Mathematical modeling of microbial community dynamics: a methodological review
Microorganisms in nature form diverse communities that dynamically change in structure
and function in response to environmental variations. As a complex adaptive system …
and function in response to environmental variations. As a complex adaptive system …
Continuum and discrete approach in modeling biofilm development and structure: a review
MR Mattei, L Frunzo, B D'acunto, Y Pechaud… - Journal of mathematical …, 2018 - Springer
The scientific community has recognized that almost 99% of the microbial life on earth is
represented by biofilms. Considering the impacts of their sessile lifestyle on both natural and …
represented by biofilms. Considering the impacts of their sessile lifestyle on both natural and …
A mechanistic Individual-based Model of microbial communities
Accurate predictive modelling of the growth of microbial communities requires the credible
representation of the interactions of biological, chemical and mechanical processes …
representation of the interactions of biological, chemical and mechanical processes …
Architecture of soil microaggregates: Advanced methodologies to explore properties and functions
W Amelung, N Tang, N Siebers… - Journal of Plant …, 2024 - Wiley Online Library
The functions of soils are intimately linked to their three‐dimensional pore space and the
associated biogeochemical interfaces, mirrored in the complex structure that developed …
associated biogeochemical interfaces, mirrored in the complex structure that developed …
Extracellular polymeric substance production and aggregated bacteria colonization influence the competition of microbes in biofilms
The production of extracellular polymeric substance (EPS) is important for the survival of
biofilms. However, EPS production is costly for bacteria and the bacterial strains that …
biofilms. However, EPS production is costly for bacteria and the bacterial strains that …
Lattice Boltzmann-based approaches for pore-scale reactive transport
Important geoscience and environmental applications such as geologic carbon storage,
environmental remediation, and unconventional oil and gas recovery are best understood in …
environmental remediation, and unconventional oil and gas recovery are best understood in …
The physics of biofilms—an introduction
MG Mazza - Journal of Physics D: Applied Physics, 2016 - iopscience.iop.org
Biofilms are complex, self-organized consortia of microorganisms that produce a functional,
protective matrix of biomolecules. Physically, the structure of a biofilm can be described as …
protective matrix of biomolecules. Physically, the structure of a biofilm can be described as …
Coupling scales in process‐based soil organic carbon modeling including dynamic aggregation
Background Carbon storage and turnover in soils depend on the interplay of soil
architecture, microbial activities, and soil organic matter (SOM) dynamics. For a fundamental …
architecture, microbial activities, and soil organic matter (SOM) dynamics. For a fundamental …
A mixed-culture biofilm model with cross-diffusion
KA Rahman, R Sudarsan, HJ Eberl - Bulletin of mathematical biology, 2015 - Springer
We propose a deterministic continuum model for mixed-culture biofilms. A crucial aspect is
that movement of one species is affected by the presence of the other. This leads to a …
that movement of one species is affected by the presence of the other. This leads to a …
How water connectivity and substrate supply shape the turnover of organic matter–Insights from simulations at the scale of microaggregates
Microaggregates are hot spots of microbial activity at a scale that frequently poses a severe
experimental challenge or defies a direct observation. Mathematical models that combine …
experimental challenge or defies a direct observation. Mathematical models that combine …