Directed evolution of microbial communities

Á Sánchez, JCC Vila, CY Chang… - Annual review of …, 2021 - annualreviews.org
Directed evolution is a form of artificial selection that has been used for decades to find
biomolecules and organisms with new or enhanced functional traits. Directed evolution can …

Insights into constructing a stable and efficient microbial consortium

C Xu, H Yu - Chinese Journal of Chemical Engineering, 2021 - Elsevier
Microbial consortia are ubiquitous in nature, in which multiple microbial species cooperate
to complete some important tasks such as lignocellulose degradation. Because of the …

Partitioning of a 2-bit hash function across 66 communicating cells

JP Padmakumar, JJ Sun, W Cho, Y Zhou… - Nature Chemical …, 2024 - nature.com
Powerful distributed computing can be achieved by communicating cells that individually
perform simple operations. Here, we report design software to divide a large genetic circuit …

Engineering a scalable and orthogonal platform for synthetic communication in mammalian cells

AM Makri Pistikou, GAO Cremers, BL Nathalia… - Nature …, 2023 - nature.com
The rational design and implementation of synthetic mammalian communication systems
can unravel fundamental design principles of cell communication circuits and offer a …

Addressable and adaptable intercellular communication via DNA messaging

JP Marken, RM Murray - Nature Communications, 2023 - nature.com
Engineered consortia are a major research focus for synthetic biologists because they can
implement sophisticated behaviors inaccessible to single-strain systems. However, this …

Probing patterning in microbial consortia with a cellular automaton for spatial organisation

S Venkatraghavan, S Anantakrishnan, K Raman - Scientific Reports, 2022 - nature.com
Microbial consortia exhibit spatial patterning across diverse environments. Since probing the
self-organization of natural microbial communities is limited by their inherent complexity …

Biofilm and swarming emergent behaviours controlled through the aid of biophysical understanding and tools

I Grobas, DG Bazzoli, M Asally - Biochemical Society …, 2020 - portlandpress.com
Bacteria can organise themselves into communities in the forms of biofilms and swarms.
Through chemical and physical interactions between cells, these communities exhibit …

Emergent digital bio-computation through spatial diffusion and engineered bacteria

AJH Fedorec, NJ Treloar, KY Wen, L Dekker… - Nature …, 2024 - nature.com
Biological computing is a promising field with potential applications in biosafety,
environmental monitoring, and personalized medicine. Here we present work on the design …

FlopR: an open source software package for calibration and normalization of plate reader and flow cytometry data

AJH Fedorec, CM Robinson, KY Wen… - ACS Synthetic …, 2020 - ACS Publications
The measurement of gene expression using fluorescence markers has been a cornerstone
of synthetic biology for the past two decades. However, the use of arbitrary units has limited …

Self-adaptive biosystems through tunable genetic parts and circuits

V Bartoli, M di Bernardo, TE Gorochowski - Current Opinion in Systems …, 2020 - Elsevier
Biological systems often need to operate in complex environments where conditions can
rapidly change. This is possible because of their inherent ability to sense changes and …