BactoSim - An Individual-Based Simulation Environment for Bacterial Conjugation
نویسندگان
چکیده
A b s t r a c t . BactoSim is an agent-based platform for simulating the conjugation in spatially structured bacterial populations, which are the conditions typically found on naturally occurring colonies such as biofilms or in agar-based laboratory cultures. The model provides a set of key indicators which can be visualized in real time as the simulation evolves and saved as for further analysis.
منابع مشابه
Discrete modelling of bacterial conjugation dynamics
In bacterial populations, cells are able to cooperate in order to yield complex collective functionalities. Interest in population-level cellular behaviour is increasing, due to both our expanding knowledge of the underlying biological principles, and the growing range of possible applications for engineered microbial consortia. Researchers in the field of synthetic biology the application of e...
متن کاملRule-based modelling of conjugative plasmid transfer and incompatibility
COSMIC-rules, an individual-based model for bacterial adaptation and evolution, has been used to study virtual transmission of plasmids within bacterial populations, in an environment varying between supportive and inhibitory. The simulations demonstrate spread of antibiotic resistance (R) plasmids, both compatible and incompatible, by the bacterial gene transfer process of conjugation. This pa...
متن کاملA Bacterial-Based Algorithm to Simulate Complex Adaptive Systems
Bacteria have demonstrated an amazing capacity to overcome environmental changes by collective adaptation through genetic exchanges. Using a distributed communication system and sharing individual strategies, bacteria propagate mutations as innovations that allow them to survive in different environments. In this paper we present an agent-based model which is inspired by bacterial conjugation o...
متن کاملGAME OF COORDINATION FOR BACTERIAL PATTERN FORMATION: A FINITE AUTOMATA MODELLING
In this paper, we use game theory to describe the emergence of self-organization and consequent pattern formation through communicative cooperation in Bacillus subtilis colonies. The emergence of cooperative regime is modelled as an n-player Assurance game, with the bacterial colonies as individual players. The game is played iteratively through cooperative communication, and mediated by exchan...
متن کاملOptimal design of supply chain network under uncertainty environment using hybrid analytical and simulation modeling approach
Models that aim to optimize the design of supply chain networks have gained more interest in the supply chain literature. Mixed-integer linear programming and discrete-event simulation are widely used for such an optimization problem. We present a hybrid approach to support decisions for supply chain network design using a combination of analytical and discrete-event simulation models. The prop...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
عنوان ژورنال:
دوره شماره
صفحات -
تاریخ انتشار 2015