Expanded roles of lactate-sensing LldR in transcription regulation of the Escherichia coli K-12 genome: lactate utilisation and acid resistance

Anzai, Takumi; Kijima, Kaede; Fujimori, Mitsugu; Nakamoto, Shinichi; Ishihama, Akira; Shimada, Tomohiro

doi:10.1099/mgen.0.001015

Cited by 2 publications

(2 citation statements)

References 60 publications

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“…RNA purity was verified using electrophoresis on a 1.2% agarose gel with formaldehyde, and followed by GelRed-staining. Northern blot analysis was performed as described previously [ 32 ]. Digoxigenin (DIG)-labelled probes were prepared using PCR amplification using BW25113 genomic DNA as a template with a pair of primers ( Table S1b ), DIG-11-dUTP (Roche, Basel, Switzerland), dNTP, gene-specific pair primers, and Ex Taq DNA polymerase.…”

Section: Methodsmentioning

confidence: 99%

Regulatory Role of GgaR (YegW) for Glycogen Accumulation in Escherichia coli K-12

Saito,

Kobayashi,

Hoshina

et al. 2024

Microorganisms

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Glycogen, the stored form of glucose, accumulates upon growth arrest in the presence of an excess carbon source in Escherichia coli and other bacteria. Chromatin immunoprecipitation screening for the binding site of a functionally unknown GntR family transcription factor, YegW, revealed that the yegTUV operon was a single target of the E. coli genome. Although none of the genes in the yegTUV operon have a clear function, a previous study suggested their involvement in the production of ADP-glucose (ADPG), a glycogen precursor. Various validation through in vivo and in vitro experiments showed that YegW is a single-target transcription factor that acts as a repressor of yegTUV, with an intracellular concentration of consistently approximately 10 molecules, and senses ADPG as an effector. Further analysis revealed that YegW repressed glycogen accumulation in response to increased glucose concentration, which was not accompanied by changes in the growth phase. In minimal glucose medium, yegW-deficient E. coli promoted glycogen accumulation, at the expense of poor cell proliferation. We concluded that YegW is a single-target transcription factor that senses ADPG and represses glycogen accumulation in response to the amount of glucose available to the cell. We propose renaming YegW to GgaR (repressor of glycogen accumulation).

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Section: Methodsmentioning

confidence: 99%

Regulatory Role of GgaR (YegW) for Glycogen Accumulation in Escherichia coli K-12

Saito,

Kobayashi,

Hoshina

et al. 2024

Microorganisms

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“…factor LldR, a member of the GntR family. LldR is capable of sensing l-lactate [44]. It derepresses the PLldR promoter, and actives the expression of LuxCDE in the presence of Lactate, located on the HCP.…”

Section: Lcp the Lactate-responsive Pathway Contains The Constitutive...mentioning

confidence: 99%

Engineering Coupled Consortia-Based Biosensors using Incoherent Feedforward Loops

Daniel,

Huang,

Kravchik

et al. 2024

Preprint

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Synthetic multicellular systems offer the potential for performing complex biological tasks through coordinated cell-to-cell communication. However, the engineering of these systems faces challenges, including managing population ratios, cell growth rates, and asynchronous activity. To minimize the impact of these factors on the multicellular design, we developed coupled bacterial consortia designed for multi-marker detection by employing a stable shared quorum sensing signal, enabling the simultaneous initiation of their activities. The shared signal is driven by an incoherent feedforward loop (IFFL) gene circuit capable of generating a consistently low-level plateau-like signal that persists over 20 cell generations. This stability ensures a consistent synthesis rate of molecules and prevents unintended amplification during signal transduction, allowing for the efficient simultaneous initiation of activities among consortium members. We examined the consortia-based biosensor by monitoring Lactate and Heme in humanized fecal samples for 40 hours. Our findings provide insights into the IFFL system's dynamic response and long-term temporal stability, making them valuable for biotechnological applications. Particularly during the scaling of synthetic multicellular systems, where maintaining consistent cell density ratios among different strains within consortia is critical.

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Expanded roles of lactate-sensing LldR in transcription regulation of the Escherichia coli K-12 genome: lactate utilisation and acid resistance

Cited by 2 publications

References 60 publications

Regulatory Role of GgaR (YegW) for Glycogen Accumulation in Escherichia coli K-12

Regulatory Role of GgaR (YegW) for Glycogen Accumulation in Escherichia coli K-12

Engineering Coupled Consortia-Based Biosensors using Incoherent Feedforward Loops

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