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REVIEW article

Front. Immunol.
Sec. Comparative Immunology
Volume 16 - 2025 | doi: 10.3389/fimmu.2025.1488699

Applying 3D cultures and high-throughput technologies to study hostpathogen interactions

Provisionally accepted
Elaine CP De Martinis Elaine CP De Martinis 1Virgínia Farias Alves Virgínia Farias Alves 2Marita Gimenez Pereira Marita Gimenez Pereira 1Leonardo Neves Andrade Leonardo Neves Andrade 1Nathália Abichabki Nathália Abichabki 1Anna Abramova Anna Abramova 3,4Mirjam Dannborg Mirjam Dannborg 3,4,5Johan Bengtsson-Palme Johan Bengtsson-Palme 3,4,5*
  • 1 University of São Paulo, Ribeirão Preto, Ribeirão Preto, São Paulo, Brazil
  • 2 Faculdade de Farmácia, Universidade Federal de Goiás, Goiania, Goias, Brazil
  • 3 Dept. for Life Sciences, Chalmers University of Technology, Göteborg, Vastra Gotaland County, Sweden
  • 4 Centre for Antibiotic Resistance research, University of Gothenburg, Gothenburg, Sweden
  • 5 Department of Infectious Diseases, University of Gothenburg, Gothenburg, Västergötland, Sweden

The final, formatted version of the article will be published soon.

    Recent advances in cell culturing and DNA sequencing have dramatically altered the field of human microbiome research. Three-dimensional (3D) cell culture is an important tool in cell biology, in cancer research, and for studying host-microbe interactions, as it mimics the in vivo characteristics of the host environment in an in vitro system, providing reliable and reproducible models. This work provides an overview of the main 3D culture techniques applied to study interactions between host cells and pathogenic microorganisms, how these systems can be integrated with high-throughput molecular methods, and how multi-species model systems may pave the way forward to pinpoint interactions among host, beneficial microbes and pathogens.

    Keywords: tridimensional cell culture, Organoids, organ-on-a-chip, rotating wall vessel (RWV), high-throughput sequencing, Transposon sequencing (TnSeq), microbial model communities

    Received: 30 Aug 2024; Accepted: 04 Feb 2025.

    Copyright: © 2025 De Martinis, Alves, Pereira, Andrade, Abichabki, Abramova, Dannborg and Bengtsson-Palme. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

    * Correspondence: Johan Bengtsson-Palme, Dept. for Life Sciences, Chalmers University of Technology, Göteborg, 412 96, Vastra Gotaland County, Sweden

    Disclaimer: All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article or claim that may be made by its manufacturer is not guaranteed or endorsed by the publisher.