Machine learning (ML), particularly deep learning (DL), has made rapid and substantial
progress in synthetic biology in recent years. Biotechnological applications of biosystems …

In recent years, there has been growing interest in harnessing anaerobic digestion
technology for resource recovery from waste streams. This approach has evolved beyond its …

Rhizopus microsporus often lives in association with bacterial and viral symbionts that alter
its biology. This fungal model represents an example of the complex interactions established …

The construction of high-performance microbial cell factories (MCFs) is the centerpiece of
biomanufacturing. However, the complex metabolic regulatory network of microorganisms …

Large-scale kinetic models provide the computational means to dynamically link metabolic
reaction fluxes to metabolite concentrations and enzyme levels while also conforming to …

Highlights•Metabolic flux is a fundamental aspect of life.•Measuring and modeling metabolic
flux are challenging.•Boundary fluxes are the exchange rate of nutrients in and out of …

The gut microecological network is a complex microbial community within the human body
that plays a key role in linking dietary nutrition and host physiology. To understand the …

Microbial communities thrive through interactions and communication, which are
challenging to study as most microorganisms are not cultivable. To address this challenge …

Environmental perturbations are encountered by microorganisms regularly and will require
metabolic adaptations to ensure an organism can survive in the newly presenting …

Genome-scale metabolic models (GEMs) are valuable tools serving systems biology and
metabolic engineering. However, GEMs are still an underestimated tool in informing …