)
- Roberto Espinoza-Corral
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
| | - Steffen Heinz
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
| | - Andreas Klingl
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
| | - Peter Jahns
- Plant Biochemistry, Heinrich-Heine-University Düsseldorf, Düsseldorf, Germany
| | - Martin Lehmann
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
| | - Jörg Meurer
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
| | - Jörg Nickelsen
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
| | - Jürgen Soll
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
- Munich Center for Integrated Protein Science CiPSM, Ludwig-Maximilians-Universität München, Munich, Germany
| | - Serena Schwenkert
- Department Biologie I, Botanik, Ludwig-Maximilians-Universität, Planegg-Martinsried, Germany
- Correspondence:
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49
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Forsythe ES, Sharbrough J, Havird JC, Warren JM, Sloan DB. CyMIRA: The Cytonuclear Molecular Interactions Reference for Arabidopsis. Genome Biol Evol 2019; 11:2194-2202. [PMID: 31282937 PMCID: PMC6685490 DOI: 10.1093/gbe/evz144] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 07/01/2019] [Indexed: 12/11/2022] Open
Abstract
The function and evolution of eukaryotic cells depend upon direct molecular interactions between gene products encoded in nuclear and cytoplasmic genomes. Understanding how these cytonuclear interactions drive molecular evolution and generate genetic incompatibilities between isolated populations and species is of central importance to eukaryotic biology. Plants are an outstanding system to investigate such effects because of their two different genomic compartments present in the cytoplasm (mitochondria and plastids) and the extensive resources detailing subcellular targeting of nuclear-encoded proteins. However, the field lacks a consistent classification scheme for mitochondrial- and plastid-targeted proteins based on their molecular interactions with cytoplasmic genomes and gene products, which hinders efforts to standardize and compare results across studies. Here, we take advantage of detailed knowledge about the model angiosperm Arabidopsis thaliana to provide a curated database of plant cytonuclear interactions at the molecular level. CyMIRA (Cytonuclear Molecular Interactions Reference for Arabidopsis) is available at http://cymira.colostate.edu/ and https://github.com/dbsloan/cymira and will serve as a resource to aid researchers in partitioning evolutionary genomic data into functional gene classes based on organelle targeting and direct molecular interaction with cytoplasmic genomes and gene products. It includes 11 categories (and 27 subcategories) of different cytonuclear complexes and types of molecular interactions, and it reports residue-level information for cytonuclear contact sites. We hope that this framework will make it easier to standardize, interpret, and compare studies testing the functional and evolutionary consequences of cytonuclear interactions.
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Affiliation(s)
| | | | - Justin C Havird
- Department of Integrative Biology, University of Texas, Austin
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50
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Jeon BW, Acharya BR, Assmann SM. The Arabidopsis heterotrimeric G-protein β subunit, AGB1, is required for guard cell calcium sensing and calcium-induced calcium release. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2019; 99:231-244. [PMID: 30882980 DOI: 10.1111/tpj.14318] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Revised: 03/04/2019] [Accepted: 03/13/2019] [Indexed: 05/08/2023]
Abstract
Cytosolic calcium concentration ([Ca2+ ]cyt ) and heterotrimeric G-proteins are universal eukaryotic signaling elements. In plant guard cells, extracellular calcium (Cao ) is as strong a stimulus for stomatal closure as the phytohormone abscisic acid (ABA), but underlying mechanisms remain elusive. Here, we report that the sole Arabidopsis heterotrimeric Gβ subunit, AGB1, is required for four guard cell Cao responses: induction of stomatal closure; inhibition of stomatal opening; [Ca2+ ]cyt oscillation; and inositol 1,4,5-trisphosphate (InsP3) production. Stomata in wild-type Arabidopsis (Col) and in mutants of the canonical Gα subunit, GPA1, showed inhibition of stomatal opening and promotion of stomatal closure by Cao . By contrast, stomatal movements of agb1 mutants and agb1/gpa1 double-mutants, as well as those of the agg1agg2 Gγ double-mutant, were insensitive to Cao . These behaviors contrast with ABA-regulated stomatal movements, which involve GPA1 and AGB1/AGG3 dimers, illustrating differential partitioning of G-protein subunits among stimuli with similar ultimate impacts, which may facilitate stimulus-specific encoding. AGB1 knockouts retained reactive oxygen species and NO production, but lost YC3.6-detected [Ca2+ ]cyt oscillations in response to Cao , initiating only a single [Ca2+ ]cyt spike. Experimentally imposed [Ca2+ ]cyt oscillations restored stomatal closure in agb1. Yeast two-hybrid and bimolecular complementation fluorescence experiments revealed that AGB1 interacts with phospholipase Cs (PLCs), and Cao induced InsP3 production in Col but not in agb1. In sum, G-protein signaling via AGB1/AGG1/AGG2 is essential for Cao -regulation of stomatal apertures, and stomatal movements in response to Cao apparently require Ca2+ -induced Ca2+ release that is likely dependent on Gβγ interaction with PLCs leading to InsP3 production.
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Affiliation(s)
- Byeong Wook Jeon
- Department of Biology, Pennsylvania State University, University Park, PA, 16802, USA
- Department of Bioenergy Science and Technology, Chonnam National University, Gwangju, 61186, Korea
| | - Biswa R Acharya
- Department of Biology, Pennsylvania State University, University Park, PA, 16802, USA
| | - Sarah M Assmann
- Department of Biology, Pennsylvania State University, University Park, PA, 16802, USA
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