High-throughput conjugation reveals strain specific recombination patterns enabling precise trait mapping in Escherichia coli

• Thibault Corneloup ,

  Contributed equally to this work with: Thibault Corneloup, Juliette Bellengier, Alaksh Choudhury, Olivier Tenaillon

  Roles Data curation, Formal analysis, Investigation, Methodology, Validation, Visualization, Writing – original draft, Writing – review & editing

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France, Université Paris Cité, Paris, France

  https://orcid.org/0009-0001-1409-7451

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• Juliette Bellengier ,

  Contributed equally to this work with: Thibault Corneloup, Juliette Bellengier, Alaksh Choudhury, Olivier Tenaillon

  Roles Data curation, Formal analysis, Investigation, Methodology, Validation, Visualization, Writing – original draft, Writing – review & editing

  * E-mail: olivier.tenaillon@inserm.fr (OT); juliette.bellengier@pasteur.fr (JB)

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France, Université Paris Cité, Paris, France, Ecology and Evolution of Antibiotic Resistance Unit, Institut Pasteur, Paris, France

  https://orcid.org/0000-0002-9654-9270

  ⨯
• Isabelle Rosinski-Chupin,

  Roles Writing – original draft, Writing – review & editing

  Affiliation Ecology and Evolution of Antibiotic Resistance Unit, Institut Pasteur, Paris, France

  https://orcid.org/0000-0002-5464-0949

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• Mélanie Magnan,

  Roles Investigation, Methodology

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France

  ⨯
• Arsh Chavan,

  Roles Investigation

  Affiliations Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France, Department of Biology, Indian Institute of Science Education and Research, Pune, India

  https://orcid.org/0009-0003-2801-9977

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• Benoit Gachet,

  Roles Investigation

  Affiliation Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France

  ⨯
• Zoya Dixit,

  Roles Investigation, Methodology

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France, Université Paris Cité, Paris, France

  ⨯
• Coralie Pintard,

  Roles Investigation

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Centre de Recherche sur l’Inflammation, INSERM U1149, Université Paris Cité, Paris, France

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• Alexandra Baron,

  Roles Investigation

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Laboratoire de Biophysique et Evolution (LBE), ESPCI, UMR CNRS-ESPCI 8231 Chemistry, Biology and Innovation, Paris, France

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• Doreen Toko,

  Roles Investigation

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France

  ⨯
• Amaury Lambert,

  Roles Investigation, Methodology, Writing – original draft, Writing – review & editing

  Affiliations Center for Interdisciplinary Research in Biology (CIRB), Collège de France, CNRS, INSERM, Université PSL, Paris, France, Institut de Biologie de l’ENS (IBENS), École Normale Supérieure (ENS), CNRS, INSERM, Université PSL, Paris, France

  https://orcid.org/0000-0002-7248-9955

  ⨯
• Alaksh Choudhury ,

  Contributed equally to this work with: Thibault Corneloup, Juliette Bellengier, Alaksh Choudhury, Olivier Tenaillon

  Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France, Laboratoire de Biophysique et Evolution (LBE), ESPCI, UMR CNRS-ESPCI 8231 Chemistry, Biology and Innovation, Paris, France, Génomique Métabolique, Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry-Courcouronnes, France

  https://orcid.org/0000-0002-2080-3551

  ⨯
• Olivier Tenaillon

  Contributed equally to this work with: Thibault Corneloup, Juliette Bellengier, Alaksh Choudhury, Olivier Tenaillon

  Roles Conceptualization, Data curation, Formal analysis, Funding acquisition, Investigation, Methodology, Project administration, Resources, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing

  * E-mail: olivier.tenaillon@inserm.fr (OT); juliette.bellengier@pasteur.fr (JB)

  Affiliations Université Paris Cité and Université Sorbonne Paris Nord, Inserm, IAME, Paris, France, Université Paris Cité, CNRS, Inserm, Institut Cochin, Paris, France

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