Search Results - "Enault, François"

WIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs by Galiez, Clovis, Siebert, Matthias, Enault, François, Vincent, Jonathan, Söding, Johannes

“…WIsH predicts prokaryotic hosts of phages from their genomic sequences. It achieves 63% mean accuracy when predicting the host genus among 20 genera for 3…”
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Metavir 2: new tools for viral metagenome comparison and assembled virome analysis by Roux, Simon, Tournayre, Jeremy, Mahul, Antoine, Debroas, Didier, Enault, François

“…Metagenomics, based on culture-independent sequencing, is a well-fitted approach to provide insights into the composition, structure and dynamics of…”
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Evolution and diversity of the Microviridae viral family through a collection of 81 new complete genomes assembled from virome reads by Roux, Simon, Krupovic, Mart, Poulet, Axel, Debroas, Didier, Enault, François

“…Recent studies suggest that members of the Microviridae (a family of ssDNA bacteriophages) might play an important role in a broad spectrum of environments, as…”
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Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages by Barylski, Jakub, Enault, François, Dutilh, Bas E., Schuller, Margo B.P., Edwards, Robert A., Gillis, Annika, Klumpp, Jochen, Knezevic, Petar, Krupovic, Mart, Kuhn, Jens H., Lavigne, Rob, Oksanen, Hanna M., Sullivan, Matthew B., Jang, Ho Bin, Simmonds, Peter, Aiewsakun, Pakorn, Wittmann, Johannes, Tolstoy, Igor, Brister, J. Rodney, Kropinski, Andrew M., Adriaenssens, Evelien M.

“…Tailed bacteriophages are the most abundant and diverse viruses in the world, with genome sizes ranging from 10 kbp to over 500 kbp. Yet, due to historical…”
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Metavir: a web server dedicated to virome analysis by Roux, Simon, Faubladier, Michaël, Mahul, Antoine, Paulhe, Nils, Bernard, Aurélien, Debroas, Didier, Enault, François

“…Metavir is a web server dedicated to the analysis of viral metagenomes (viromes). In addition to classical approaches for analyzing metagenomes (general…”
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Chimeric viruses blur the borders between the major groups of eukaryotic single-stranded DNA viruses by Roux, Simon, Enault, François, Bronner, Gisèle, Vaulot, Daniel, Forterre, Patrick, Krupovic, Mart

“…Metagenomic studies have uncovered an astonishing diversity of ssDNA viruses encoding replication proteins (Reps) related to those of eukaryotic Circoviridae ,…”
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Assessment of viral community functional potential from viral metagenomes may be hampered by contamination with cellular sequences by Roux, Simon, Krupovic, Mart, Debroas, Didier, Forterre, Patrick, Enault, François

“…Although the importance of viruses in natural ecosystems is widely acknowledged, the functional potential of viral communities is yet to be determined. Viral…”
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Bacterial Viruses Subcommittee and Archaeal Viruses Subcommittee of the ICTV: update of taxonomy changes in 2021 by Krupovic, Mart, Turner, Dann, Morozova, Vera, Dyall-Smith, Mike, Oksanen, Hanna M., Edwards, Rob, Dutilh, Bas E., Lehman, Susan M., Reyes, Alejandro, Baquero, Diana P., Sullivan, Matthew B., Uchiyama, Jumpei, Nakavuma, Jesca, Barylski, Jakub, Young, Mark J., Du, Shishen, Alfenas-Zerbini, Poliane, Kushkina, Alla, Kropinski, Andrew M., Kurtböke, Ipek, Brister, J. Rodney, Lood, Cédric, Sarkar, B. L., Yigang, Tong, Liu, Ying, Huang, Li, Wittmann, Johannes, Chanishvili, Nina, van Zyl, Leonardo J., Rumnieks, Janis, Mochizuki, Tomohiro, Jalasvuori, Matti, Aziz, Ramy K., Łobocka, Małgorzata, Stedman, Kenneth M., Shkoporov, Andrey N., Gillis, Annika, Peng, Xu, Enault, François, Knezevic, Petar, Lavigne, Rob, Rhee, Sung-Keun, Cvirkaite-Krupovic, Virginija, Moraru, Cristina, Moreno Switt, Andrea I., Poranen, Minna M., Millard, Andrew, Prangishvili, David, Adriaenssens, Evelien M.

“…In this article, we – the Bacterial Viruses Subcommittee and the Archaeal Viruses Subcommittee of the International Committee on Taxonomy of Viruses (ICTV) –…”
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Genomic characteristics and environmental distributions of the uncultivated Far-T4 phages by Roux, Simon, Enault, François, Ravet, Viviane, Pereira, Olivier, Sullivan, Matthew B

“…Viral metagenomics (viromics) is a tremendous tool to reveal viral taxonomic and functional diversity across ecosystems ranging from the human gut to the…”
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Phydbac "Gene Function Predictor": a gene annotation tool based on genomic context analysis by Enault, François, Suhre, Karsten, Claverie, Jean-Michel

“…The large amount of completely sequenced genomes allows genomic context analysis to predict reliable functional associations between prokaryotic proteins…”
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Bioinformatics Meets Virology: The European Virus Bioinformatics Center's Second Annual Meeting by Ibrahim, Bashar, Arkhipova, Ksenia, Andeweg, Arno C, Posada-Céspedes, Susana, Enault, François, Gruber, Arthur, Koonin, Eugene V, Kupczok, Anne, Lemey, Philippe, McHardy, Alice C, McMahon, Dino P, Pickett, Brett E, Robertson, David L, Scheuermann, Richard H, Zhernakova, Alexandra, Zwart, Mark P, Schönhuth, Alexander, Dutilh, Bas E, Marz, Manja

“…The Second Annual Meeting of the European Virus Bioinformatics Center (EVBC), held in Utrecht, Netherlands, focused on computational approaches in virology,…”
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CodingDiv: analyzing SNP-level microdiversity to discriminate between coding and noncoding regions in viral genomes by Olo Ndela, Eric, Enault, François

“…Abstract Summary Viral genes, that are frequently small genes and/or with large overlaps, are still difficult to predict accurately. To help predict all genes…”
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VirSorter: mining viral signal from microbial genomic data by Roux, Simon, Enault, Francois, Hurwitz, Bonnie L, Sullivan, Matthew B

“…Viruses of microbes impact all ecosystems where microbes drive key energy and substrate transformations including the oceans, humans and industrial fermenters…”
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Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses by Enault, François, Briet, Arnaud, Bouteille, Léa, Roux, Simon, Sullivan, Matthew B, Petit, Marie-Agnès

“…Antibiotic resistance genes (ARGs) are pervasive in gut microbiota, but it remains unclear how often ARGs are transferred, particularly to pathogens…”
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Transposable Prophages in Leptospira: An Ancient, Now Diverse, Group Predominant in Causative Agents of Weil's Disease by Olo Ndela, Eric, Enault, François, Toussaint, Ariane

“…The virome associated with the corkscrew shaped bacterium Leptospira, responsible for Weil's disease, is scarcely known, and genetic tools available for these…”
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Assessing the diversity and specificity of two freshwater viral communities through metagenomics by Roux, Simon, Enault, Francois, Robin, Agnès, Ravet, Viviane, Personnic, Sébastien, Theil, Sébastien, Colombet, Jonathan, Sime-Ngando, Télesphore, Debroas, Didier

“…Transitions between saline and fresh waters have been shown to be infrequent for microorganisms. Based on host-specific interactions, the presence of specific…”
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Establishing Host–Virus Link Through Host Metabolism: Viral DNA SIP Validation Using T4 Bacteriophage and E. coli by Ngo, Vuong Quoc Hoang, Sotomski, Maximilien, Guenne, Angeline, Mariadassou, Mahendra, Krupovic, Mart, Enault, François, Bize, Ariane

“…DNA Stable Isotope Probing is emerging as a potent methodology for investigating host–virus interactions, based on the essential reliance of viruses on host…”
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PHROG: families of prokaryotic virus proteins clustered using remote homology by Terzian, Paul, Olo Ndela, Eric, Galiez, Clovis, Lossouarn, Julien, Pérez Bucio, Rubén Enrique, Mom, Robin, Toussaint, Ariane, Petit, Marie-Agnès, Enault, François

“…Abstract Viruses are abundant, diverse and ancestral biological entities. Their diversity is high, both in terms of the number of different protein families…”
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Biogeographic patterns of aerobic anoxygenic phototrophic bacteria reveal an ecological consistency of phylogenetic clades in different oceanic biomes by Lehours, Anne-Catherine, Enault, François, Boeuf, Dominique, Jeanthon, Christian

“…In marine environments, aerobic anoxygenic phototrophic (AAP) bacterial assemblages vary in space and along environmental gradients but the factors shaping…”
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Taxonomy of prokaryotic viruses: 2018-2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee by Adriaenssens, Evelien M., Sullivan, Matthew B., Knezevic, Petar, van Zyl, Leonardo J., Sarkar, B. L., Dutilh, Bas E., Alfenas-Zerbini, Poliane, Łobocka, Małgorzata, Tong, Yigang, Brister, James Rodney, Moreno Switt, Andrea I., Klumpp, Jochen, Aziz, Ramy Karam, Barylski, Jakub, Uchiyama, Jumpei, Edwards, Rob A., Kropinski, Andrew M., Petty, Nicola K., Clokie, Martha R. J., Kushkina, Alla I., Morozova, Vera V., Duffy, Siobain, Gillis, Annika, Rumnieks, Janis, Kurtböke, İpek, Chanishvili, Nina, Goodridge, Lawrence, Wittmann, Johannes, Lavigne, Rob, Jang, Ho Bin, Prangishvili, David, Enault, Francois, Turner, Dann, Poranen, Minna M., Oksanen, Hanna M., Krupovic, Mart

“…This article is a summary of the activities of the ICTV’s Bacterial and Archaeal Viruses Subcommittee for the years 2018 and 2019. Highlights include the…”
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