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Cooperative assembly confers regulatory specificity and long-term genetic circuit stability [ChIP-Seq]

ABSTRACT: Cooperative assembly confers regulatory specificity and long-term genetic circuit stability [ChIP-Seq]

PROVIDER: PRJNA838835 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19240540_1.fastq.gz	Fastqsanger.gz
	SRR19240540_2.fastq.gz	Fastqsanger.gz
	SRR19240541_1.fastq.gz	Fastqsanger.gz
	SRR19240541_2.fastq.gz	Fastqsanger.gz
	SRR19240542_1.fastq.gz	Fastqsanger.gz

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Cooperative assembly confers regulatory specificity and long-term genetic circuit stability

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Cooperative assembly confers regulatory specificity and long-term genetic circuit stability [RNA-seq]

Project description:In eukaryotes, links in gene regulatory networks are often maintained through cooperative self-assembly between transcriptional regulators (TR) and DNA cis-regulatory motifs, a strategy widely thought to enable highly specific regulatory connections to be formed between otherwise weakly-interacting, low-specificity molecular components. Here, we directly test whether this regulatory strategy can be used to engineer regulatory specificity in synthetic gene circuits constructed in yeast. We show that circuits composed of artificial zinc-finger TRs can be effectively insulated from aberrant misregulation of the host cell genome by using cooperative multivalent TR assemblies to program circuit connections. As we demonstrate in experiments and mathematical models, assembly-mediated regulatory connections enable mitigation of circuit-driven fitness defects, resulting in genetic and functional stability of circuits in long-term continuous culture. Our naturally-inspired approach offers a simple, generalizable means for building evolutionarily robust gene circuits that can be scaled to a wide range of host organisms and applications.

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Cooperative assembly confers regulatory specificity and long-term genetic circuit stability [ChIP-Seq]

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Cooperative assembly confers regulatory specificity and long-term genetic circuit stability.

Project description:A ubiquitous feature of eukaryotic transcriptional regulation is cooperative self-assembly between transcription factors (TFs) and DNA cis-regulatory motifs. It is thought that this strategy enables specific regulatory connections to be formed in gene networks between otherwise weakly interacting, low-specificity molecular components. Here, using synthetic gene circuits constructed in yeast, we find that high regulatory specificity can emerge from cooperative, multivalent interactions among artificial zinc-finger-based TFs. We show that circuits "wired" using the strategy of cooperative TF assembly are effectively insulated from aberrant misregulation of the host cell genome. As we demonstrate in experiments and mathematical models, this mechanism is sufficient to rescue circuit-driven fitness defects, resulting in genetic and functional stability of circuits in long-term continuous culture. Our naturally inspired approach offers a simple, generalizable means for building high-fidelity, evolutionarily robust gene circuits that can be scaled to a wide range of host organisms and applications.

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Cooperative assembly confers regulatory specificity and long-term genetic circuit stability

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