DesiBio · Designer Biofilms: controlling cellular interactions by printing bacteria onto rationally micro-shaped surfaces.

Bacterial biofilms–conglomerates of bacteria held together by an extracellular matrix–play a major role in our lives including disrupting medical implants, industrial pipelines, or providing antibiotic tolerance to bacteria deep within biofilms by e.g., limiting antibiotic diffusion. It is imperative we understand biofilm population dynamics to improve both our health and industrial processes. However, biofilms are difficult to study because 1) they often contain multiple bacterial species or multiple genetic variants of a single species that form biofilm subpopulations, where the interactions of subpopulations are controlled by their spatial distribution within the biofilm and 2) they are often found growing on irregular surfaces with nooks and crevices, in contrast to most biofilm models on flat agar surfaces. To understand the biofilm dynamics, and thus to control it, it is crucial to analyze the impact of the surface shape and the spatial distribution of biofilm subpopulations on the biofilm formation and growth. However, we lack tractable methods to do so for several days necessary for a typical biofilm to stabilize. Here we propose a synergistic effort based on years of research by myself (surface irregularity, microfluidics expert) and the Imperial College Host (bacteria printing expert), where we aim to use microfabrication techniques, microfluidics, and droplet printing to develop a system to follow bacterial interactions in a growing biofilm where we control: a) the initial patterning of the community, b) surface irregularities on which the community grows, c) cell-surface interactions. We will work with Prof. Sujit Datta at Caltech (secondment) to follow mutant spread in biofilms in porous beds, and we will work with a Paris-based company Hummink to potentially the results of DesiBio for potential commercialization (non-academic placement).