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      Semi-Quantitative Targeted Gas Chromatography-Mass Spectrometry Profiling Supports a Late Side-Chain Reductase Cycloartenol-to-Cholesterol Biosynthesis Pathway in Brown Algae

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          Abstract

          Sterols are biologically important molecules that serve as membrane fluidity regulators and precursors of signaling molecules, either endogenous or involved in biotic interactions. There is currently no model of their biosynthesis pathways in brown algae. Here, we benefit from the availability of genome data and gas chromatography-mass spectrometry (GC-MS) sterol profiling using a database of internal standards to build such a model. We expand the set of identified sterols in 11 species of red, brown, and green macroalgae and integrate these new data with genomic data. Our analyses suggest that some metabolic reactions may be conserved despite the loss of canonical eukaryotic enzymes, like the sterol side-chain reductase (SSR). Our findings are consistent with the principle of metabolic pathway drift through enzymatic replacement and show that cholesterol synthesis from cycloartenol may be a widespread but variable pathway among chlorophyllian eukaryotes. Among the factors contributing to this variability, one could be the recruitment of cholesterol biosynthetic intermediates to make signaling molecules, such as the mozukulins. These compounds were found in some brown algae belonging to Ectocarpales, and we here provide a first mozukulin biosynthetic model. Our results demonstrate that integrative approaches can already be used to infer experimentally testable models, which will be useful to further investigate the biological roles of those newly identified algal pathways.

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          Most cited references40

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          phytools: an R package for phylogenetic comparative biology (and other things)

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            A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood.

            The increase in the number of large data sets and the complexity of current probabilistic sequence evolution models necessitates fast and reliable phylogeny reconstruction methods. We describe a new approach, based on the maximum- likelihood principle, which clearly satisfies these requirements. The core of this method is a simple hill-climbing algorithm that adjusts tree topology and branch lengths simultaneously. This algorithm starts from an initial tree built by a fast distance-based method and modifies this tree to improve its likelihood at each iteration. Due to this simultaneous adjustment of the topology and branch lengths, only a few iterations are sufficient to reach an optimum. We used extensive and realistic computer simulations to show that the topological accuracy of this new method is at least as high as that of the existing maximum-likelihood programs and much higher than the performance of distance-based and parsimony approaches. The reduction of computing time is dramatic in comparison with other maximum-likelihood packages, while the likelihood maximization ability tends to be higher. For example, only 12 min were required on a standard personal computer to analyze a data set consisting of 500 rbcL sequences with 1,428 base pairs from plant plastids, thus reaching a speed of the same order as some popular distance-based and parsimony algorithms. This new method is implemented in the PHYML program, which is freely available on our web page: http://www.lirmm.fr/w3ifa/MAAS/.
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              SeaView version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building.

              We present SeaView version 4, a multiplatform program designed to facilitate multiple alignment and phylogenetic tree building from molecular sequence data through the use of a graphical user interface. SeaView version 4 combines all the functions of the widely used programs SeaView (in its previous versions) and Phylo_win, and expands them by adding network access to sequence databases, alignment with arbitrary algorithm, maximum-likelihood tree building with PhyML, and display, printing, and copy-to-clipboard of rooted or unrooted, binary or multifurcating phylogenetic trees. In relation to the wide present offer of tools and algorithms for phylogenetic analyses, SeaView is especially useful for teaching and for occasional users of such software. SeaView is freely available at http://pbil.univ-lyon1.fr/software/seaview.
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                Author and article information

                Contributors
                Journal
                Front Plant Sci
                Front Plant Sci
                Front. Plant Sci.
                Frontiers in Plant Science
                Frontiers Media S.A.
                1664-462X
                27 April 2021
                2021
                : 12
                : 648426
                Affiliations
                [1] 1CNRS, Integrative Biology of Marine Models (LBI2M, UMR8227), Station Biologique de Roscoff (SBR), Sorbonne Université , Roscoff, France
                [2] 2CNRS, Plateforme Corsaire-METABOMER (FR2424), Station Biologique de Roscoff, Sorbonne Université , Roscoff, France
                [3] 3Univ Rennes, Inria, CNRS, IRISA, Equipe Dyliss , Rennes, France
                Author notes

                Edited by: Juliette Jouhet, UMR5168 Laboratoire de Physiologie Cellulaire Vegetale (LPCV), France

                Reviewed by: Hubert Schaller, UPR2357 Institut de Biologie Moléculaire des Plantes (IBMP), France; Xin Wang, Miami University, United States

                *Correspondence: Gabriel V. Markov, gabriel.markov@ 123456sb-roscoff.fr

                Deceased

                This article was submitted to Marine and Freshwater Plants, a section of the journal Frontiers in Plant Science

                Article
                10.3389/fpls.2021.648426
                8112355
                7f1a610b-0d1b-4fcd-a278-85e2e8a682b1
                Copyright © 2021 Girard, Lanneau, Delage, Leroux, Belcour, Got, Collén, Boyen, Siegel, Dittami, Leblanc and Markov.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 31 December 2020
                : 06 April 2021
                Page count
                Figures: 4, Tables: 0, Equations: 0, References: 41, Pages: 10, Words: 6555
                Funding
                Funded by: French Government
                Funded by: National Research Agency investment expenditure program IDEALG
                Award ID: ANR-10-BTBR-04
                Funded by: Région Bretagne 10.13039/501100011697
                Award ID: SAD 2016 - METALG (9673)
                Funded by: European Marine Biological Resource Centre (EMBRC-ERIC)
                Funded by: EMBRC-France
                Award ID: ANR-10-INSB-02
                Funded by: Corsaire-Metabomer
                Categories
                Plant Science
                Original Research

                Plant science & Botany
                sterol,brown alga,gas chromatography-mass spectrometry,biosynthesis pathway evolution,side-chain reduction

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