Yolanda Schaerli

The paper engineers a bacterial biosensor to map micron-scale arabinose gradients in the honeybee gut, revealing heterogeneous nutrient distribution influenced by co-colonizing microbes.

This study uses engineered Escherichia coli motility to control Voronoi patterns in 2D and 3D, generating programmable spatial structures.

This paper engineers a multi-step differentiation program in E. coli to generate self-organized spatial patterns through symmetry breaking, paracrine, and autocrine signaling.

The paper investigates competition between gut symbionts in honeybees, showing that spatial niche competition and bacterial factors influence microbiota variation.

The paper proposes novel oscillator-based circuit designs for synthetic biology and models interactions of intracellularly coupled oscillators, predicting dynamic behaviors and potential applications in bacterial systems.

The paper introduces GRN_modeler, a user-friendly tool for constructing and evaluating gene regulatory networks, demonstrating its application in designing oscillators and a light biosensor in E. coli.

The paper analyzes the AC-DC genetic circuit to show it can exhibit diverse multifunctional dynamics, including coexisting oscillations and multistability, challenging traditional views of network constraints.

This paper develops a method for intercellular communication in E. coli using M13 phagemids and CRISPR-based gene regulation to build logic gates for multicellular computing.

This study shows that amino acid uptake and leakage rates determine microbial community structure and composition in synthetic E. coli consortia.

The paper designs and studies a synthetic optogenetic oscillator in E. coli, demonstrating complex spatiotemporal patterns including synchronization, resonance, and chaos under periodic light exposure.

This study shows fecal transplantation in honey bees transfers gut microbiota similar to gut homogenates, supporting fecal contact as a route for microbiota acquisition.

The paper shows that using the same guide RNA structure for CRISPRi and CRISPRa in E. coli prevents context-dependent effects, ensuring predictable gene circuit behavior.

The paper constructs synthetic genotype networks of gene regulatory networks in E. coli to study robustness and evolvability in genotype-phenotype maps.

The paper develops a biosensor in the honey bee gut bacterium to detect IPTG exposure through fluorescent protein expression, enabling non-invasive fecal sampling.

This paper designs and demonstrates CRISPRi-based synthetic gene circuits in E. coli, including an oscillator, bistable switch, and stripe pattern-forming IFFL, showing the potential of CRISPRi for dynamic and multistable circuit construction.

This study builds a synthetic toggle switch in E. coli to control spatiotemporal gene expression patterns using diffusible molecules and mathematical modeling.

The paper introduces a modular cloning framework for assembling synthetic gene circuits in E. coli, reducing construction time and costs through a two-step Gibson assembly process.

The paper shows that different gene regulatory networks in E. coli constrain phenotypic variation differently, even when producing the same phenotype.