Advancing microbial sciences by individual-based modelling

FL Hellweger, RJ Clegg, JR Clark, CM Plugge… - Nature Reviews …, 2016 - nature.com
Remarkable technological advances have revealed ever more properties and behaviours of
individual microorganisms, but the novel data generated by these techniques have not yet …

Accounting for soil architecture and microbial dynamics in microscale models: Current practices in soil science and the path ahead

V Pot, X Portell, W Otten, P Garnier… - European Journal of …, 2022 - Wiley Online Library
Macroscopic models of soil organic matter (SOM) turnover have faced difficulties in
reproducing SOM dynamics or in predicting the spatial distribution of carbon stocks. These …

A perspective on applied geochemistry in porous media: Reactive transport modeling of geochemical dynamics and the interplay with flow phenomena and physical …

H Deng, M Gharasoo, L Zhang, Z Dai, A Hajizadeh… - Applied …, 2022 - Elsevier
In many practical geochemical systems that are at the center of providing indispensable
energy, resources and service to our society,(bio) geochemical reactions are coupled with …

Modeling microbial growth and dynamics

DS Esser, JHJ Leveau, KM Meyer - Applied microbiology and …, 2015 - Springer
Modeling has become an important tool for widening our understanding of microbial growth
in the context of applied microbiology and related to such processes as safe food …

Understanding the joint impacts of soil architecture and microbial dynamics on soil functions: Insights derived from microscale models

V Pot, X Portell, W Otten, P Garnier… - European Journal of …, 2022 - Wiley Online Library
Over the last decades, a new generation of microscale models has been developed to
simulate soil microbial activity. An earlier article (Pot et al., 2021) presented a detailed …

Mycelia as a focal point for horizontal gene transfer among soil bacteria

T Berthold, F Centler, T Hübschmann, R Remer… - Scientific reports, 2016 - nature.com
Horizontal gene transfer (HGT) is a main mechanism of bacterial evolution endowing
bacteria with new genetic traits. The transfer of mobile genetic elements such as plasmids …

Microbial controls on the biogeochemical dynamics in the subsurface

M Thullner, P Regnier - Reviews in Mineralogy and …, 2019 - pubs.geoscienceworld.org
Biogeochemical processes are of tremendous importance for determining the fate of many
organic and inorganic compounds in the subsurface. Most global elemental cycles involve …

Chemotactic droplet swimmers in complex geometries

C **, BV Hokmabad, KA Baldwin… - Journal of Physics …, 2018 - iopscience.iop.org
Chemotaxis 1 and auto-chemotaxis are key mechanisms in the dynamics of micro-
organisms, eg in the acquisition of nutrients and in the communication between individuals …

[HTML][HTML] Exact minimum speed of traveling waves in a Keller–Segel model

JJ Bramburger - Applied Mathematics Letters, 2021 - Elsevier
In this letter we present a Keller–Segel model with logistic growth dynamics arising in the
study of chemotactic pattern formation. We prove the existence of a minimum wave speed for …

Kinetics of substrate biodegradation under the cumulative effects of bioavailability and self-inhibition

M Gharasoo, F Centler, P Van Cappellen… - … science & technology, 2015 - ACS Publications
Microbial degradation is an important process in many environments controlling for instance
the cycling of nutrients or the biodegradation of contaminants. At high substrate …