Enhancing chemical and biological diversity by co-cultivation

Frontiers in Microbiology, Год журнала: 2023, Номер 14

Опубликована: Фев. 1, 2023

In natural product research, microbial metabolites have tremendous potential to provide new therapeutic agents since extremely diverse chemical structures can be found in the nearly infinite population. Conventionally, these specialized are screened by single-strain cultures. However, owing lack of biotic and abiotic interactions monocultures, growth conditions significantly different from those encountered a environment result less diversity frequent re-isolation known compounds. last decade, several methods been developed eventually understand physiological under which cryptic genes activated an attempt stimulate their biosynthesis elicit production hitherto unexpressed diversity. Among those, co-cultivation is one most efficient ways induce silenced pathways, mimicking competitive for holistic regulation metabolites, has become golden methodology metabolome expansion. It does not require previous knowledge signaling mechanism genome nor any special equipment cultivation data interpretation. Several reviews shown produce biologically active leads. only few studies detailed experimental, analytical, microbiological strategies efficiently inducing bioactive molecules co-culture. Therefore, we reviewed applying co-culture secondary metabolite pathways insights into experimental variables compatible with high-throughput analytical procedures. Mixed-fermentation publications 1978 2022 were assessed regarding types set-ups, metabolic induction, interaction effects.

Язык: Английский

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Applications of synthetic microbial consortia in biological control of mycotoxins and fungi

Current Opinion in Food Science, Год журнала: 2023, Номер 53, С. 101074 - 101074

Опубликована: Июль 16, 2023

Язык: Английский

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An optogenetic toolkit for light-inducible antibiotic resistance

Nature Communications, Год журнала: 2023, Номер 14(1)

Опубликована: Фев. 23, 2023

Antibiotics are a key control mechanism for synthetic biology and microbiology. Resistance genes used to select desired cells regulate bacterial populations, however their use to-date has been largely static. Precise spatiotemporal of antibiotic resistance could enable wide variety applications that require dynamic susceptibility survival. Here, we light-inducible Cre recombinase activate expression drug in Escherichia coli. We demonstrate light-activated four antibiotics: carbenicillin, kanamycin, chloramphenicol, tetracycline. Cells exposed blue light survive the presence lethal concentrations, while those kept dark do not. To optimize induction, vary promoter, ribosome binding site, enzyme variant strength using chromosome plasmid-based constructs. then link inducible heterologous fatty acid increase production octanoic acid. These optogenetic tools pave way cell

Язык: Английский

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A coarse-grained bacterial cell model for resource-aware analysis and design of synthetic gene circuits

Nature Communications, Год журнала: 2024, Номер 15(1)

Опубликована: Март 4, 2024

Abstract Within a cell, synthetic and native genes compete for expression machinery, influencing cellular process dynamics through resource couplings. Models that simplify competitive binding kinetics can guide the design of strategies countering these However, in bacteria availability cell growth rate are interlinked, which complicates resource-aware biocircuit design. Capturing this interdependence requires coarse-grained bacterial models balance accurate representation metabolic regulation against simplicity interpretability. We propose E. coli model combines ease simplified coupling analysis with appreciation mechanisms processes relevant Reliably capturing known phenomena, it provides unifying explanation to disparate empirical relations between gene expression. Considering biomolecular controller makes cell-wide ribosome robust perturbations, we showcase our model’s usefulness numerically prototyping biocircuits deriving analytical guidance.

Язык: Английский

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Lighting the way: recent developments and applications in molecular optogenetics

Current Opinion in Biotechnology, Год журнала: 2024, Номер 87, С. 103126 - 103126

Опубликована: Март 29, 2024

Molecular optogenetics utilizes genetically encoded, light-responsive protein switches to control the function of molecular processes. Over last two years, there have been notable advances in development novel optogenetic switches, their utilization elucidating intricate signaling pathways, and progress toward practical applications biotechnological processes, material sciences, therapeutic applications. In this review, we discuss these areas, offer insights into recent developments, contemplate future directions.

Язык: Английский

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Automated adjustment of metabolic niches enables the control of natural and engineered microbial co-cultures

Trends in biotechnology, Год журнала: 2025, Номер unknown

Опубликована: Янв. 1, 2025

Язык: Английский

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Conformational-switch biosensors as novel tools to support continuous, real-time molecular monitoring in lab-on-a-chip devices

Lab on a Chip, Год журнала: 2023, Номер 23(5), С. 1339 - 1348

Опубликована: Янв. 1, 2023

Recent years have seen continued expansion of the functionality lab on a chip (LOC) devices. Indeed LOCs now provide scientists and developers with useful versatile platforms across myriad chemical biological applications. The field still fails, however, to integrate an often important element bench-top analytics: real-time molecular measurements that can be used "guide" response. Here we describe analytical techniques could such monitoring capabilities. It appears us that, among approaches are general (

Язык: Английский

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Inteins: A Swiss army knife for synthetic biology

Biotechnology Advances, Год журнала: 2024, Номер 73, С. 108349 - 108349

Опубликована: Март 27, 2024

Язык: Английский

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Optogenetic Control of Bacterial Cell‐Cell Adhesion Dynamics: Unraveling the Influence on Biofilm Architecture and Functionality

Advanced Science, Год журнала: 2024, Номер 11(23)

Опубликована: Апрель 13, 2024

Abstract The transition of bacteria from an individualistic to a biofilm lifestyle profoundly alters their biology. During development, the bacterial cell‐cell adhesions are major determinant initial microcolonies, which serve as kernels for subsequent microscopic and mesoscopic structure biofilm, determine resulting functionality. In this study, significance adhesion dynamics on aggregation maturation is elucidated. Using photoswitchable adhesins between bacteria, modifying with periodic dark‐light cycles systematic. Dynamic liquid‐like behavior improve produce more compact microcolonies than static solid‐like in both experiments individual‐based simulations. Consequently, dynamic give rise earlier quorum sensing activation, better intermixing different populations, improved maturation, changes growth cocultures, higher yields fermentation. here presented approach tuning opens door regulating function biofilms cocultures potential biotechnological applications.

Язык: Английский

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Light-regulated gene expression in Bacteria: Fundamentals, advances, and perspectives

Frontiers in Bioengineering and Biotechnology, Год журнала: 2022, Номер 10

Опубликована: Окт. 14, 2022

Numerous photoreceptors and genetic circuits emerged over the past two decades now enable light-dependent i.e., optogenetic, regulation of gene expression in bacteria. Prompted by light cues near-ultraviolet to near-infrared region electromagnetic spectrum, can be up- or downregulated stringently, reversibly, non-invasively, with precision space time. Here, we survey underlying principles, available options, prominent examples optogenetically regulated While transcription initiation elongation remain most important for optogenetic intervention, other processes e.g., translation downstream events, were also rendered light-dependent. The control bacterial predominantly employs but three fundamental strategies: light-sensitive two-component systems, oligomerization reactions, second-messenger signaling. Certain moved beyond proof-of-principle stood test practice. They unprecedented applications major areas. First, underpins novel concepts strategies enhanced yields microbial production processes. Second, light-responsive bacteria stimulated while residing within bodies animals, thus prompting secretion compounds that grant health benefits animal host. Third, optogenetics allows generation precisely structured, biomaterials. These jointly testify maturity approach serve as blueprints bound inspire template innovative use cases light-regulated Researchers pursuing these lines choose from an ever-growing, versatile, efficient toolkit circuits.

Язык: Английский

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