Photosynthesis Research最新文献

{"title":"Editorial Expression of Concern: Excess copper induces anoxygenic photosynthesis in Anabaena doliolum: A homology based proteomic assessment of its survival strategy.","authors":"","doi":"10.1007/s11120-025-01146-5","DOIUrl":"https://doi.org/10.1007/s11120-025-01146-5","url":null,"abstract":"","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"25"},"PeriodicalIF":2.9,"publicationDate":"2025-03-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143731240","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Photoperiod-mediated rapid generation advancement in soybean (Glycine max (L.) Merr.).","authors":"Ambika Rajendran, Ayyagari Ramlal, Dhandapani Raju, Manisha Saini, Pinkal Bishnoi, Sreeramanan Subramaniam","doi":"10.1007/s11120-025-01144-7","DOIUrl":"https://doi.org/10.1007/s11120-025-01144-7","url":null,"abstract":"<p><p>Soybean is a short-day crop and the long-duration variety takes 120 days for maturity. A protocol for rapid generation advancement in soybean breeding is worthwhile keeping in view its utility. The study emphasizes standardisation of physical conditions, especially using warm white and cool white light-emitting diodes to hasten flowering and pod setting in soybean (DS9712 genotype). Complete open flowers were obtained with a 16 L/8D (dark/light) photoperiod in 30 days. The results also highlighted the application of interventions of physical conditions and inputs, especially during the reproductive phase to shorten the seed-to-seed generation time by around 15 days in a low-cost method for soybean breeding. Breeding will be revolutionised in case economic speed breeding is combined with modern breeding technologies, thereby resulting in more generations per year.</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"24"},"PeriodicalIF":2.9,"publicationDate":"2025-03-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143664282","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Assembly of allophycocyanin from individual subunits: involvement of apo-form in the formation of trimers.","authors":"Daria V Bodunova, Daniil A Gvozdev, Olesya V Bukach, Svetlana V Sidorenko, Kristina V Perfilova, Li Yu, Song Qin, Nikolai N Sluchanko, Baosheng Ge, Eugene G Maksimov","doi":"10.1007/s11120-025-01145-6","DOIUrl":"https://doi.org/10.1007/s11120-025-01145-6","url":null,"abstract":"<p><p>In cyanobacteria and red algae, allophycocyanin (APC), as well as other phycobiliproteins, is involved in the energy transfer of photosystems. Since APC is a potent fluorescent protein for imaging and biomedical applications, it is necessary to obtain purified protein in large quantities, which is currently possible by biosynthesis in bacterial systems. Here we emphasize the challenges of obtaining the trimeric form of the protein from α-APC and β-APC subunits of allophycocyanin in vitro. This approach allowed us to study the individual subunits and to perform assembly of allophycocyanin trimers in vitro. Using different spectroscopic techniques, we detected the heterogeneity of the synthesized β-APC and showed the possibility that not only holo-forms may be involved in trimer formation. Data allowed us to provide additional arguments in favor of excitonic coupling of chromophores in APC trimers.</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"23"},"PeriodicalIF":2.9,"publicationDate":"2025-03-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143650008","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Far-red light-driven photoautotrophy of chlorophyll f-producing cyanobacterium without red-shifted phycobilisome core complex.","authors":"Da Huang, Tong Wei, Min Chen, Shu-Jun Chen, Jia-Yue Wu, Lu-Dan Zhang, Hai-Feng Xu, Guo-Zheng Dai, Zhong-Chun Zhang, Bao-Sheng Qiu","doi":"10.1007/s11120-025-01143-8","DOIUrl":"https://doi.org/10.1007/s11120-025-01143-8","url":null,"abstract":"<p><p>Chlorophyll (Chl) f production expands oxygenic photosynthesis of some cyanobacteria into the far-red light (FRL) region through reconstructed FRL-allophycocyanin (APC) cores and Chl f-containing photosystems. Presently, a unicellular cyanobacterium was isolated for studying FRL photoacclimation (FaRLiP) and classified as a new species Altericista leshanensis. It uses additional Chl f and FRL-APC cores, with retained white light (WL)-phycobiliproteins to thrive FRL conditions. Marker-less deletion of FaRLiP-apcE2 gene was constructed using CRISPR-Cpf1 system. This genetic manipulation has no significant effects on the expression of genes in the FaRLiP gene cluster, including adjacent apc genes under FRL conditions. The function-loss mutant cells cannot assemble FRL-APC cores, and show the decreased growth rate and Chl f production under FRL conditions. Interestingly, the expression levels of phycocyanin (PC) subunits (cpc) and photosystem II D1 proteins (psbA2) are significantly increased in mutant cells under FRL conditions. These results suggest that FRL acclimation in the mutant cells has a different photosynthetic apparatus due to the lack of FRL-APC cores. The alternative strategy of FaRLiP provides additional evidence of flexible pathways towards the potential application of Chl f and associated biotechnology.</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"22"},"PeriodicalIF":2.9,"publicationDate":"2025-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143597574","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"PhoTorch: a robust and generalized biochemical photosynthesis model fitting package based on PyTorch.","authors":"Tong Lei, Kyle T Rizzo, Brian N Bailey","doi":"10.1007/s11120-025-01136-7","DOIUrl":"https://doi.org/10.1007/s11120-025-01136-7","url":null,"abstract":"<p><p>Advancements in artificial intelligence (AI) have greatly benefited plant phenotyping and predictive modeling. However, unrealized opportunities exist in leveraging AI advancements in model parameter optimization for parameter fitting in complex biophysical models. This work developed novel software, PhoTorch, for fitting parameters of the Farquhar, von Caemmerer, and Berry (FvCB) biochemical photosynthesis model based on the parameter optimization components of the popular AI framework PyTorch. The primary novelty of the software lies in its computational efficiency, robustness of parameter estimation, and flexibility in handling different types of response curves and sub-model functional forms. PhoTorch can fit both steady-state and non-steady-state gas exchange data with high efficiency and accuracy. Its flexibility allows for optional fitting of temperature and light response parameters, and can simultaneously fit light response curves and standard <math><mrow><mi>A</mi> <mo>/</mo> <msub><mi>C</mi> <mi>i</mi></msub> </mrow> </math> curves. These features are not available within presently available <math><mrow><mi>A</mi> <mo>/</mo> <msub><mi>C</mi> <mi>i</mi></msub> </mrow> </math> curve fitting packages. Results illustrated the robustness and efficiency of PhoTorch in fitting <math><mrow><mi>A</mi> <mo>/</mo> <msub><mi>C</mi> <mi>i</mi></msub> </mrow> </math> curves with high variability and some level of artifacts and noise. PhoTorch is more than four times faster than benchmark software, which may be relevant when processing many non-steady-state <math><mrow><mi>A</mi> <mo>/</mo> <msub><mi>C</mi> <mi>i</mi></msub> </mrow> </math> curves with hundreds of data points per curve. PhoTorch provides researchers from various fields with a reliable and efficient tool for analyzing photosynthetic data. The Python package is openly accessible from the repository: https://github.com/GEMINI-Breeding/photorch .</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"21"},"PeriodicalIF":2.9,"publicationDate":"2025-03-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143567945","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Spectral response of gross primary production to in situ canopy light absorption coefficient of chlorophyll.","authors":"Anatoly A Gitelson, Andrés Viña, Alexei Solovchenko","doi":"10.1007/s11120-025-01142-9","DOIUrl":"https://doi.org/10.1007/s11120-025-01142-9","url":null,"abstract":"<p><p>The amount of absorbed light is one of the main factors governing plant photosynthesis, and ultimately, the gross primary production (GPP) of vegetation. Since canopy chlorophyll (Chl) content defines the amount of light that can be absorbed (thus the amount of energy available for photosynthesis), it is representative of the status of the photosynthetic apparatus and directly relates with vegetation productivity. The non-invasive assessment of these traits is the foundation of proximal and remote sensing and of high-throughput phenotyping of plants. The goal of this study is to explore: (i) the response of GPP to the absorption coefficient of Chl derived from canopy reflectance (i.e., assessed in situ) across the PAR and red-edge spectral regions in two plant species with contrasting biochemistry, structural properties, and photosynthetic pathway; (ii) the efficiency of contrasting plants in absorbing radiation and converting it into photosynthetic carbon uptake. The spectral composition of light absorbed by vegetation and the contribution of each spectral range to GPP were quantified. The highest responses of GPP to the Chl absorption coefficient occurred in the red-edge and green spectral regions. More notably, in contrasting plant species the GPP responses in the visible and red-edge spectral regions were almost identical and close to the quantum yield of CO₂ fixation. This potentially opens a novel avenue for the remote assessment of the quantum yield of photosynthesis. The uncertainty of the relationship between GPP and Chl absorption coefficient and its impact on the estimation of photosynthetic rates was also quantified.</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"20"},"PeriodicalIF":2.9,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143459263","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Quantifying photosynthetic restrictions.","authors":"Chandra Bellasio","doi":"10.1007/s11120-024-01129-y","DOIUrl":"10.1007/s11120-024-01129-y","url":null,"abstract":"<p><p>Quantifying the effect of factors controlling CO₂ assimilation is crucial for understanding plant functions and developing strategies to improve productivity. Methods exist in numerous variants and produce various indicators, such as limitations, contributions, and sensitivity, often causing confusion. Simplifications and common mistakes lead to overrating the importance of diffusion-whether across stomata or the mesophyll. This work develops a consistent set of definitions that integrates all previous methods, offering a generalised framework for quantifying restrictions. Ten worked examples are provided in a free downloadable spreadsheet, demonstrating the simplicity and applicability to a wide range of questions.</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"19"},"PeriodicalIF":2.9,"publicationDate":"2025-02-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11835928/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143441678","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"John Raven, FRS, FRSE: a truly great innovator in plant physiology, photosynthesis and much more.","authors":"A W D Larkum, P G Falkowski, Dianne Edwards, C B Osmond, H Lambers, P Sanchez-Baracaldo, R J Ritchie, J W Runcie, P J Ralph, M Westoby, S Maberly, H Griffiths, F A Smith, J Beardall","doi":"10.1007/s11120-025-01139-4","DOIUrl":"10.1007/s11120-025-01139-4","url":null,"abstract":"&lt;p&gt;&lt;p&gt;This is a tribute to a truly inspirational plant biologist, Prof. John A. Raven, FRS, FRSE (25th June 1941- 23rd May 2024), who died at the age of 82. He was a leader in the field of evolution and physiology of algae and land plants. His research touched on many areas including photosynthesis, ion transport, carbon utilisation, mineral use, such as silicon, iron and molybdenum, the evolution of phytoplankton, the evolution of root systems, the impact of global change, especially on the acidification of the oceans, carbon gain and water use in early land plants, and ways of detecting extraterrestrial photosynthesis. Beginning his research career in the Botany School, University of Cambridge, John studied ion uptake in a giant algal cell. This was at the time of great strides brought about by Peter Mitchell (1920-1992) in elucidating the role of energy generation in mitochondria and chloroplasts and the coupling of ion transport systems to energy generation. With Enid MacRobbie and Andrew Smith, John pioneered early work on the involvement of ion transport in the growth and metabolism of plant cells.On leaving Cambridge John took up a lectureship at the University of Dundee in 1971, where he was still attached upon his death. His primary focus over the years, with one of us (Paul Falkowski), was on phytoplankton, the photosynthetic microalgae of the oceans. Still, his publication list of 5 books and over 600 scientific papers spans a very broad range. The many highly cited papers (see Table 1) attest to an outstanding innovator, who influenced a multitude of students and coworkers and a very wide readership worldwide. At the personal level, John Raven was a wonderful human being; he had an extraordinary memory, dredging up facts and little-known scientific papers, like a scientific magician, but at the same time making humorous jokes and involving his colleagues in fun and sympathetic appreciation. Table 1 Ten best cited articles (from google scholar) Citations Date Aquatic Photosynthesis, 3rd Edition P.G. Falkowski & J.A. Raven Princeton University Press, 2013 3854 2013 The evolution of modern eukaryotic phytoplankton P.G. Falkowski, M.E. Katz, A.H. Knoll, A. Quigg, J.A. Raven, et al Science 305, 354-360 1790 2004 CO&lt;sub&gt;2&lt;/sub&gt; concentrating mechanisms in algae: mechanisms, environmental modulation, and evolution M. Giordano, J. Beardall & J.A. Raven Annu. Rev. Plant Biol. 56 (1), 99-131 1648 2005 Algae as nutritional food sources: revisiting our understanding M.L. Wells, P. Potin, J.S. Craigie, J.A. Raven, S.S. Merchant, et al Journal of applied phycology 29, 949-982 1527 2017 Plant Nutrient acquisition strategies change with soil age H. Lambers, J.A. Raven, G.R. Shaver & S.E. Smith Trends in ecology & evolution 23, 95-103 1488 2008 Ocean acidification due to increasing atmospheric carbon dioxide J. Raven, K. Caldeira, H. Elderfield, O. Hoegh-Guldberg, P. Liss, et al The Royal Society, Policy Document, June 2005 1470 2005 Phytoplankton in ","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 2","pages":"18"},"PeriodicalIF":2.9,"publicationDate":"2025-02-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11832558/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143441615","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Quantifying chlorophylls in melanic lichens: the necessity of separating the absorbance of melanin and chlorophyll.","authors":"Knut Asbjørn Solhaug, Yngvar Gauslaa","doi":"10.1007/s11120-025-01141-w","DOIUrl":"10.1007/s11120-025-01141-w","url":null,"abstract":"<p><p>This study investigates extraction and quantification techniques for chlorophylls (Chl) in melanic lichens, with an emphasis on distinguishing between Chl and melanin absorbance during spectrophotometric assessments. We compared various extraction protocols, involving solvents such as dimethyl sulfoxide (DMSO) and acetone, and methods including intact thalli extraction, mortar grinding, and ball mill pulverizing. Three correction methods for melanic absorbance were also compared. Our findings indicated that DMSO was superior for Chl extraction compared to acetone, and differences in efficiency among the DMSO methods were minor. Correction for co-extracted melanin was deemed vital for accurate Chl quantification. The use of a C18 minicolumn was found to be effective for separating Chl and melanic pigments, providing reliable measurements of total Chl and Chl a/b-ratios. This method offers a simple cost-effective approach for Chl quantification in extracts containing a mix of Chl and other red light-absorbing pigments.</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 1","pages":"17"},"PeriodicalIF":2.9,"publicationDate":"2025-02-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11821740/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143399580","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Machine learning models for segmentation and classification of cyanobacterial cells.","authors":"Clair A Huffine, Zachary L Maas, Anton Avramov, Christian M Brininger, Jeffrey C Cameron, Jian Wei Tay","doi":"10.1007/s11120-025-01140-x","DOIUrl":"10.1007/s11120-025-01140-x","url":null,"abstract":"<p><p>Timelapse microscopy has recently been employed to study the metabolism and physiology of cyanobacteria at the single-cell level. However, the identification of individual cells in brightfield images remains a significant challenge. Traditional intensity-based segmentation algorithms perform poorly when identifying individual cells in dense colonies due to a lack of contrast between neighboring cells. Here, we describe a newly developed software package called Cypose which uses machine learning (ML) models to solve two specific tasks: segmentation of individual cyanobacterial cells, and classification of cellular phenotypes. The segmentation models are based on the Cellpose framework, while classification is performed using a convolutional neural network named Cyclass. To our knowledge, these are the first developed ML-based models for cyanobacteria segmentation and classification. When compared to other methods, our segmentation models showed improved performance and were able to segment cells with varied morphological phenotypes, as well as differentiate between live and lysed cells. We also found that our models were robust to imaging artifacts, such as dust and cell debris. Additionally, the classification model was able to identify different cellular phenotypes using only images as input. Together, these models improve cell segmentation accuracy and enable high-throughput analysis of dense cyanobacterial colonies and filamentous cyanobacteria.</p>","PeriodicalId":20130,"journal":{"name":"Photosynthesis Research","volume":"163 1","pages":"16"},"PeriodicalIF":2.9,"publicationDate":"2025-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11807057/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143374548","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}