Diversification of the type IV filament superfamily into machines for adhesion, protein secretion, DNA uptake, and motility von Denise, Rémi, Abby, Sophie S, Rocha, Eduardo P C

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MacSyFinder: a program to mine genomes for molecular systems with an application to CRISPR-Cas systems von Abby, Sophie S, Néron, Bertrand, Ménager, Hervé, Touchon, Marie, Rocha, Eduardo P C

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The non-flagellar type III secretion system evolved from the bacterial flagellum and diversified into host-cell adapted systems von Abby, Sophie S, Rocha, Eduardo P C

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Advances in bacterial pathways for the biosynthesis of ubiquinone von Abby, Sophie Saphia, Kazemzadeh, Katayoun, Vragniau, Charles, Pelosi, Ludovic, Pierrel, Fabien

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Identification of protein secretion systems in bacterial genomes von Abby, Sophie S., Cury, Jean, Guglielmini, Julien, Néron, Bertrand, Touchon, Marie, Rocha, Eduardo P. C.

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Proteomics and comparative genomics of Nitrososphaera viennensis reveal the core genome and adaptations of archaeal ammonia oxidizers von Melina Keroua, Pierre Offre, Valledor, Luis, Abby, Sophie S., Melcher, Michael, Nagler, Matthias, Weckwerth, Wolfram, Schleper, Christa

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Structural Space of the Duffy Antigen/Receptor for Chemokines’ Intrinsically Disordered Ectodomain 1 Explored by Temperature Replica-Exchange Molecular Dynamics Simulations von Kranjc, Agata, Narwani, Tarun Jairaj, Abby, Sophie S, de Brevern, Alexandre G

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Ancestral Reconstructions Decipher Major Adaptations of Ammonia-Oxidizing Archaea upon Radiation into Moderate Terrestrial and Marine Environments von Abby, Sophie S., Kerou, Melina, Schleper, Christa

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Phylogenetic modeling of lateral gene transfer reconstructs the pattern and relative timing of speciations von Szöllősi, Gergely J, Boussau, Bastien, Abby, Sophie S, Tannier, Eric, Daubin, Vincent

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Structural Reconstruction of E. coli Ubi Metabolon Using an AlphaFold2-Based Computational Framework von Launay, Romain, Chobert, Sophie-Carole, Abby, Sophie S., Pierrel, Fabien, André, Isabelle, Esque, Jérémy

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The Evolution of Protein Secretion Systems by Co-option and Tinkering of Cellular Machineries von Denise, Rémi, Abby, Sophie S., Rocha, Eduardo P.C.

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Lateral gene transfer as a support for the tree of life von Abby, Sophie S., Tannier, Eric, Gouy, Manolo, Daubin, Vincent

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Candidatus Nitrosocaldus cavascurensis, an Ammonia Oxidizing, Extremely Thermophilic Archaeon with a Highly Mobile Genome von Abby, Sophie S, Melcher, Michael, Kerou, Melina, Krupovic, Mart, Stieglmeier, Michaela, Rossel, Claudia, Pfeifer, Kevin, Schleper, Christa

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Geochemical transition zone powering microbial growth in subsurface sediments von Zhao, Rui, Mogollón, José M., Abby, Sophie S., Schleper, Christa, Biddle, Jennifer F., Roerdink, Desiree L., Thorseth, Ingunn H., Jørgensen, Steffen L.

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Key components of the eight classes of type IV secretion systems involved in bacterial conjugation or protein secretion von Guglielmini, Julien, Néron, Bertrand, Abby, Sophie S., Garcillán-Barcia, María Pilar, la Cruz, Fernando de, Rocha, Eduardo P. C.

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Towards Molecular Understanding of the Functional Role of UbiJ-UbiK2 Complex in Ubiquinone Biosynthesis by Multiscale Molecular Modelling Studies von Launay, Romain, Teppa, Elin, Martins, Carla, Abby, Sophie S., Pierrel, Fabien, André, Isabelle, Esque, Jérémy

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Detecting lateral gene transfers by statistical reconciliation of phylogenetic forests von Abby, Sophie S, Tannier, Eric, Gouy, Manolo, Daubin, Vincent

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Diversification of Ubiquinone Biosynthesis via Gene Duplications, Transfers, Losses, and Parallel Evolution von Kazemzadeh, Katayoun, Pelosi, Ludovic, Chenal, Clothilde, Chobert, Sophie-Carole, Hajj Chehade, Mahmoud, Jullien, Margaux, Flandrin, Laura, Schmitt, William, He, Qiqi, Bouvet, Emma, Jarzynka, Manon, Varoquaux, Nelle, Junier, Ivan, Pierrel, Fabien, Abby, Sophie S

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Ammonia Oxidation by the Arctic Terrestrial Thaumarchaeote Candidatus Nitrosocosmicus arcticus Is Stimulated by Increasing Temperatures von Alves, Ricardo J Eloy, Kerou, Melina, Zappe, Anna, Bittner, Romana, Abby, Sophie S, Schmidt, Heiko A, Pfeifer, Kevin, Schleper, Christa

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Genome wide transcriptomic analysis of the soil ammonia oxidizing archaeon Nitrososphaera viennensis upon exposure to copper limitation von Reyes, Carolina, Hodgskiss, Logan H., Kerou, Melina, Pribasnig, Thomas, Abby, Sophie S., Bayer, Barbara, Kraemer, Stephan M., Schleper, Christa

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