Culture-specific transcriptional drifts limit the fidelity of organoid infection models

• Paula E. Schweizer,

  Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Visualization, Writing – original draft

  Affiliation Institute of Animal Hygiene and Veterinary Public Health, Leipzig University, Leipzig, Germany

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• Wisal A. Elmagzoub,

  Roles Investigation, Writing – review & editing

  Affiliations Institute of Animal Hygiene and Veterinary Public Health, Leipzig University, Leipzig, Germany, Department of Animal Health and Safety of Animal Products, University of Khartoum, Khartoum, Sudan

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• Sanaa M. Idris,

  Roles Investigation, Writing – review & editing

  Affiliations Institute of Animal Hygiene and Veterinary Public Health, Leipzig University, Leipzig, Germany, Department of Animal Health and Safety of Animal Products, University of Khartoum, Khartoum, Sudan, Department of Pathology, Faculty of Veterinary Medicine, University of Khartoum, Khartoum, Sudan

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• Kamal H. Eltom,

  Roles Conceptualization, Funding acquisition, Supervision, Writing – review & editing

  Affiliations Institute of Animal Hygiene and Veterinary Public Health, Leipzig University, Leipzig, Germany, Department of Animal Health and Safety of Animal Products, University of Khartoum, Khartoum, Sudan

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• Julius B. Okuni,

  Roles Conceptualization, Funding acquisition, Supervision, Writing – review & editing

  Affiliation College of Veterinary Medicine, Animal Resources and Biosecurity, Makerere University, Kampala, Uganda

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• Lonzy Ojok,

  Roles Conceptualization, Funding acquisition, Supervision, Writing – review & editing

  Affiliations College of Veterinary Medicine, Animal Resources and Biosecurity, Makerere University, Kampala, Uganda, Department of Pathology, Faculty of Medicine, Gulu University, Gulu, Uganda

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• ElSagad Eltayeb,

  Roles Conceptualization, Funding acquisition, Supervision, Writing – review & editing

  Affiliation Faculty of Medicine, Al Neelain University/ Ibn Sina Specialised Hospital, Khartoum, Sudan

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• Ahmad Amanzada,

  Roles Conceptualization, Funding acquisition, Supervision, Writing – review & editing

  Affiliation Department of Gastroenterology and Gastrointestinal Oncology, Georg-August University Goettingen, Goettingen, Germany

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• Marianne Quaas,

  Roles Methodology, Writing – review & editing

  Affiliation Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery, Leipzig University and University Hospital, Leipzig, Germany

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• Gabriela Aust,

  Roles Methodology, Writing – review & editing

  Affiliation Research Laboratories and Clinic of Visceral, Transplantation, Thoracic, and Vascular Surgery, Leipzig University and University Hospital, Leipzig, Germany

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• Maxi Harzer,

  Roles Conceptualization, Methodology, Writing – review & editing

  Affiliation Institute of Virology, Faculty of Veterinary Medicine, Leipzig University, Leipzig, Germany

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• Thomas W. Vahlenkamp,

  Roles Methodology, Writing – review & editing

  Affiliation Institute of Virology, Faculty of Veterinary Medicine, Leipzig University, Leipzig, Germany

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• Nico Jehmlich,

  Roles Conceptualization, Methodology, Writing – review & editing

  Affiliation Department of Molecular Toxicology, Helmholtz-Centre for Environmental Research GmbH, Leipzig, Germany

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• Marlon R. Schneider,

  Roles Conceptualization, Methodology, Resources, Writing – review & editing

  Affiliation Institute of Veterinary Physiology, Leipzig University, Leipzig, Germany

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• Guntram A. Grassl,

  Roles Conceptualization, Methodology, Writing – review & editing

  Affiliations Institute of Medical Microbiology and Hospital Epidemiology, Hannover Medical School, Hanover, Germany, German Center for Infection Research (DZIF), Partner-Site Hannover-Braunschweig, Hanover, Germany

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• Jens Puschhof,

  Roles Conceptualization, Methodology, Writing – review & editing

  Affiliation Microbiome and Cancer Division, German Cancer Research Center (DKFZ), Heidelberg, Germany

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• Knut Krohn,

  Roles Data curation, Formal analysis, Investigation, Writing – review & editing

  Affiliation Interdisciplinary Center for Clinical Research, Faculty of Medicine, Leipzig University, Leipzig, Germany

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• Ralph Goethe,

  Roles Conceptualization, Methodology, Writing – review & editing

  Affiliation Institute for Microbiology, University of Veterinary Medicine, Hanover, Germany

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• Uwe Truyen,

  Roles Funding acquisition, Resources, Writing – review & editing

  Affiliation Institute of Animal Hygiene and Veterinary Public Health, Leipzig University, Leipzig, Germany

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• Jörg Galle ,

  Contributed equally to this work with: Jörg Galle, Ahmed Abd El Wahed

  Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Supervision, Visualization, Writing – original draft

  Affiliation Interdisciplinary Centre for Bioinformatics (IZBI), Leipzig University, Leipzig, Germany

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•  [ ... ],
• Ahmed Abd El Wahed

  Contributed equally to this work with: Jörg Galle, Ahmed Abd El Wahed

  Roles Conceptualization, Funding acquisition, Methodology, Project administration, Supervision, Writing – original draft

  * E-mail: ahmed.abd_el_wahed@uni-leipzig.de

  Affiliation Institute of Animal Hygiene and Veterinary Public Health, Leipzig University, Leipzig, Germany

  https://orcid.org/0000-0003-3347-6075

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