Biosystem & Bioprocesses Engineering
From mathematical modeling and computer-aided simulation to design, control and optimization of bioprocesses and biological systems.
The world around us can be explained to a great extent by understanding the systems that compose it and the processes that connect them.
The IIM-CSIC's Biosystem & Bioprocess Engineering group seeks to develop new methods and tools (mainly software) for process systems engineering, which enable the simulation, optimization and control of bioprocesses, such as those involved in food processing and preservation and in industrial biotechnology.
The group applies process systems engineering methods to improve the efficiency of key industrial processes, reducing their environmental impact and improving the quality and safety of their products.
Its focus is model identification, optimization, monitoring and robust control of non-linear dynamic systems, including distributed parameter systems (convection-diffusion-reaction). The group considers a broad spectrum of applications, namely fisheries management, food processing, quality and safety—including antimicrobial resistance—and industrial biotechnology.
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<p>Programa Ciencias Mariñas: Ferramentas para a predición da calidade en productos da acuicultura</p>
Principal investigator:VilasFernándezCarlosFunding body:El Programa de Ciencias Mariñas de Galicia es 1 de los 5 programas de Ciencias Marinas de los Planes Complementarios de I+D+I del Plan de Recuperación Transformación y Resilencia. Financiado por FEMP/FEMPA.Funding for IIM-CSIC:100281€Go to project pageFromto - DigitAlg -
<p>Programa Ciencias Mariñas: Xemelgo dixital do cultivo de algas na acuicultura multitrófica integrada</p>
Principal investigator:BalsaCantoEvaFunding body:El Programa de Ciencias Mariñas de Galicia es 1 de los 5 programas de Ciencias Marinas de los Planes Complementarios de I+D+I del Plan de Recuperación Transformación y Resilencia. Financiado por FEMP/FEMPA.Funding for IIM-CSIC:122667€Go to project pageFromto - ATOPES -
<p>Programa Ciencias Mariñas: Aplicación de Tecnoloxías Innovadoras para a Obtención de Datos Pesqueiros</p>
Principal investigator:TaboadaAnteloLuisFunding body:El Programa de Ciencias Mariñas de Galicia es 1 de los 5 programas de Ciencias Marinas de los Planes Complementarios de I+D+I con las CCAA del Plan de Recuperación Transformación y Resilencia (NextGenerationEU).Funding for IIM-CSIC:137391€Go to project pageFromto - DATAMARE -
<p>Programa Ciencias Mariñas: Plataforma integrada de datos mariños</p>
Principal investigator:VeloLanchasAntónFunding body:El Programa de Ciencias Mariñas de Galicia es 1 de los 5 programas de Ciencias Marinas de los Planes Complementarios de I+D+I con las CCAA del Plan de Recuperación Transformación y Resilencia (NextGenerationEU).Funding for IIM-CSIC:112585€Go to project pageFromto - aCIDit -
<p>a-CIDiT - Modelos basados en datos y actualización de modelos para gemelos digitales</p>
Principal investigator:TaboadaAnteloLuisVilasFernándezCarlosFunding body:Ayuda PID2021-123654OB-C32 financiada por MCIN/AEI/10.13039/501100011033 y por la Unión Europea NextGenerationEU/PRTRFunding for IIM-CSIC:94200€Go to project pageFromto
- Pedreira, A.; Vázquez, J.A.; García, M.R. (2022) Kinetics of Bacterial Adaptation, Growth, and Death at Didecyldimethylammonium Chloride sub-MIC Concentrations Frontiers in Microbiology DOI:10.3389/fmicb.2022.758237
- Ovalle, J.C.; Vilas, C.; Antelo, L.T. (2022) On the use of deep learning for fish species recognition and quantification on board fishing vessels Marine Policy DOI:10.1016/j.marpol.2022.105015
- González, P.; Osorio, R.R.; Pardo, X.C.; Banga, J.R.; Doallo, R. (2022) An efficient ant colony optimization framework for HPC environments Applied Soft Computing Journal DOI:10.1016/j.asoc.2021.108058
- Otero-Muras I; Banga JR (2021) Synthetic Gene Circuit Analysis and Optimization " Computational Methods in Synthetic Biology" Humana Press / Springer ISBN:978-1-0716-0822-7
- Otero-Muras I; Banga JR (2021) Automated Biocircuit Design with SYNBADm " Synthetic Gene Circuits" Springer ISBN:978-1-0716-1031-2
- TFM - Andrea Arribas Jimeno (26/09/2022) Aplicabilidad de la tecnología de imágenes hiperespectrales (HSI) como método no invasivo para la evaluación de la calidad del pescado UNIVERSIDAD DE SANTIAGO DE COMPOSTELA
- TFM - Artai Rodríguez Moimenta (19/07/2020) Desarrollo de un modelo de corte mecanístico que permita describir un proceso de fermentación mixta Universidad de Vigo (UVigo)
- TFG - Laura Honrubia Baamonde (11/07/2019) Optimization of Benzalkonium Chloride treatment in the disinfection of L. Monocytogenes in the Food Industry UNIVERSIDAD DE LLEIDA
- TFM - Pablo de la Torre Fernández (20/09/2018) Modelado del proceso de fermenatición vínica: co-cultivo de especies no convencionales Universidade da Coruña
- PhD - Alejandro López Núñez (18/07/2018) CONTRIBUTIONS TO MATHEMATICAL MODELLING AND NUMERICAL SIMULATION OF BIOFILMS UdC
- WASHTOP -
<p>Water Associated Safety Hazards in the Treatment of Produce</p>
Principal investigator:RodríguezGarcíaMíriamFunding body:European Food Safety Authority (EFSA)Funding for IIM-CSIC:80000€Go to project pageFromto
- Capabilities | Design of disinfection procedures and modeling for the prevention of antimicrobial resistance
Development of chemical (combinations of disinfectants, essential oils) and biological (enzymes, phages) strategies that are effective for removing monospecific and mixed microbial biofilms from surfaces in the food industry. Biocide testing and development of better biocide dosage strategies for the food industry, ensuring food safety while avoiding antimicrobial resistance acquisition.
- Capacidades | Avaliación de ameazas e puntos de control críticos nas cadeas de valor dos produtos do mar
Avaliación e desenvolvemento de protocolos para identificar os puntos e produtos máis problemáticos canto á contaminación microbiolóxica e infestación parasitaria ao longo da cadea de valor dos produtos do mar.
- Capacidades | Desenvolvemento de bioprocesos (biorrefinerías) para extraer bioprodutos e compostos bioactivos a partir de subprodutos da industria alimentaria
Desenvolvemento de bioprocesos que permiten extraer compoñentes útiles de interese industrial a partir de descartes e de subprodutos e efluentes da industria alimentaria. Caracterización bioquímica de compoñentes útiles presentes en distintos tipos de produtos e subprodutos pesqueiros, como coláxeno da pel, encimas das vísceras, condroitín sulfato presente na cartilaxe, quitina das coirazas de crustáceos e das cunchas de xiba ou hidrolizados de proteínas obtidos do músculo. Avaliación de aplicacións potenciais destes compostos mediante a caracterización das súas actividades biolóxicas (antioxidantes, etc.) e as súas propiedades funcionais para o seu uso en diversas industrias, como a biomédica, química, cosmética, alimentaria, etc.
- Capacidades | Diseño de procedimientos de desinfección y modelado para la prevención de la resistencia a agentes antimicrobianos
Desarrollo de estrategias químicas (combinaciones de desinfectantes, aceites esenciales) y biológicas (enzimas, fagos) que sean efectivas en la eliminación de biopelículas monoespecíficas y mixtas en superficies usadas en la industria alimentaria. Prueba de biocidas y desarrollo de mejores estrategias de dosificación de biocidas para la industria alimentaria, garantizando la seguridad alimentaria al tiempo que se evita la adquisición de resistencia a agentes antimicrobianos.
- Capabilities | Development of Artificial Intelligence applications for fisheries management
Development of Deep Learning algorithms that allow automating fisheries monitoring processes and reducing time and costs compared with processing by human observers. The applications developed range from innovative systems for real-time remote electronic monitoring, which identify and quantify total catches of fishing vessels (e.g., iObserver), to new image recognition techniques that allow individually identifying fish and estimating population parameters.
- Prototype | Morbidostat: Unraveling Antimicrobial Resistance
Morbidostat is a computer-controlled continuous culture device that automatically adjusts drug concentration to maintain constant growth inhibition in microbial cultures. As bacteria acquire mutations that give them resistance against drugs, they are able to tolerate higher drug concentrations and grow faster, thus removing selective pressure, the driving force of evolution. To compensate for this, morbidostat increases drug concentration sufficiently to keep bacteria at their original growth rate, therefore maintaining selective pressure over time. This system allows for data acquisition to model microbial evolution under antimicrobial stress, optimize biocide dosage strategies and develop highly antimicrobial-resistant strains used to test the performance of new biocides, among other applications.
- Software | GLOBALm: a clustering method for constrained global optimization problems in Matlab
Method described in Csendes, T., L. Pal, J.O.H. Sendin, J.R. Banga (2008) The GLOBAL Optimization Method Revisited. Optimization Letters, 2(4):445-454.
Software available upon request (email us if interested).
- Software | AMIGO2: Advanced Modelling and Identification using Global Optimization, version 2
AMIGO2 is a MATLAB-based multiplatform toolbox designed to solve mathematical optimization problems at the core of systems biology, within the context of parametric model identification, the underlying hypothesis for model development and the optimal control of biological systems to synthetically achieve the desired behavior.
More information here.
- Software | MITS: a Tabu search-based algorithm for mixed-integer nonlinear problems (MINLPs)
Method described in: Exler, O., L.T. Antelo, J.A. Egea, A.A. Alonso and J.R. Banga (2008) A Tabu search-based algorithm for mixed-integer nonlinear problems and its application to integrated process and control system design. Computers & Chemical Engineering, 32(8):1877-1891.
Software available upon request (email us if interested).
- Software | PREMER: fast network inference with information theory
PREMER (Parallel Reverse Engineering with Mutual information & Entropy Reduction) is an open-source, multi-platform software tool for inferring network structures from data using information-theoretic measures. While this general purpose tool has been developed with biological networks in mind, it can be applied to other areas.
More information here.
