المؤلفون: Camargo, Antonio Pedro, Call, Lee, Roux, Simon, Nayfach, Stephen, Huntemann, Marcel, Palaniappan, Krishnaveni, Ratner, Anna, Chu, Ken, Mukherjeep, Supratim, Reddy, TBK, Chen, I-Min A, Ivanova, Natalia N, Eloe-Fadrosh, Emiley A, Woyke, Tanja, Baltrus, David A, Castañeda-Barba, Salvador, de la Cruz, Fernando, Funnell, Barbara E, Hall, James PJ, Mukhopadhyay, Aindrila, Rocha, Eduardo PC, Stalder, Thibault, Top, Eva, Kyrpides, Nikos C

المصدر: Nucleic Acids Research. 52(D1)

مصطلحات موضوعية: Microbiology, Biological Sciences, Bioinformatics and Computational Biology, Genetics, Human Genome, Humans, Metagenome, Metadata, Software, Databases, Genetic, Plasmids, Microbiota, Environmental Sciences, Information and Computing Sciences, Developmental Biology, Biological sciences, Chemical sciences, Environmental sciences

وصف الملف: application/pdf

URL الوصول: https://escholarship.org/uc/item/8xg3g0x6
https://escholarship.org/content/qt8xg3g0x6/qt8xg3g0x6.pdf

المؤلفون: Fournes, Florian, Campos, Manuel, Cury, Jean, Schiavon, Caroline, Pagès, Carine, Touchon, Marie, Rocha, Eduardo P, Rousseau, Philippe, Cornet, François

المساهمون: Laboratoire de microbiologie et génétique moléculaires - UMR5100 (LMGM), Centre de Biologie Intégrative (CBI), Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Centre National de la Recherche Scientifique, Université Toulouse III—Paul Sabatier, Agence Nationale de la Recherche ANR-14-CE10-0007 to F.C. and E.P.C.R., ANR-21-CE12-0032 to FC . Open access was funded by ANR-21-CE12-0032., ANR-14-CE10-0007,MAGISBAC,Génèse et maintenance des chromosomes secondaire bactériens(2014), ANR-21-CE12-0032,SISTERS,Appariement et ségrégation des chromosomes bactériens(2021)

المصدر: ISSN: 0305-1048.

مصطلحات موضوعية: bacterial proteins, chromosomes, bacterial, Enterobacteriaceae, Plasmids, [SDV]Life Sciences [q-bio], [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN]

Relation: info:eu-repo/semantics/altIdentifier/pmid/39797729; PUBMED: 39797729; PUBMEDCENTRAL: PMC11724359

الاتاحة: https://hal.science/hal-04888819
https://hal.science/hal-04888819v1/document
https://hal.science/hal-04888819v1/file/gkae1300.pdf
https://doi.org/10.1093/nar/gkae1300

المؤلفون: Devgon, Shivin, Ichnowski, Jeffrey, Danielczuk, Michael, Brown, Daniel S., Balakrishna, Ashwin, Joshi, Shirin, Rocha, Eduardo M. C., Solowjow, Eugen, Goldberg, Ken

المصدر: Conference on Automation Science and Engineering (CASE) 2021

مصطلحات موضوعية: Computer Science - Robotics, Computer Science - Artificial Intelligence, Computer Science - Computer Vision and Pattern Recognition

URL الوصول: http://arxiv.org/abs/2107.05789

المؤلفون: Godfroid, Maxime, Coluzzi, Charles, Lambert, Amaury, Glaser, Philippe, Rocha, Eduardo, P C, Achaz, Guillaume

المساهمون: SMILE - Stochastic models for the inference of life evolution, Laboratoire de Probabilités et Modèles Aléatoires (LPMA), Université Pierre et Marie Curie - Paris 6 (UPMC)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS)-Centre interdisciplinaire de recherche en biologie (CIRB), Labex MemoLife, École normale supérieure - Paris (ENS-PSL), Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL)-Collège de France (CdF (institution))-Ecole Superieure de Physique et de Chimie Industrielles de la Ville de Paris (ESPCI Paris), Université Paris Sciences et Lettres (PSL)-École normale supérieure - Paris (ENS-PSL), Université Paris Sciences et Lettres (PSL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Labex MemoLife, Université Paris Sciences et Lettres (PSL)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Laboratoire de Probabilités, Statistique et Modélisation (LPSM (UMR_8001)), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Écologie et Évolution de la Résistance aux Antibiotiques / Ecology and Evolution of Antibiotics Resistance (EERA), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Université Paris-Saclay-Université Paris Cité (UPCité)-Microbiologie Intégrative et Moléculaire (UMR6047), Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS), Éco-Anthropologie (EA), Muséum national d'Histoire naturelle (MNHN)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), This work was supported by INCEPTION (PIA/ANR-16-CONV-0005) and Equipe FRM (Fondation pour la Recherche Médicale) EQU201903007835., This work used the computation and storage services (TARS cluster) provided by the IT department at Institut Pasteur, Paris., ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016)

المصدر: ISSN: 2041-210X.

مصطلحات موضوعية: Correlated evolution, Phylogenetics, Workflow Analysis, Biological traits, Evo‐scope, Phylogenetic tree, [SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE], [SDV.BDD]Life Sciences [q-bio]/Development Biology

الاتاحة: https://pasteur.hal.science/pasteur-04778723
https://pasteur.hal.science/pasteur-04778723v1/document
https://pasteur.hal.science/pasteur-04778723v1/file/Methods%20Ecol%20Evol%20-%202023%20-%20Godfroid%20-%20Evo%E2%80%90Scope%20Fully%20automated%20assessment%20of%20correlated%20evolution%20on%20phylogenetic%20trees.pdf
https://doi.org/10.1111/2041-210x.14190

المؤلفون: Tuffet, Rémi, Carvalho, Gabriel, Godeux, Anne-Sophie, Mazzamurro, Fanny, Rocha, Eduardo, P C, Laaberki, Maria-Halima, Venner, Samuel, Charpentier, Xavier

المساهمون: Centre International de Recherche en Infectiologie (CIRI), École normale supérieure de Lyon (ENS de Lyon), Université de Lyon-Université de Lyon-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université Jean Monnet - Saint-Étienne (UJM)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Biométrie et Biologie Evolutive - UMR 5558 (LBBE), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Collège Doctoral, Sorbonne Université (SU), Portions of the paper were developed from the thesis of Anne-Sophie Godeux. This work was supported by the LABEX ECOFECT (ANR-11-LABX-0048) of Université de Lyon, within the program “Investissements d’Avenir” (ANR-11-IDEX-0007) operated by the French National Research Agency (ANR) and by the RESPOND program of the Université de Lyon. PhD funding of A.-S.G. was provided by VetAgro Sup. PhD funding of R.T. was provided the CNRS 80|Prime program. This work was also supported by the French ANR, under grant ANR-20-CE12-0004 (TransfoConflict), and by the Fondation pour la Recherche Médicale, grant number EQU202303016268 to X.C. This work was performed using the computing facilities of the CC LBBE/PRABI. We thank all three referees for their valuable and constructive comments., ANR-11-LABX-0048,ECOFECT,Dynamiques eco-évolutives des maladies infectieuses(2011), ANR-11-IDEX-0007,Avenir L.S.E.,PROJET AVENIR LYON SAINT-ETIENNE(2011), ANR-20-CE12-0004,TransfoConflict,Apprendre des conflits : inhibition fréquente de la transformation naturelle par les éléments génétiques mobiles(2020)

المصدر: ISSN: 0027-8424.

مصطلحات موضوعية: Acinetobacter baumannii, natural transformation, antibiotic resistance, mobile genetic element, recombination, [SDV]Life Sciences [q-bio]

Relation: info:eu-repo/semantics/altIdentifier/pmid/39288183; PUBMED: 39288183; PUBMEDCENTRAL: PMC11441513

الاتاحة: https://pasteur.hal.science/pasteur-04778734
https://pasteur.hal.science/pasteur-04778734v1/document
https://pasteur.hal.science/pasteur-04778734v1/file/tuffet.PNAS.24.manipulation-of-natural-transformation-by-abar.pdf
https://doi.org/10.1073/pnas.2409843121

المؤلفون: Mazzamurro, Fanny, Chirakadavil, Jason, Baby, Durieux, Isabelle, Poiré, Ludovic, Plantade, Julie, Ginevra, Christophe, Jarraud, Sophie, Wilharm, Gottfried, Charpentier, Xavier, Rocha, Eduardo, P. C.

المساهمون: Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Collège Doctoral, Sorbonne Université (SU), Centre International de Recherche en Infectiologie (CIRI), École normale supérieure de Lyon (ENS de Lyon), Université de Lyon-Université de Lyon-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université Jean Monnet - Saint-Étienne (UJM)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Centre National de Référence des Légionelles (CNR), Robert Koch Institute Wernigerode, This work was supported by the French Agence Nationale de la Recherche (ANR), under grant ANR-20-CE12-0004 (TransfoConflict). XC lab if funded by a grant Equipe FRM (Fondation pour la Recherche Médicale) EQU202303016268. EPCR lab is funded by a grant Equipe FRM (Fondation pour la Recherche Médicale) EQU201903007835 and by the Laboratoire d’Excellence IBEID Integrative Biology of Emerging Infectious Diseases ANR-10-LABX-62-IBEID ., We thank Eloïse Guignard for technical assistance in isolation of L. pneumophila isolates. We thank Evelyn Skiebe for preparing and shipping A. baumannii isolates and members of the RKI central sequencing lab for excellent technical assistance. We thank Eugen Pfeifer for his help in defining and providing all the data necessary for the viral quotient calculation. We are grateful to Suzana Salcedo for providing additional A. baumannii isolates 109 . The strains CIP and CRBIP have been obtained from the Collection Institut Pasteur (CRBIP, Paris, France). This work used the computational and storage services (TARS cluster) provided by the IT department at Institut Pasteur, Paris., ANR-20-CE12-0004,TransfoConflict,Apprendre des conflits : inhibition fréquente de la transformation naturelle par les éléments génétiques mobiles(2020), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010)

المصدر: ISSN: 1544-9173.

مصطلحات موضوعية: [SDV]Life Sciences [q-bio]

Relation: info:eu-repo/semantics/altIdentifier/pmid/39401218; PUBMED: 39401218; PUBMEDCENTRAL: PMC11472951

الاتاحة: https://pasteur.hal.science/pasteur-04778731
https://pasteur.hal.science/pasteur-04778731v1/document
https://pasteur.hal.science/pasteur-04778731v1/file/Mazzamurro.PlosB.24.transformation_conflict_MGE.pdf
https://doi.org/10.1371/journal.pbio.3002814

المؤلفون: Benz, Fabienne, Camara-Wilpert, Sarah, Russel, Jakob, Wandera, Katharina, Čepaitė, Rimvydė, Ares-Arroyo, Manuel, Gomes-Filho, José Vicente, Englert, Frank, Kuehn, Johannes, Gloor, Silvana, Mestre, Mario Rodríguez, Cuénod, Aline, Aguilà-Sans, Mònica, Maccario, Lorrie, Egli, Adrian, Randau, Lennart, Pausch, Patrick, Rocha, Eduardo, P. C., Beisel, Chase, Madsen, Jonas Stenløkke, Bikard, David, Hall, Alex, Sørensen, Søren Johannes, Pinilla-Redondo, Rafael

المساهمون: Biologie de Synthèse - Synthetic biology, Université Paris Cité (UPCité)-Microbiologie Intégrative et Moléculaire (UMR6047), Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), University of Copenhagen = Københavns Universitet (UCPH), Eidgenössische Technische Hochschule - Swiss Federal Institute of Technology Zürich (ETH Zürich), Helmholtz-Institut für RNA-basierte Infektionsforschung - Helmholtz Institute for RNA‐based Infection Research Würzburg, Germany (HIRI), Helmholtz-Zentrum für Infektionsforschung GmbH (HZI)-Julius-Maximilians-Universität Würzburg = University of Würzburg Würsburg, Germany (JMU), Vilnius University Vilnius, Philipps Universität Marburg = Philipps University of Marburg, Université de Bâle = University of Basel = Basel Universität (Unibas), University Hospital Basel Basel, McGill University = Université McGill Montréal, Canada, Universität Zürich Zürich = University of Zurich (UZH), LOEWE Center for Synthetic Microbiology (SYNMIKRO), F.B. was supported by the SNSF grants P1EZP3_195539 and P500PB_210944 . S.C.-W. wassupported by the Lundbeck Foundation grant J.S.M., R250-2017-1392 . M.A.-A wassupported by HORIZON-MSCA-2021-PF-01–01 and EvoPlas-101062386. L.R. was supported byDFG-SPP2141 and the LOEWE Research Cluster Diffusible Signals. J.S.M was supported by theIndependent Research Fund Denmark 0217-00445B . R.P.-R. was supported by a LundbeckFoundation grant R347-2020-2346 . P.P. receives funding from the European RegionalDevelopment Fund under grant agreement number 01.2.2-CPVA-V-716-01-0001 with theCentral Project Management Agency (CPVA), Lithuania, and from the Research Council ofLithuania (LMTLT) under grant agreement number S-MIP-22-10. A.C. was supported by thetwo Cantons of Basel grant PMB-03-17 and by the SNSF grant P500PB_214356 . S.J.S. wasfunded by the Novo Nordisk Foundation PEACE project 0064822. L. M. was supported by theEuropean Union’s Horizon 2020 research and innovation programme under Grant No. 874735(VEO). K.W., F.E. and C.B. were supported by the Deutsche Forschungsgemeinschaft (BE6703/1-2 to C.L.B.)., We thank the Synthetic Biology and Microbial Evolutionary Genomics groups at Institut Pasteur, the Section of Microbiology at the University of Copenhagen, the Phi Lab (Peter Fineran’s group) at Otago University, and the Pathogen Ecology group at ETH Zürich for helpful discussions and mimosas. We thank David Mayo-Muñoz for valuable feedback on the manuscript and Ekaterina Semenova for help with the design of acquisition experiments. We thank Sylvain Brisse (Institut Pasteur) for providing K. pneumoniae strain SB and his group, especially Carla Rodrigues and Chiara Crestani, for help with Oxford Nanopore sequencing. We thank Azimdine Habib, Laure Lemée and Thomas Cokelaer from the Biomics Platform (C2RT, supported by France Génomique ANR-10-INBS-09 and IBISA) at Institut Pasteur for help with RNA sequencing and corresponding analysis in transcriptional repression assays., ANR-10-INBS-0009,France Génomique,Organisation et montée en puissance d'une Infrastructure Nationale de Génomique(2010), European Project: 101062386,HORIZON-MSCA-2021-PF-01 ,10.3030/101062386,EvoPlas(2022), European Project: 874735,H2020-SC1-2019-Single-Stage-RTD,VEO(2020)

المصدر: ISSN: 1931-3128 ; Cell Host & Microbe ; https://pasteur.hal.science/pasteur-04785210 ; Cell Host & Microbe, 2024, 32 (6), pp.875-886.e9. ⟨10.1016/j.chom.2024.04.016⟩.

مصطلحات موضوعية: CRISPR-Cas, DinG helicase, Klebsiella pneumoniae, adaptive immunity, antibiotic resistance, inter-plasmid competition, phages, plasmids, type IV CRISPR-Cas, [SDV]Life Sciences [q-bio]

Relation: info:eu-repo/semantics/altIdentifier/pmid/38754416; info:eu-repo/grantAgreement//101062386/EU/Characterization of the Mobility and Evolution of Non-Transmissible Plasmids/EvoPlas; info:eu-repo/grantAgreement// 874735/EU/Versatile Emerging infectious disease Observatory/VEO; PUBMED: 38754416

الاتاحة: https://pasteur.hal.science/pasteur-04785210
https://pasteur.hal.science/pasteur-04785210v1/document
https://pasteur.hal.science/pasteur-04785210v1/file/IVA3_MS_Hal_pasteur.pdf
https://doi.org/10.1016/j.chom.2024.04.016

المؤلفون: Curry, Kristen, D, Yu, Feiqiao, Brian, Vance, Summer, E, Segarra, Santiago, Bhaya, Devaki, Chikhi, Rayan, Rocha, Eduardo, P. C., Treangen, Todd, J

المساهمون: Rice University Houston, Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Arc Research Institute Palo Alto, CA, USA, University of California (UC), Carnegie Institution for Science, Département de Biologie Computationnelle - Department of Computational Biology, Institut Pasteur Paris (IP)-Université Paris Cité (UPCité), K.D.C. was supported by Ken Kennedy Institute Recruiting Fellowship, Rice University Wagoner Foreign Study Scholarship, and the Chateaubriand Fellowship. T.J.T. was supported by NIH grant P01-AI152999 from the National Institute of Allergy and Infectious Diseases (NIAID) and NSF CAREER award IIS-2239114 (PI Treangen). K.D.C., S.S., and T.J.T. were supported by the NSF MIM Universal Rules of Live (URoL) grant (EF-2126387, PI Treangen). This project received funding from the European Union’s Horizon 2020 research and innovation programme under Marie Skłodowska-Curie grant agreement Nos. 872539 and 956229 (R.C.). R.C. was supported by ANR Transipedia, SeqDigger, Inception and PRAIRIE grants (ANR-18-CE45-0020, ANR-19-CE45-0008, PIA/ANR16-CONV-0005, ANR-19-P3IA-0001). D.B. acknowledges support from a BBSRC-NSF/BIO collaborative research grant (award number 1921429), NSFEmerging Frontiers grant (award number 2125965), Joint Genome Institute Community Sequencing Project 503441 and 509352, and the Carnegie Institution for Science. Work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy. S.E.V. is supported by NSF GRFP (fellow ID 2023333162)., ANR-18-CE45-0020,Transipedia,Signatures transcriptionnelles pour une analyse RNA-seq globale(2018), ANR-19-CE45-0008,SeqDigger,Moteur de recherche de donne´es de se´quenc¸age en ge´nomique environnementale(2019), ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016), ANR-19-P3IA-0001,PRAIRIE,PaRis Artificial Intelligence Research InstitutE(2019), European Project: 872539,H2020-EU.1.3. - EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions, H2020-EU.1.3.3. - Stimulating innovation by means of cross-fertilisation of knowledge,H2020-MSCA-RISE-2019,PANGAIA(2020), European Project: 956229,H2020-EU.1.3. - EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions,ALPACA(2021)

المصدر: ISSN: 1367-4803.

مصطلحات موضوعية: [SDV]Life Sciences [q-bio]

Relation: info:eu-repo/semantics/altIdentifier/pmid/38940156; info:eu-repo/grantAgreement//872539/EU/Pan-genome Graph Algorithms and Data Integration/PANGAIA; info:eu-repo/grantAgreement//956229/EU/ALgorithms for PAngenome Computational Analysis/ALPACA; PUBMED: 38940156; PUBMEDCENTRAL: PMC11211843

الاتاحة: https://pasteur.hal.science/pasteur-04778741
https://pasteur.hal.science/pasteur-04778741v1/document
https://pasteur.hal.science/pasteur-04778741v1/file/Curry.BioInfo.24.co-assembly_graphs.pdf
https://doi.org/10.1093/bioinformatics/btae224

المؤلفون: Ares-Arroyo, Manuel, Coluzzi, Charles, Moura de Sousa, Jorge, A, Rocha, Eduardo, P C

المساهمون: Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), This work was supported by a grant from INCEPTION (ANR-16-CONV-0005) and IBEID Labex (ANR-10-LABX-62-IBEID) to EPCR, a grant Agence Nationale de la Recherche (ANR) LBX-62 IBEID AAP BOURSE S2I ROCHA to JMS and agrant Agence Nationale de la Recherche (ANR) 23 CE20 0046 01 TRIADE to JMS, and a grant European Commission (HORIZON-MSCA-2021-PF-01–01 EvoPlas-101062386) to MAA., We thank all the members of the laboratory Microbial Evolutionary Genomics for discussions along the years. We also thank collaborators with whom we have often engaged in discussions in these topics, including José Penadés, Fernando de la Cruz, M. Pilar Garcillan-Barcia, Frédérique Le Roux, and David Bikard. Thanks to José Pénades, Rodrigo Ibarra-Chávez, Aude Bernheim, Sylvain Gandon, and Pedro Dorado Morales for comments and suggestions on previous versions of this manuscript., ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), ANR-23-CE20-0046,TRIADE,Caractérisation des interactions tripartites entre bactéries, bactériophages et bactériophages-satellites(2023), European Project: 101062386,HORIZON-MSCA-2021-PF-01 ,10.3030/101062386,EvoPlas(2022)

المصدر: ISSN: 1544-9173.

مصطلحات موضوعية: [SDV]Life Sciences [q-bio]

Relation: info:eu-repo/semantics/altIdentifier/pmid/39208359; info:eu-repo/grantAgreement//101062386/EU/Characterization of the Mobility and Evolution of Non-Transmissible Plasmids/EvoPlas; PUBMED: 39208359; PUBMEDCENTRAL: PMC11389934

الاتاحة: https://pasteur.hal.science/pasteur-04778737
https://pasteur.hal.science/pasteur-04778737v2/document
https://pasteur.hal.science/pasteur-04778737v2/file/Ares-Arroyo.PLoSB.24.hitchers.pdf
https://doi.org/10.1371/journal.pbio.3002796

المؤلفون: He, Lingchen, Miguel-Romero, Laura, Patkowski, Jonasz, B, Alqurainy, Nasser, Rocha, Eduardo, P C, Costa, Tiago, R D, Fillol-Salom, Alfred, Penadés, José, R

المساهمون: Imperial College London, Instituto de biomedicina Valencia (IBV), Consejo Superior de Investigaciones Cientificas España = Spanish National Research Council Spain (CSIC), University of Glasgow, King Saud Bin Abdulaziz University for Health Sciences Riyadh (KSAU-HS), King Abdullah International Medical Research Center Riyadh (KAIMRC), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Universidad Cardenal Herrera-CEU (CEU-UCH), This work was supported by grants MR/X020223/1, MR/M003876/1, MR/V000772/1, and MR/S00940X/1 from the Medical Research Council (UK), BB/V002376/1 and BB/V009583/1 from the Biotechnology and Biological Sciences Research Council (BBSRC, UK), and EP/X026671/1 from the Engineering and Physical Sciences Research Council (EPSRC, UK) to J.R.P, a Royal Society Research Grant RG\R2\232329 and an Imperial College Research Fellowship (ICRF) to A.F.-S., and a PID2022-136595NA-I00 from Spanish Government (Ministry of Science and Innovation) and a CDEIGENT Research Fellowship CIDEIG/2022/19 from Valencian Government to L.M.-R.

المصدر: ISSN: 2041-1723.

مصطلحات موضوعية: Bacteriology, Bacteriophages, Phage biology, [SDV]Life Sciences [q-bio]

Relation: info:eu-repo/semantics/altIdentifier/pmid/39215040; PUBMED: 39215040; PUBMEDCENTRAL: PMC11364771

الاتاحة: https://pasteur.hal.science/pasteur-04778725
https://pasteur.hal.science/pasteur-04778725v1/document
https://pasteur.hal.science/pasteur-04778725v1/file/He.NC.24.tail_defense.pdf
https://doi.org/10.1038/s41467-024-51915-4

المؤلفون: Pfeifer, Eugen, Rocha, Eduardo, P C

المساهمون: Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Equipe FRM (Fondation pour la Recherche Médicale): EQU201903007835, Laboratoire d’Excellence IBEID Integrative Biology of Emerging Infectious Diseases ANR-10-LABX-62-IBEID . This work used the computational and storage services (TARS & MAESTRO cluster) provided by the IT department at Institut Pasteur, Paris., We extend our special thanks to Jorge Moura de Sousa for engaging and enlightening discussions about gene flow between phages and other mobile genetic elements. Additionally, we express our gratitude to Manuel Ares-Arroyo, Charles Coluzzi, and Julien Guglielmini for providing valuable insights into the mobility of phage-related plasmids and for their thoughtful comments on the interpretation of the phylogenetic data., ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010)

المصدر: ISSN: 2041-1723.

مصطلحات موضوعية: [SDV]Life Sciences [q-bio]

Relation: info:eu-repo/semantics/altIdentifier/pmid/38378896; PUBMED: 38378896; PUBMEDCENTRAL: PMC10879196

الاتاحة: https://pasteur.hal.science/pasteur-04778718
https://pasteur.hal.science/pasteur-04778718v1/document
https://pasteur.hal.science/pasteur-04778718v1/file/Pfeifer.NC.24.PP_recombination_conversion.pdf
https://doi.org/10.1038/s41467-024-45757-3

المؤلفون: Bonnin, Rémy A, Creton, Elodie, Perrin, Amandine, Girlich, Delphine, Emeraud, Cecile, Jousset, Agnès B, Duque, Mathilde, Jacquemin, Aymeric, Hopkins, Katie, Bogaerts, Pierre, Glupczynski, Gerald, Pfennigwerth, Niels, Gniadkowski, Marek, Hendrickx, Antoni P A, van der Zwaluw, Kim, Apfalter, Petra, Hartl, Rainer, Studentova, Vendula, Hrabak, Jaroslav, Larrouy-Maumus, Gerald, Rocha, Eduardo P C, Naas, Thierry, Dortet, Laurent

المساهمون: UCL - SSS/IREC/MORF - Pôle de Morphologie, UCL - (MGD) Laboratoire de biologie clinique

المصدر: The Lancet. Microbe, (2024)

Relation: boreal:287305; http://hdl.handle.net/2078.1/287305; info:pmid/38677305; urn:EISSN:2666-5247

الاتاحة: http://hdl.handle.net/2078.1/287305
https://doi.org/10.1016/S2666-5247(23)00407-X

المؤلفون: D’humières, Camille, Delavy, Margot, Alla, Laurie, Ichou, Farid, Gauliard, Emilie, Ghozlane, Amine, Levenez, Florence, Galleron, Nathalie, Quinquis, Benoit, Pons, Nicolas, Mullaert, Jimmy, Bridier-Nahmias, Antoine, Condamine, Bénédicte, Touchon, Marie, Rainteau, Dominique, Lamazière, Antonin, Lesnik, Philippe, Ponnaiah, Maharajah, Lhomme, Marie, Sertour, Natacha, Devente, Savannah, Docquier, Jean-Denis, Bougnoux, Marie-Elisabeth, Tenaillon, Olivier, Magnan, Mélanie, Ruppé, Etienne, Grall, Nathalie, Duval, Xavier, Ehrlich, Dusko, Mentré, France, Denamur, Erick, Rocha, Eduardo, P C, Le Chatelier, Emmanuelle, Burdet, Charles

المساهمون: Infection, Anti-microbiens, Modélisation, Evolution (IAME (UMR_S_1137 / U1137)), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Paris Cité (UPCité)-Université Sorbonne Paris Nord, Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Biologie et Pathogénicité fongiques - Fungal Biology and Pathogenicity (BPF), Institut Pasteur Paris (IP)-Université Paris Cité (UPCité)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), MetaGenoPolis (MGP (US 1367)), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Institut de Cardiométabolisme et Nutrition = Institute of Cardiometabolism and Nutrition CHU Pitié Salpêtrière (IHU ICAN), CHU Pitié-Salpêtrière AP-HP, Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU), Centre de Recherche Saint-Antoine (CRSA), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Sorbonne Université (SU), Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB, Institut Pasteur Paris (IP)-Université Paris Cité (UPCité), CIC Hôpital Bichat, AP-HP - Hôpital Bichat - Claude Bernard Paris, Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-UFR de Médecine, Unité de Recherche sur les Maladies Cardiovasculaires, du Métabolisme et de la Nutrition = Research Unit on Cardiovascular and Metabolic Diseases (ICAN), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Sorbonne Université (SU)-Institut de Cardiométabolisme et Nutrition = Institute of Cardiometabolism and Nutrition CHU Pitié Salpêtrière (IHU ICAN), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU)-CHU Pitié-Salpêtrière AP-HP, Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Sorbonne Université (SU), Università degli Studi di Siena = University of Siena (UNISI), Unité de Parasitologie-Mycologie, Service de Microbiologie Hôpital Necker-Enfants-Malades, Paris, Assistance Publique - Hôpitaux de Paris, Centre d'investigation Clinique CHU Bichat - Épidémiologie clinique (CIC 1425), Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Institut National de la Santé et de la Recherche Médicale (INSERM), University College of London London (UCL), ANR-16-CE15-0022,PREDIRES,PREDIction de l'émergence de la RESistance bactérienne dans le microbiote intestinal humain lors d'un traitement antibiotique(2016), ANR-14-IFEC-0004,FunComPath,From fungal commensalism to pathogenicity:dissection of the colonization-to-infection shift of Candida albicans(2014), ANR-10-INBS-0009,France Génomique,Organisation et montée en puissance d'une Infrastructure Nationale de Génomique(2010), ANR-11-DPBS-0001,MGP,MetaGenoPolis(2011)

المصدر: EISSN: 2049-2618 ; Microbiome ; https://u-paris.hal.science/hal-04582235 ; Microbiome, 2024, 12 (1), pp.50. ⟨10.1186/s40168-023-01746-0⟩ ; https://microbiomejournal.biomedcentral.com/articles/10.1186/s40168-023-01746-0#Ack1

مصطلحات موضوعية: Antibiotics, Human gut microbiota, Metagenomics, Metabolomics, Resilience, β-lactamase, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology

Relation: info:eu-repo/semantics/altIdentifier/pmid/38468305; hal-04582235; https://u-paris.hal.science/hal-04582235; https://u-paris.hal.science/hal-04582235v1/document; https://u-paris.hal.science/hal-04582235v1/file/s40168-023-01746-0.pdf; PUBMED: 38468305; PUBMEDCENTRAL: PMC10929231; WOS: 001182496800001

الاتاحة: https://u-paris.hal.science/hal-04582235
https://u-paris.hal.science/hal-04582235v1/document
https://u-paris.hal.science/hal-04582235v1/file/s40168-023-01746-0.pdf
https://doi.org/10.1186/s40168-023-01746-0

المؤلفون: Loot, Céline, Millot, Gael, A, Richard, Egill, Littner, Eloi, Vit, Claire, Lemoine, Frédéric, Néron, Bertrand, Cury, Jean, Darracq, Baptiste, Niault, Théophile, Lapaillerie, Delphine, Parissi, Vincent, Rocha, Eduardo, P C, Mazel, Didier

المساهمون: Plasticité du Génome Bactérien - Bacterial Genome Plasticity (PGB), Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB, Institut Pasteur Paris (IP)-Université Paris Cité (UPCité), Collège Doctoral, Sorbonne Université (SU), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Centre d'Études du Bouchet (DGA Maitrise NRBC), Délégation Générale pour l'Armement, TAckling the Underspecified (TAU), Inria Saclay - Ile de France, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire Interdisciplinaire des Sciences du Numérique (LISN), Institut National de Recherche en Informatique et en Automatique (Inria)-CentraleSupélec-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)-CentraleSupélec-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Microbiologie Fondamentale et Pathogénicité (MFP), Université Bordeaux Segalen - Bordeaux 2-Centre National de la Recherche Scientifique (CNRS), We thank G. Macaux for experimental help, all the lab members for helpful discussion, M. Monot and L. Ma from the Biomics platform, C2RT, Institut Pasteur, Paris, France, supported by France Génomique (ANR-10-INBS-09) and IBISA. This work was supported by the Institut Pasteur, the Centre National de la Recherche Scientifique (CNRS-UMR 3525), the Fondation pour la Recherche Médicale (FRM Grant No. EQU202103012569, D.M.), ANR Chromintevol (ANR-21-CE12-0002-01, C.L.) and the French Government’s Investissement d’Avenir programme Laboratoire d’Excellence ‘Integrative Biology of Emerging Infectious Diseases’ (ANR-10-LABX-62-IBEID, D.M.)., C.L. and D.M. designed the research. C.L., E.R., C.V., B.D., D.L., V.P., F.L. and T.N. performed the experiments. G.A.M. and F.L. performed the computational analysis of deep sequencing data. E.L., J.C., B.N. and E.P.C.R. performed the bioinformatics genomics analysis. C.L. and G.A.M. wrote the draft of the manuscript. All authors read, amended and approved the final version of the manuscript., ANR-10-INBS-0009,France Génomique,Organisation et montée en puissance d'une Infrastructure Nationale de Génomique(2010), ANR-21-CE12-0002,Chromintevol,Etude de l'impact des intégrons chromosomiques sur l'évolution des bactéries(2021), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010)

المصدر: ISSN: 2058-5276.

مصطلحات موضوعية: MESH: Bacteria, MESH: Genome, MESH: Genomics, MESH: Integrases, MESH: Integrons, [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology

Relation: info:eu-repo/semantics/altIdentifier/pmid/38172619; PUBMED: 38172619

الاتاحة: https://pasteur.hal.science/pasteur-04384854
https://pasteur.hal.science/pasteur-04384854v1/document
https://pasteur.hal.science/pasteur-04384854v1/file/2024%20Nat%20Microbiol_Loot.pdf
https://doi.org/10.1038/s41564-023-01548-y

المؤلفون: Haudiquet, Matthieu, Le Bris, Julie, Nucci, Amandine, Bonnin, Rémy, A, Domingo-Calap, Pilar, Rocha, Eduardo, P C, Rendueles, Olaya

المساهمون: Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Ecole Doctorale Frontiere de l’Innovation en Recherche et Education (ED 474 FIRE), Université Paris Cité (UPCité)-Université Paris Sciences et Lettres (PSL), Ecole Doctorale Complexité du Vivant (ED515), Sorbonne Université (SU), Immunologie des maladies virales, auto-immunes, hématologiques et bactériennes (IMVA-HB), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Paris-Saclay, Centre National de Référence Associé de la Résistance aux Antibiotiques Hôpital Bicêtre AP-HP (CNRARA/Service de Microbiologie), Hôpital Bicêtre AP-HP, Le Kremlin-Bicêtre, Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP)-Assistance publique - Hôpitaux de Paris (AP-HP) (AP-HP), Service de Microbiologie Hôpital Bicêtre AP-HP (UBH : Unité de Bactériologie-Hygiène), Instituto de Biología Integrativa de Sistemas (I²SysBio), Consejo Superior de Investigaciones Cientificas España = Spanish National Research Council Spain (CSIC)-Universitat de València = University of Valencia (UV), This work was supported by an ANR JCJC (Agence national de recherche) grant ANR 18 CE12 0001 01 ENCAPSULATION awarded to O.R. and by the grant ANR 16 CE15 0022 03 PREDIRES awarded to EPCR. The laboratory is funded by a Laboratoire d’Excellence ‘Integrative Biology of Emerging Infectious Diseases’ grant ANR-10-LABX-62- IBEID , the INCEPTION programme PIA/ANR-16- CONV-0005 , and the FRM EQU201903007835 . M.H. has received funding from the FIRE Doctoral School (Centre de Recherche Interdisciplinaire, programme Bettencourt) to attend conferences. P.D.-C. was financially supported by a Ramón y Cajal contract RYC2019-028015-I funded by MCIN/AEI/10.13039/501100011033, ESF Invest in your future., We thank Olivier Tenaillon and Nienke Buddelmeijer for fruitful discussions. We thank Sylvain Brisse for providing us with the Klebsiella strains. We thank Jean-Marc Ghigo and Christophe Beloin for the gift of plasmid R1-dr19. We thank Julia Bos for the gift of phage phK1. We are grateful to the members of the Microbial Evolutionary Genomics lab and Maxime Policarpo, Grégoire Haouy and Léone Debarge for helpful discussions. This work used the computational and storage services (TARS & MAESTRO cluster) provided by the IT department at Institut Pasteur, Paris, and the media preparation services provided by the Plateforme Milieux. The sequencing work was performed by the Biomics Platform, C2RT, Institut Pasteur, Paris, France, supported by France Géno- mique (ANR-10-INBS-09) and IBISA, ANR-18-CE12-0001,ENCAPSULATION,Le rôle évolutif des capsules dans l'adaptation bactérienne(2018), ANR-16-CE15-0022,PREDIRES,PREDIction de l'émergence de la RESistance bactérienne dans le microbiote intestinal humain lors d'un traitement antibiotique(2016), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016)

المصدر: ISSN: 2041-1723.

مصطلحات موضوعية: [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, [SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE], [SDV.EE.IEO]Life Sciences [q-bio]/Ecology, environment/Symbiosis

Relation: info:eu-repo/semantics/altIdentifier/pmid/38448399; PUBMED: 38448399

الاتاحة: https://hal.science/hal-04492345
https://hal.science/hal-04492345v1/document
https://hal.science/hal-04492345v1/file/33-HaudiquetEtAl_NatCommuns41467-024-46147-5.pdf
https://doi.org/10.1038/s41467-024-46147-5

المؤلفون: Richard, Egill, Darracq, Baptiste, Littner, Eloi, Millot, Gael, Conte, Valentin, Cokelaer, Thomas, Engelstädter, Jan, Rocha, Eduardo, P C, Mazel, Didier, Loot, Céline

المساهمون: Plasticité du Génome Bactérien - Bacterial Genome Plasticity (PGB), Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Ecole Doctorale Complexité du Vivant (ED515), Sorbonne Université (SU), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Centre d'Études du Bouchet (DGA Maitrise NRBC), Délégation Générale pour l'Armement, Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB, Institut Pasteur Paris (IP)-Université Paris Cité (UPCité), Biomics (plateforme technologique), School of Biological Sciences Brisbane, The University of Queensland (UQ All campuses : Brisbane, Dutton Park Gatton, Herston, St Lucia and other locations ), Génétique des génomes - Genetics of Genomes (UMR 3525), This work was supported by the Institut Pasteur (GAM, TC, DM), the Centre National de la Recherche Scientifique (CNRS-UMR 3525) (DM, CL), the Fondation pour la Recherche Médicale (FRM Grant No. EQU202103012569) (DM), the ANR Chromintevol (ANR-21-CE12-0002-01) (CL), the French Government’s Investissement d’Avenir program Laboratoire d’Excellence ‘Integrative Biology of Emerging Infectious Diseases’ (ANR-10-LABX-62-IBEID) (DM), the Inception program (Investissement d’Avenir grant ANR-16-CONV- 0005) (ER), the Ministère de l’Enseignement Supérieur et de la Recherche and the Direction Générale de l’Armement (DGA) (EL). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript., We thank Marc Monot, Laurence Ma, Juliana Pipoli Da Fonseca and Laure Lemée from the Biomics platform, C2RT, Institut Pasteur, Paris, France, supported by France Génomique (ANR-10-INBS-09) and IBISA, ANR-21-CE12-0002,Chromintevol,Etude de l'impact des intégrons chromosomiques sur l'évolution des bactéries(2021), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016)

المصدر: ISSN: 1553-7390.

مصطلحات موضوعية: bacterial evolution, genome plasticity, genome organization, site specific recombination, homologous recombination, mobile elements, sedentary chromosomal integron, MESH: Bacteria, MESH: DNA Transposable Elements, MESH: Integrases, MESH: Integrons, [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology

Relation: info:eu-repo/semantics/altIdentifier/pmid/38578806; PUBMED: 38578806; PUBMEDCENTRAL: PMC11023631

الاتاحة: https://pasteur.hal.science/pasteur-04305445
https://pasteur.hal.science/pasteur-04305445v1/document
https://pasteur.hal.science/pasteur-04305445v1/file/2023%20BioRxiv_Loot_v2.full.pdf
https://doi.org/10.1371/journal.pgen.1011231

المؤلفون: Richard, Egill, Darracq, Baptiste, Littner, Eloi, Vit, Claire, Whiteway, Clémence, Bos, Julia, Fournes, Florian, Garriss, Geneviève, Conte, Valentin, Lapaillerie, Delphine, Parissi, Vincent, Rousset, François, Skovgaard, Ole, Bikard, David, Rocha, Eduardo, P. C., Mazel, Didier, Loot, Céline

المساهمون: Plasticité du Génome Bactérien - Bacterial Genome Plasticity (PGB), Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Ecole Doctorale Complexité du Vivant (ED515), Sorbonne Université (SU), Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Centre d'Études du Bouchet (DGA Maitrise NRBC), Délégation Générale pour l'Armement, Microbiologie Fondamentale et Pathogénicité (MFP), Université Bordeaux Segalen - Bordeaux 2-Centre National de la Recherche Scientifique (CNRS), Biologie de Synthèse - Synthetic biology, Université Paris Cité (UPCité)-Microbiologie Intégrative et Moléculaire (UMR6047), Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS), Roskilde University, This work was supported by Institut Pasteur, Centre National de la Recherche Scientifique (CNRS-UMR 3525), Fondation pour la Recherche Médicale (FRM grant no. EQU202103012569 to D.M.), ANR Chromintevol (ANR-21-CE12-0002-01 to C.L.), French Government’s Investissement d’Avenir program Laboratoire d’Excellence “Integrative Biology of Emerging Infectious Diseases” (ANR-10-LABX-62-IBEID to D.M.), Ministère de l’Enseignement Supérieur et de la Recherche, and the Direction Générale de l’Armement (DGA)., ANR-21-CE12-0002,Chromintevol,Etude de l'impact des intégrons chromosiques sur l'évolution des bactéries(2021), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010)

المصدر: ISSN: 2375-2548 ; Science Advances ; https://hal.science/hal-04397951 ; Science Advances , 2024, 10 (2), pp.eadj3498. ⟨10.1126/sciadv.adj3498⟩.

مصطلحات موضوعية: Integrons, Toxin-Antitoxin Systems, Bacteria, Genome, Bacterial, Recombination, Genetic, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN]

Relation: info:eu-repo/semantics/altIdentifier/pmid/38215203; hal-04397951; https://hal.science/hal-04397951; https://hal.science/hal-04397951/document; https://hal.science/hal-04397951/file/MFP_Sci.%20Adv_2024_Richard.pdf; PUBMED: 38215203

الاتاحة: https://hal.science/hal-04397951
https://hal.science/hal-04397951/document
https://hal.science/hal-04397951/file/MFP_Sci.%20Adv_2024_Richard.pdf
https://doi.org/10.1126/sciadv.adj3498

المؤلفون: Barcia-cruz, Rubén, Goudenège, David, Moura De Sousa, Jorge A., Piel, Damien, Marbouty, Martial, Rocha, Eduardo P. C., Le Roux, Frederique

المصدر: Nature Communications (2041-1723) (Springer Science and Business Media LLC), 2024-01 , Vol. 15 , N. 1 , P. 664 (13p.)

وصف الملف: application/pdf

Relation: https://archimer.ifremer.fr/doc/00873/98449/107897.pdf; https://archimer.ifremer.fr/doc/00873/98449/107898.pdf; https://archimer.ifremer.fr/doc/00873/98449/107899.pdf; https://archimer.ifremer.fr/doc/00873/98449/107900.pdf; https://archimer.ifremer.fr/doc/00873/98449/107901.xlsx; https://archimer.ifremer.fr/doc/00873/98449/107902.zip; https://archimer.ifremer.fr/doc/00873/98449/107903.zip; https://archimer.ifremer.fr/doc/00873/98449/107904.pdf; https://archimer.ifremer.fr/doc/00873/98449/107905.zip; https://archimer.ifremer.fr/doc/00873/98449/

الاتاحة: https://archimer.ifremer.fr/doc/00873/98449/107897.pdf
https://archimer.ifremer.fr/doc/00873/98449/107898.pdf
https://archimer.ifremer.fr/doc/00873/98449/107899.pdf
https://archimer.ifremer.fr/doc/00873/98449/107900.pdf
https://archimer.ifremer.fr/doc/00873/98449/107901.xlsx
https://archimer.ifremer.fr/doc/00873/98449/107902.zip
https://archimer.ifremer.fr/doc/00873/98449/107903.zip
https://archimer.ifremer.fr/doc/00873/98449/107904.pdf
https://archimer.ifremer.fr/doc/00873/98449/107905.zip
https://doi.org/10.1038/s41467-024-44965-1

المؤلفون: Bongiovanni, Thibault R., Latario, Casey J., Le Cras, Youn, Trus, Evan, Robitaille, Sophie, Swartz, Kerry, Schmidtke, Danica, Vincent, Maxence, Kosta, Artemis, Orth, Jan, Stengel, Florian, Pellarin, Riccardo, Rocha, Eduardo P. C., Ross, Benjamin D., Durand, Eric

المصدر: Nature Communications ; volume 15, issue 1 ; ISSN 2041-1723

الاتاحة: http://dx.doi.org/10.1038/s41467-023-44426-1
https://www.nature.com/articles/s41467-023-44426-1.pdf
https://www.nature.com/articles/s41467-023-44426-1

المؤلفون: Madin, Joshua S, Nielsen, Daniel A, Brbic, Maria, Corkrey, Ross, Danko, David, Edwards, Kyle, Engqvist, Martin KM, Fierer, Noah, Geoghegan, Jemma L, Gillings, Michael, Kyrpides, Nikos C, Litchman, Elena, Mason, Christopher E, Moore, Lisa, Nielsen, Søren L, Paulsen, Ian T, Price, Nathan D, Reddy, TBK, Richards, Matthew A, Rocha, Eduardo PC, Schmidt, Thomas M, Shaaban, Heba, Shukla, Maulik, Supek, Fran, Tetu, Sasha G, Vieira-Silva, Sara, Wattam, Alice R, Westfall, David A, Westoby, Mark

المصدر: Scientific data. 7(1)

مصطلحات موضوعية: Bacteria, Archaea, Ecosystem, Phenotype, Genome, Bacterial, Genome, Archaeal

وصف الملف: application/pdf

URL الوصول: https://escholarship.org/uc/item/8qh212fq