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Showing 1–10 of 10 results
Advanced filters: Author: Yolanda Schaerli Clear advanced filters

  • Synthetic circuits based on CRISPRi have not achieved multistable and dynamic behaviors. Here the authors build an oscillator, a toggle switch and an incoherent feed-forward loop using CRISPRi, and provide a mathematical model suggesting that unspecific binding in CRISPRi enables multistability.

    • Javier Santos-Moreno
    • Eve Tasiudi
    • Yolanda Schaerli
    ResearchOpen Access
    Nature Communications
    Volume: 11, P: 1-8

  • Engineering multicellular consortia, where information processing is distributed across specialized cell types, offers a promising strategy for implementing sophisticated biocomputing systems. Here the authors engineered intercellular communication in synthetic bacterial consortia using phagemids and CRISPR interference for gene control, enabling combinatorial logic gates in multicellular biocomputing.

    • Hadiastri Kusumawardhani
    • Florian Zoppi
    • Yolanda Schaerli
    ResearchOpen Access
    Nature Communications
    Volume: 16, P: 1-13

  • Synthetic biology aims to engineer or re-engineer living systems to achieve increasingly complex functionalities. Here the authors propose oscillator-based circuit designs and use modelling to predict a wide range of distinct dynamic behaviors.

    • Gábor Holló
    • Jung Hun Park
    • Yolanda Schaerli
    ResearchOpen Access
    Nature Communications
    Volume: 17, P: 1-16

  • Constructing gene circuits with predefined behaviours is typically done on a case-by-case basis. Schaerli et al.instead computationally explore the design space for 3-node networks that generate a stripe in response to a morphogen gradient, and build networks based on their simplest possible forms.

    • Yolanda Schaerli
    • Andreea Munteanu
    • Mark Isalan
    ResearchOpen Access
    Nature Communications
    Volume: 5, P: 1-10

  • Directed evolution has emerged as a powerful tool for the identification of improved enzyme catalysts. Now, gel-shell beads are introduced as compartments that cage an enzyme with its encoding DNA, constituting a new genotype–phenotype linkage. Screening of 107 gel-shell beads by flow cytometry leads to an improved phosphotriesterase bioremediation catalyst.

    • Martin Fischlechner
    • Yolanda Schaerli
    • Florian Hollfelder
    Research
    Nature Chemistry
    Volume: 6, P: 791-796

  • Genotype networks are sets of genotypes connected by small mutational changes that share the same phenotype. Here the authors combine construction of over 20 synthetic gene regulatory networks with mathematical modeling to exemplify how gene regulatory networks provide robustness in face of mutations while enabling transitions to innovative phenotypes.

    • Javier Santos-Moreno
    • Eve Tasiudi
    • Yolanda Schaerli
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-17

  • Oscillations are a recurrent phenomenon in biological systems across scales, but deciphering their fundamental principles is very challenging. Here the authors construct a synthetic oscillator in bacteria that can be controlled by light and show that different light conditions can generate complex dynamics that are transformed into distinct spatial ring patterns in bacterial colonies.

    • Jung Hun Park
    • Gábor Holló
    • Yolanda Schaerli
    ResearchOpen Access
    Nature Communications
    Volume: 15, P: 1-13

  • Here, Rueff et al engineered a CRISPRi-based oscillator to rewire capsule production in Streptococcus pneumoniae from its native control. They show that heterogeneity in capsule production is beneficial for fitness in several virulence associated traits.

    • Anne-Stéphanie Rueff
    • Renske van Raaphorst
    • Jan-Willem Veening
    ResearchOpen Access
    Nature Communications
    Volume: 14, P: 1-12

  • Expression of transcription factors to alter gene regulation can cause substantial changes to expression across a genome. Here the authors ‘rewire’ E. coliand analyse the global transcriptome alterations to identify novel network interactions.

    • Rebecca Baumstark
    • Sonja Hänzelmann
    • Mark Isalan
    ResearchOpen Access
    Nature Communications
    Volume: 6, P: 1-11