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1. Citizen and community-science (CS) datasets have great potential for estimating interannual patterns of population change given the large volumes of data collected globally every year. Yet, the flexible protocols that enable many CS…
Using a sample from a population to estimate the proportion of the population with a certain category label is a broadly important problem. In the context of microbiome studies, this problem arises when researchers wish to use a sample from…
Many machine learning (ML) approaches are widely used to generate bioclimatic models for prediction of geographic range of organism as a function of climate. Applications such as prediction of range shift in organism, range of invasive…
Soil organic carbon (SOC) sequestration is the transfer and storage of atmospheric carbon dioxide in soils, which plays an important role in climate change mitigation. SOC concentration can be improved by proper land use, thus it is…
Segregation of populations is a key question in evolution theory. One important aspect is the relation between spatial organization and the population's composition. Here we study a specific example -- sectors in expanding bacterial…
Bacteria populations rely on mechanisms such as quorum sensing to coordinate complex tasks that cannot be achieved by a single bacterium. Quorum sensing is used to measure the local bacteria population density, and it controls cooperation…
Microbial communities routinely have several alternative stable states observed for the same environmental parameters. Sudden and irreversible transitions between these states make external manipulation of these systems more complicated. To…
Employing an effective cellular automata model, we investigate and analyze the build-up and erosion of soil. Depending on the strategy employed for handling agricultural production, in many cases we find a critical dependence on the…
Recent work suggests that cross-feeding -- the secretion and consumption of metabolic biproducts by microbes -- is essential for understanding microbial ecology. Yet how cross-feeding and competition combine to give rise to ecosystem-level…
Main goal: The aim of this note is to propose a modeling approach for assessing the effectiveness of pest biocontrol by natural enemies in diversified agricultural landscapes including several pesticide-based management strategies. Our…
The gut microbiome plays a crucial role in human health, yet the mechanisms underlying host-microbiome interactions remain unclear, limiting its translational potential. Recent microbiome multiomics studies, particularly paired…
Plant biomass estimation is critical due to the variability of different environmental factors and crop management practices associated with it. The assessment is largely impacted by the accurate prediction of different environmental…
Microbially Induced Calcium Carbonate Precipitation (MICP) is an eco-friendly technique that enhances soil mechanical properties using urease-producing microorganisms, especially Sporosarcina pasteurii. However, field trials often yield…
Accurate estimates of microbial species abundances are needed to advance our understanding of the role that microbiomes play in human and environmental health. However, artificially constructed microbiomes demonstrate that intuitive…
The rate at which individual bacterial cells grow depends on the concentrations of cellular components such as ribosomes and proteins. These concentrations continuously fluctuate over time and are inherited from mother to daughter cells,…
There is a pressing need to better understand how microbial populations respond to antimicrobial drugs, and to find mechanisms to possibly eradicate antimicrobial-resistant cells. The inactivation of antimicrobials by resistant microbes can…
The use of spatially explicit land use and land cover (LULC) change models is widespread in environmental sciences and of interest in public decision-help. However, it appears that these models suffer from significant biases and…
The processes taking place inside the living cell are now understood to the point where predictive computational models can be used to gain detailed understanding of important biological phenomena. A key challenge is to extrapolate this…
The biogeochemical complexity of environmental models is increasing continuously and model reliability must be reanalysed when new implementations are brought about. This work aim to identify influential biogeochemical parameters that…
Predators and their foraging strategies often determine ecosystem structure and function. Yet, the role of protozoan predators in microbial soil ecosystems remains elusive despite the importance of these ecosystems to global biogeochemical…