Related papers: A morphogenetic crop model for sugar-beet (Beta vu…
A model for morphoelastic growth, that is, growth influenced by elastic stress, driven by the absorption of nutrients is considered. The model features a multiplicative decomposition of the deformation gradient into an elastic contribution…
Bio-hybrid systems---close couplings of natural organisms with technology---are high potential and still underexplored. In existing work, robots have mostly influenced group behaviors of animals. We explore the possibilities of mixing…
Morphogenesis is the biological process that causes the emergence and changes of patterns (tissues and organs) in living organisms. It is a robust, self-organising mechanism, governed by Genetic Regulatory Networks (GRN), that hasn't been…
The innumerable shapes of plant leaves present a challenge to the explanatory power of biophysical theory. A model is needed that can produce these shapes with a small set of parameters. This paper presents a simple model of leaf shape…
Fungi undergo dynamic morphological transformations throughout their lifecycle, forming intricate networks as they transition from spores to mature mycelium structures. To support the study of these time-dependent processes, we present a…
The phase field model can accurately simulate the evolution of microstructures with complex morphologies, and it has been widely used for cell modeling in the last two decades. However, compared to other cellular models such as the…
Belowground yield-forming organs of root and tuber crops are difficult to measure during growth, and management therefore relies on aboveground proxies and destructive sampling. Aboveground wireless links could provide a low-cost,…
Availability of an explainable deep learning model that can be applied to practical real world scenarios and in turn, can consistently, rapidly and accurately identify specific and minute traits in applicable fields of biological sciences,…
Post-genomic research deals with challenging problems in screening genomes of organisms for particular functions or potential for being the targets of genetic engineering for desirable biological features. 'Phenotyping' of wild type and…
Simulating in silico cellular responses to interventions is a promising direction to accelerate high-content image-based assays, critical for advancing drug discovery and gene editing. To support this, we introduce MorphGen, a…
A comprehensive modeling and simulation study of the first-order isotropic/smectic-A transition is presented and applied to phase diagram computation and two-dimensional spherulite growth. An approach based on nonlinear optimization, that…
Growing mixtures of annual arable crop species or genotypes is a promising way to improve crop production without increasing agricultural inputs. To design optimal crop mixtures, choices of species, genotypes, sowing proportion, plant…
Morphogenesis is a developmental process in which cells organize into shapes and patterns. Complex, multi-factorial models are commonly used to study morphogenesis. It is difficult to understand the relation between the uncertainty in the…
The microbial community composition in the human gut has a profound effect on human health. This observation has lead to extensive use of microbiome therapies, including over-the-counter ``probiotic" treatments intended to alter the…
We revisit the modeling of the diauxic growth of a pure microorganism on two distinct sugars which was first described by Monod. Most available models are deterministic and make the assumption that all cells of the microbial ecosystem…
Based on a recently proposed non-equilibrium mechanism for spatial pattern formation [cond-mat/0312366] we study how morphogenesis can be controlled by locally coupled discrete dynamical networks, similar to gene regulation networks of…
The spongy mesophyll is a complex, porous tissue found in plant leaves that enables carbon capture and provides mechanical stability. Unlike many other biological tissues, which remain confluent throughout development, the spongy mesophyll…
Plant phenotyping refers to a quantitative description of the plants properties, however in image-based phenotyping analysis, our focus is primarily on the plants anatomical, ontogenetical and physiological properties.This technique…
Compared with classical process-based models, the functional-structural plant models provide more efficient tools to explore the impact of changes in plant structures on plant functioning. In this paper we investigated the effects of…
We introduce Biomaker CA: a Biome Maker project using Cellular Automata (CA). In Biomaker CA, morphogenesis is a first class citizen and small seeds need to grow into plant-like organisms to survive in a nutrient starved environment and…