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Jafari A, Seth K, Werner A, Shi S, Hofmann R, Hoyos-Villegas V. Probing Biological Nitrogen Fixation in Legumes Using Raman Spectroscopy. SENSORS (BASEL, SWITZERLAND) 2024; 24:4944. [PMID: 39123990 PMCID: PMC11314804 DOI: 10.3390/s24154944] [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: 05/28/2024] [Revised: 07/24/2024] [Accepted: 07/27/2024] [Indexed: 08/12/2024]
Abstract
Biological nitrogen fixation (BNF) by symbiotic bacteria plays a vital role in sustainable agriculture. However, current quantification methods are often expensive and impractical. This study explores the potential of Raman spectroscopy, a non-invasive technique, for rapid assessment of BNF activity in soybeans. Raman spectra were obtained from soybean plants grown with and without rhizobia bacteria to identify spectral signatures associated with BNF. δN15 isotope ratio mass spectrometry (IRMS) was used to determine actual BNF percentages. Partial least squares regression (PLSR) was employed to develop a model for BNF quantification based on Raman spectra. The model explained 80% of the variation in BNF activity. To enhance the model's specificity for BNF detection regardless of nitrogen availability, a subsequent elastic net (Enet) regularisation strategy was implemented. This approach provided insights into key wavenumbers and biochemicals associated with BNF in soybeans.
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Affiliation(s)
| | - Kritarth Seth
- AgResearch, Lincoln 7608, New Zealand; (K.S.); (S.S.)
| | - Armin Werner
- Lincoln Agritech, Lincoln University, Lincoln 7647, New Zealand;
| | - Shengjing Shi
- AgResearch, Lincoln 7608, New Zealand; (K.S.); (S.S.)
| | - Rainer Hofmann
- Plant Biology Department, Lincoln University, Lincoln 7647, New Zealand;
| | - Valerio Hoyos-Villegas
- Faculty of Agricultural and Environmental Sciences, McGill University, Montreal, QC H3A 0G4, Canada;
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2
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Lutein/β-carotene ratio in extra virgin olive oil: An easy and rapid quantification method by Raman spectroscopy. Food Chem 2023; 404:134748. [DOI: 10.1016/j.foodchem.2022.134748] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Revised: 10/20/2022] [Accepted: 10/23/2022] [Indexed: 11/06/2022]
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3
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Sarewicz M, Szwalec M, Pintscher S, Indyka P, Rawski M, Pietras R, Mielecki B, Koziej Ł, Jaciuk M, Glatt S, Osyczka A. High-resolution cryo-EM structures of plant cytochrome b 6f at work. SCIENCE ADVANCES 2023; 9:eadd9688. [PMID: 36638176 PMCID: PMC9839326 DOI: 10.1126/sciadv.add9688] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 12/14/2022] [Indexed: 06/17/2023]
Abstract
Plants use solar energy to power cellular metabolism. The oxidation of plastoquinol and reduction of plastocyanin by cytochrome b6f (Cyt b6f) is known as one of the key steps of photosynthesis, but the catalytic mechanism in the plastoquinone oxidation site (Qp) remains elusive. Here, we describe two high-resolution cryo-EM structures of the spinach Cyt b6f homodimer with endogenous plastoquinones and in complex with plastocyanin. Three plastoquinones are visible and line up one after another head to tail near Qp in both monomers, indicating the existence of a channel in each monomer. Therefore, quinones appear to flow through Cyt b6f in one direction, transiently exposing the redox-active ring of quinone during catalysis. Our work proposes an unprecedented one-way traffic model that explains efficient quinol oxidation during photosynthesis and respiration.
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Affiliation(s)
- Marcin Sarewicz
- Faculty of Biochemistry, Biophysics, and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Mateusz Szwalec
- Faculty of Biochemistry, Biophysics, and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Sebastian Pintscher
- Faculty of Biochemistry, Biophysics, and Biotechnology, Jagiellonian University, Kraków, Poland
- Małopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków, Poland
| | - Paulina Indyka
- Małopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków, Poland
- National Synchrotron Radiation Centre SOLARIS, Jagiellonian University, Kraków, Poland
| | - Michał Rawski
- Małopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków, Poland
| | - Rafał Pietras
- Faculty of Biochemistry, Biophysics, and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Bohun Mielecki
- Faculty of Biochemistry, Biophysics, and Biotechnology, Jagiellonian University, Kraków, Poland
| | - Łukasz Koziej
- Małopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków, Poland
| | - Marcin Jaciuk
- Małopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków, Poland
| | - Sebastian Glatt
- Małopolska Centre of Biotechnology (MCB), Jagiellonian University, Kraków, Poland
| | - Artur Osyczka
- Faculty of Biochemistry, Biophysics, and Biotechnology, Jagiellonian University, Kraków, Poland
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4
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Anselmi C, Portarena S, Baldacchini C, Proietti S, Leonardi L, Brugnoli E. One drop only. Easy and rapid Raman evaluation of β-carotene in olive oil and its relevance as an index of olive fly attack. Food Chem 2022; 393:133340. [PMID: 35653993 DOI: 10.1016/j.foodchem.2022.133340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 05/25/2022] [Accepted: 05/26/2022] [Indexed: 11/18/2022]
Abstract
This paper presents, for the first time, a method for the rapid quantification of β-carotene in olive oil by Raman spectroscopy. Using a 532 nm Raman laser source, our procedure requires only one drop (100 µL) of oil, for β-carotene content to be determined. Results show that β-carotene content is associated with the lutein/β-carotene ratio, a parameter whose value describes how healthy the olives were before processing, specifically whether an olive fly attack occurred. Since olive fly attacks are not always visible to the oil producers, this method gives them the means to control the validity of the prevention strategies they adopted.
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Affiliation(s)
- C Anselmi
- CNR-Research Institute on Terrestrial Ecosystems, via G. Marconi 2, 05010 Porano, TR, Italy.
| | - S Portarena
- CNR-Research Institute on Terrestrial Ecosystems, via G. Marconi 2, 05010 Porano, TR, Italy
| | - C Baldacchini
- CNR-Research Institute on Terrestrial Ecosystems, via G. Marconi 2, 05010 Porano, TR, Italy; Department of Ecological and Biological Sciences, University of Tuscia, Largo dell'Università snc, 01100 Viterbo, Italy
| | - S Proietti
- CNR-Research Institute on Terrestrial Ecosystems, via G. Marconi 2, 05010 Porano, TR, Italy
| | - L Leonardi
- CNR-Research Institute on Terrestrial Ecosystems, via G. Marconi 2, 05010 Porano, TR, Italy
| | - E Brugnoli
- CNR-Research Institute on Terrestrial Ecosystems, via G. Marconi 2, 05010 Porano, TR, Italy
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5
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Dhanani T, Dou T, Biradar K, Jifon J, Kurouski D, Patil BS. Raman Spectroscopy Detects Changes in Carotenoids on the Surface of Watermelon Fruits During Maturation. FRONTIERS IN PLANT SCIENCE 2022; 13:832522. [PMID: 35712570 PMCID: PMC9194672 DOI: 10.3389/fpls.2022.832522] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Accepted: 05/06/2022] [Indexed: 05/13/2023]
Abstract
A non-invasive and non-destructive technique, Raman spectroscopy, was explored to distinguish different maturity stages (20, 30, 40, and 50 days after anthesis) of watermelon (Citrullus lanatus) fruits from four cultivars: Fascination, Orange Crisp, Amarillo and Crimson Sweet. Spectral acquisition from the fruit surface was carried out at the wavelength range of 400-2,000 cm-1 using a handheld Raman spectrometer equipped with 830 nm laser excitation source. The spectra were normalized at 1,438 cm-1 which was assigned to CH2 and CH3 vibration. Detecting changes in the spectral features of carotenoids on the surface of watermelon fruits can be used as a marker to monitor the maturity of the fruit. The spectral analysis confirmed the presence of two major carotenoids, lutein and β-carotene, and their intensity decreased upon maturity on the fruit surface. Identification of these pigments was further confirmed by resonance Raman spectra and high-performance liquid chromatography analysis. Results of partial least square discriminant analysis of pre-processed spectra have demonstrated that the method can successfully predict the maturity of watermelon samples with more than 85% accuracy. Analysis of Variance of individual Raman bands has revealed a significant difference among the stages as the level of carotenoids was declined during the ripening of the fruits. Thus, Raman spectral signatures can be used as a versatile tool for the non-invasive determination of carotenoid changes on the watermelon fruits' surface during ripening, thereby enabling effective monitoring of nutritional quality and maturity indices before harvesting the watermelon.
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Affiliation(s)
- Tushar Dhanani
- Vegetable and Fruit Improvement Center, Department of Horticultural Sciences, College Station, TX, United States
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, United States
| | - Tianyi Dou
- Department of Biochemistry, Texas A&M University, College Station, TX, United States
| | - Kishan Biradar
- Vegetable and Fruit Improvement Center, Department of Horticultural Sciences, College Station, TX, United States
| | - John Jifon
- Vegetable and Fruit Improvement Center, Department of Horticultural Sciences, College Station, TX, United States
- Texas A&M AgriLife Research, Weslaco, TX, United States
| | - Dmitry Kurouski
- Department of Biochemistry, Texas A&M University, College Station, TX, United States
- Dmitry Kurouski,
| | - Bhimanagouda S. Patil
- Vegetable and Fruit Improvement Center, Department of Horticultural Sciences, College Station, TX, United States
- Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, United States
- *Correspondence: Bhimanagouda S. Patil,
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Welc R, Luchowski R, Kluczyk D, Zubik-Duda M, Grudzinski W, Maksim M, Reszczynska E, Sowinski K, Mazur R, Nosalewicz A, Gruszecki WI. Mechanisms shaping the synergism of zeaxanthin and PsbS in photoprotective energy dissipation in the photosynthetic apparatus of plants. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2021; 107:418-433. [PMID: 33914375 DOI: 10.1111/tpj.15297] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2021] [Revised: 04/21/2021] [Accepted: 04/23/2021] [Indexed: 05/20/2023]
Abstract
Safe operation of photosynthesis is vital to plants and is ensured by the activity of processes protecting chloroplasts against photo-damage. The harmless dissipation of excess excitation energy is considered to be the primary photoprotective mechanism and is most effective in the combined presence of PsbS protein and zeaxanthin, a xanthophyll accumulated in strong light as a result of the xanthophyll cycle. Here we address the problem of specific molecular mechanisms underlying the synergistic effect of zeaxanthin and PsbS. The experiments were conducted with Arabidopsis thaliana, using wild-type plants, mutants lacking PsbS (npq4), and mutants affected in the xanthophyll cycle (npq1), with the application of molecular spectroscopy and imaging techniques. The results lead to the conclusion that PsbS interferes with the formation of densely packed aggregates of thylakoid membrane proteins, thus allowing easy exchange and incorporation of xanthophyll cycle pigments into such structures. It was found that xanthophylls trapped within supramolecular structures, most likely in the interfacial protein region, determine their photophysical properties. The structures formed in the presence of violaxanthin are characterized by minimized dissipation of excitation energy. In contrast, the structures formed in the presence of zeaxanthin show enhanced excitation quenching, thus protecting the system against photo-damage.
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Affiliation(s)
- Renata Welc
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
- Institute of Agrophysics, Polish Academy of Sciences, Lublin, 20-290, Poland
| | - Rafal Luchowski
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
| | - Dariusz Kluczyk
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
- Department of Plant Physiology and Biophysics, Institute of Biological Sciences, Maria Curie-Sklodowska University, Lublin, 20-033, Poland
| | - Monika Zubik-Duda
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
| | - Wojciech Grudzinski
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
| | - Magdalena Maksim
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
- Institute of Agrophysics, Polish Academy of Sciences, Lublin, 20-290, Poland
| | - Emilia Reszczynska
- Department of Plant Physiology and Biophysics, Institute of Biological Sciences, Maria Curie-Sklodowska University, Lublin, 20-033, Poland
| | - Karol Sowinski
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
| | - Radosław Mazur
- Department of Metabolic Regulation, Faculty of Biology, Institute of Biochemistry, University of Warsaw, Warsaw, 02-096, Poland
| | - Artur Nosalewicz
- Institute of Agrophysics, Polish Academy of Sciences, Lublin, 20-290, Poland
| | - Wieslaw I Gruszecki
- Department of Biophysics, Institute of Physics, Maria Curie-Sklodowska University, Lublin, 20-031, Poland
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Shutova VV, Tyutyaev EV, Veselova TV, Choob VV, Maksimov GV. Dark adaptation and conformations of carotenoids in the cells of Cladophora aegagropila (L). Rabenh. Biophysics (Nagoya-shi) 2017. [DOI: 10.1134/s0006350917050207] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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8
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Ren W, Hu N, Hou X, Zhang J, Guo H, Liu Z, Kong L, Wu Z, Wang H, Li X. Long-Term Overgrazing-Induced Memory Decreases Photosynthesis of Clonal Offspring in a Perennial Grassland Plant. FRONTIERS IN PLANT SCIENCE 2017; 8:419. [PMID: 28484469 PMCID: PMC5401901 DOI: 10.3389/fpls.2017.00419] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2016] [Accepted: 03/10/2017] [Indexed: 05/23/2023]
Abstract
Previous studies of transgenerational plasticity have demonstrated that long-term overgrazing experienced by Leymus chinensis, an ecologically dominant, rhizomatous grass species in eastern Eurasian temperate grassland, significantly affects its clonal growth in subsequent generations. However, there is a dearth of information on the reasons underlying this overgrazing-induced memory effect in plant morphological plasticity. We characterized the relationship between a dwarf phenotype and photosynthesis function decline of L. chinensis from the perspective of leaf photosynthesis by using both field measurement and rhizome buds culture cultivated in a greenhouse. Leaf photosynthetic functions (net photosynthetic rate, stomatal conductance, intercellular carbon dioxide concentration, and transpiration rate) were significantly decreased in smaller L. chinensis individuals that were induced to have a dwarf phenotype by being heavily grazed in the field. This decreased photosynthetic function was maintained a generation after greenhouse tests in which grazing was excluded. Both the response of L. chinensis morphological traits and photosynthetic functions in greenhouse were deceased relative to those in the field experiment. Further, there were significant decreases in leaf chlorophyll content and Rubisco enzyme activities of leaves between bud-cultured dwarf and non-dwarf L. chinensis in the greenhouse. Moreover, gene expression patterns showed that the bud-cultured dwarf L. chinensis significantly down-regulated (by 1.86- to 5.33-fold) a series of key genes that regulate photosynthetic efficiency, stomata opening, and chloroplast development compared with the non-dwarf L. chinensis. This is among the first studies revealing a linkage between long-term overgrazing affecting the transgenerational morphological plasticity of clonal plants and physiologically adaptive photosynthesis function. Overall, clonal transgenerational effects in L. chinensis phenotypic traits heavily involve photosynthetic plasticity.
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Affiliation(s)
- Weibo Ren
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
| | - Ningning Hu
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
| | - Xiangyang Hou
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
| | - Jize Zhang
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
| | - Huiqin Guo
- College of Life Sciences, Inner Mongolia Agricultural UniversityHohhot, China
| | - Zhiying Liu
- College of Ecology and Environment, Inner Mongolia UniversityHohhot, China
| | - Lingqi Kong
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
| | - Zinian Wu
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
| | - Hui Wang
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
| | - Xiliang Li
- Key Laboratory of Grassland Ecology and Restoration of Ministry of Agriculture, National Forage Improvement Center, Institute of Grassland Research, Chinese Academy of Agricultural SciencesHohhot, China
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