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Related Experiment Video

Updated: Dec 22, 2025

Microfluidic Tools for Probing Fungal-Microbial Interactions at the Cellular Level
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Functional Imaging of Microbial Interactions With Tree Roots Using a Microfluidics Setup.

Marie-Francoise Noirot-Gros1, Shalaka V Shinde1, Chase Akins1

  • 1Biosciences Division, Argonne National Laboratory, Lemont, IL, United States.

Frontiers in Plant Science
|May 1, 2020
PubMed
Summary
This summary is machine-generated.

Researchers developed a microfluidic device for studying root-microbe interactions (RMIs) in aspen trees. This RMI-chip enables long-term observation of root colonization by bacteria like Pseudomonas fluorescens.

Keywords:
Bacillus subtilisPopulus tremuloidesPseudomonas fluorescensbiosensormicrofluidicsroot-microbe interaction

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Area of Science:

  • Plant Science
  • Microbiology
  • Bioengineering

Background:

  • Microfluidics coupled with microscopy offers high-resolution insights into plant physiology and root-microbe interactions (RMIs).
  • Current microfluidic devices primarily focus on model plants like Arabidopsis thaliana, necessitating tools for woody plants.

Purpose of the Study:

  • To develop a microfluidic device for in vivo studies of root development and RMIs in woody plants.
  • To enable continuous microscopic observation of live root-bacteria interactions over extended periods.

Main Methods:

  • Development of the RMI-chip, a microfluidic setup allowing aspen tree (Populus tremuloides) seedlings to grow for over a month.
  • Microscopic observation of root colonization by Pseudomonas fluorescens and the use of Bacillus subtilis whole-cell biosensors.

Main Results:

  • The RMI-chip successfully supported aspen seedling growth and allowed observation of dynamic biofilm formation and dispersal by Pseudomonas fluorescens.
  • Bacillus subtilis biosensors could monitor rhizosphere changes but faced limitations in colonizing and persisting on aspen roots.

Conclusions:

  • The RMI-chip is a viable tool for studying root-bacteria dynamics in woody plants.
  • Effective functional imaging of root-bacteria interactions necessitates careful selection of plant-microbe pairings.