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      The photosystem I supercomplex from a primordial green alga Ostreococcus tauri harbors three light-harvesting complex trimers

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          Abstract

          As a ubiquitous picophytoplankton in the ocean and an early-branching green alga, Ostreococcus tauri is a model prasinophyte species for studying the functional evolution of the light-harvesting systems in photosynthesis. Here, we report the structure and function of the O. tauri photosystem I (PSI) supercomplex in low light conditions, where it expands its photon-absorbing capacity by assembling with the light-harvesting complexes I (LHCI) and a prasinophyte-specific light-harvesting complex (Lhcp). The architecture of the supercomplex exhibits hybrid features of the plant-type and the green algal-type PSI supercomplexes, consisting of a PSI core, an Lhca1-Lhca4-Lhca2-Lhca3 belt attached on one side and an Lhca5-Lhca6 heterodimer associated on the other side between PsaG and PsaH. Interestingly, nine Lhcp subunits, including one Lhcp1 monomer with a phosphorylated amino-terminal threonine and eight Lhcp2 monomers, oligomerize into three trimers and associate with PSI on the third side between Lhca6 and PsaK. The Lhcp1 phosphorylation and the light-harvesting capacity of PSI were subjected to reversible photoacclimation, suggesting that the formation of OtPSI-LHCI-Lhcp supercomplex is likely due to a phosphorylation-dependent mechanism induced by changes in light intensity. Notably, this supercomplex did not exhibit far-red peaks in the 77 K fluorescence spectra, which is possibly due to the weak coupling of the chlorophyll a603- a609 pair in OtLhca1-4.

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              CTFFIND4: Fast and accurate defocus estimation from electron micrographs.

              CTFFIND is a widely-used program for the estimation of objective lens defocus parameters from transmission electron micrographs. Defocus parameters are estimated by fitting a model of the microscope's contrast transfer function (CTF) to an image's amplitude spectrum. Here we describe modifications to the algorithm which make it significantly faster and more suitable for use with images collected using modern technologies such as dose fractionation and phase plates. We show that this new version preserves the accuracy of the original algorithm while allowing for higher throughput. We also describe a measure of the quality of the fit as a function of spatial frequency and suggest this can be used to define the highest resolution at which CTF oscillations were successfully modeled.
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                Author and article information

                Contributors
                Role: Reviewing Editor
                Role: Senior Editor
                Journal
                eLife
                Elife
                eLife
                eLife
                eLife Sciences Publications, Ltd
                2050-084X
                23 March 2023
                2023
                : 12
                : e84488
                Affiliations
                [1 ] Division of Environmental Photobiology, National Institute for Basic Biology ( https://ror.org/05q8wtt20) Okazaki Japan
                [2 ] National Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences ( https://ror.org/01tyv8576) Beijing China
                [3 ] College of Life Sciences, University of Chinese Academy of Sciences ( https://ror.org/05qbk4x57) Beijing China
                [4 ] Department of Basic Biology, School of Life Science, the Graduate University for Advanced Studies ( https://ror.org/0516ah480) Okazaki Japan
                [5 ] National Institute for Physiological Sciences, National Institutes of Natural Sciences ( https://ror.org/048v13307) Okazaki Japan
                [6 ] Exploratory Research Center on Life and Living Systems (ExCELLS), National Institutes of Natural Sciences ( https://ror.org/055n47h92) Okazaki Japan
                Michigan State University ( https://ror.org/05hs6h993) United States
                University of Freiburg ( https://ror.org/0245cg223) Germany
                Michigan State University ( https://ror.org/05hs6h993) United States
                Michigan State University ( https://ror.org/05hs6h993) United States
                The University of British Columbia ( https://ror.org/03rmrcq20) Canada
                Author notes
                [†]

                These authors contributed equally to this work.

                [‡]

                Shenzhen Jingtai Technology Co. Ltd, Shenzhen, China.

                Author information
                https://orcid.org/0000-0001-6068-1328
                https://orcid.org/0000-0001-9446-3652
                https://orcid.org/0000-0001-5502-9474
                https://orcid.org/0000-0002-3028-3203
                Article
                84488
                10.7554/eLife.84488
                10097422
                36951548
                28159864-69c1-4824-9a66-9a72d33c8a19
                © 2023, Ishii, Shan et al

                This article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.

                History
                : 26 October 2022
                : 22 March 2023
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100001691, Japan Society for the Promotion of Science;
                Award ID: 21H04778
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100001691, Japan Society for the Promotion of Science;
                Award ID: 21H05040
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100001809, National Natural Science Foundation of China;
                Award ID: 31925024
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100002367, Chinese Academy of Sciences;
                Award ID: XDB37020101
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100002367, Chinese Academy of Sciences;
                Award ID: YSBR-015
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100012166, National Key Research and Development Program of China;
                Award ID: 2017YFA0503702
                Award Recipient :
                The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
                Categories
                Research Article
                Plant Biology
                Computational and Systems Biology
                Custom metadata
                The structure of the photosystem I (PSI) supercomplex in Ostreococcus tauri has revealed a unique hybrid of both plant-type and green algal-type PSI supercomplexes with three Lhcp trimers located at the ‘state 2’ position.

                Life sciences
                photosystem i,ostreococcus tauri,prasinophyte,state transitions,light-harvesting complex,phosphorylation,other

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