6533b85bfe1ef96bd12bac32

RESEARCH PRODUCT

A membrane computing simulator of trans-hierarchical antibiotic resistance evolution dynamics in nested ecological compartments (ARES)

Amparo LatorreCarlos LlorensMarcelino CamposTeresa M. CoqueJosé M. SempereRafael CapillaIrene RodríguezRicardo FutamiAndrés MoyaFernando BaqueroPurificación Carrasco

subject

Antibiotic resistanceImmunologyBiologyGeneral Biochemistry Genetics and Molecular Biology03 medical and health sciencesAntibiotic resistanceDrug Resistance BacterialMembrane computingComputer SimulationMembrane computingEcology Evolution Behavior and SystematicsSimulation030304 developmental biology0303 health sciencesModels GeneticAgricultural and Biological Sciences(all)030306 microbiologyEcologyNatural computingBiochemistry Genetics and Molecular Biology(all)ResearchApplied MathematicsAntibiotic exposureReciprocity (evolution)Biological EvolutionAnti-Bacterial AgentsP-systemModeling and SimulationORGANIZACION DE EMPRESASLocal environmentEvolutionary ecologyGeneral Agricultural and Biological SciencesEssential nestingLENGUAJES Y SISTEMAS INFORMATICOSAntibiotic resistance genes

description

In this article, we introduce ARES (Antibiotic Resistance Evolution Simulator) a software device that simulates P-system model scenarios with five types of nested computing membranes oriented to emulate a hierarchy of eco-biological compartments, i.e. a) peripheral ecosystem; b) local environment; c) reservoir of supplies; d) animal host; and e) host's associated bacterial organisms (microbiome). Computational objects emulating molecular entities such as plasmids, antibiotic resistance genes, antimicrobials, and/or other substances can be introduced into this framework and may interact and evolve together with the membranes, according to a set of pre-established rules and specifications. ARES has been implemented as an online server and offers additional tools for storage and model editing and downstream analysis

yearjournalcountryeditionlanguage
2015-01-01
10.1186/s13062-015-0070-9https://doi.org/10.1186/s13062-015-0070-9