Metabolic interaction models recapitulate leaf microbiota ecology
Resource allocation affects the structure of microbiomes, including those associated with
living hosts. Understanding the degree to which this dependency determines interspecies …
living hosts. Understanding the degree to which this dependency determines interspecies …
Design of microbial catalysts for two-stage processes
Microbial catalysts must partition incoming substrate between the synthesis of biomass and
the synthesis of a desired product. Although biomass synthesis generates more catalyst and …
the synthesis of a desired product. Although biomass synthesis generates more catalyst and …
[HTML][HTML] Thermodynamic tools for more efficient biotechnological processes: an example in poly-(3-hydroxybutyrate) production from carbon monoxide
K Olavarria, DZ Sousa - Current Opinion in Biotechnology, 2024 - Elsevier
Highlights•Thermodynamic tools can aid in designing efficient microbial conversions.•
Cultivation conditions determine the space for strain selection/genetic engineering.•A new …
Cultivation conditions determine the space for strain selection/genetic engineering.•A new …
Evaluating E. coli genome‐scale metabolic model accuracy with high‐throughput mutant fitness data
DB Bernstein, B Akkas, MN Price… - Molecular Systems …, 2023 - embopress.org
The Escherichia coli genome‐scale metabolic model (GEM) is an exemplar systems biology
model for the simulation of cellular metabolism. Experimental validation of model predictions …
model for the simulation of cellular metabolism. Experimental validation of model predictions …
MVML-MPI: Multi-View Multi-Label Learning for Metabolic Pathway Inference
Abstract Development of robust and effective strategies for synthesizing new compounds,
drug targeting and constructing GEnome-scale Metabolic models (GEMs) requires a deep …
drug targeting and constructing GEnome-scale Metabolic models (GEMs) requires a deep …
Into the metabolic wild: Unveiling hidden pathways of microbial metabolism
Ö Ata, D Mattanovich - Microbial Biotechnology, 2024 - Wiley Online Library
Microbial metabolism has been deeply studied over decades and it is considered to be
understood to a great extent. Annotated genome sequences of many microbial species have …
understood to a great extent. Annotated genome sequences of many microbial species have …
Single‐cell phenotyping of bacteria combined with deep sequencing for improved contextualization of microbiome analyses
L Budzinski, V von Goetze… - European Journal of …, 2024 - Wiley Online Library
Great effort was made to characterize the bacterial communities inhabiting the human body
as a factor in disease, resulting in the realization that a wide spectrum of diseases is …
as a factor in disease, resulting in the realization that a wide spectrum of diseases is …
Genome‐scale metabolic models applied for human health and biopharmaceutical engineering
Over the last 15 years, genome‐scale metabolic models (GEMs) have been reconstructed
for human and model animals, such as mouse and rat, to systematically understand …
for human and model animals, such as mouse and rat, to systematically understand …
A generalizable framework for unlocking missing reactions in genome-scale metabolic networks using deep learning
Incomplete knowledge of metabolic processes hinders the accuracy of GEnome-scale
Metabolic models (GEMs), which in turn impedes advancements in systems biology and …
Metabolic models (GEMs), which in turn impedes advancements in systems biology and …
Filling gaps in metabolism using hypothetical reactions
F Li - Proceedings of the National Academy of Sciences, 2022 - National Acad Sciences
Metabolism is crucial for all living cells since it provides energy and molecules for all
biological functions. Systematically understanding metabolism is therefore important both in …
biological functions. Systematically understanding metabolism is therefore important both in …