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.
- 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 - PreCalA -
<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 - 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
- Capacidades | Avaliación do valor nutricional dos produtos do mar e deseño de tratamentos e produtos para nutrición personalizada
Deseño e desenvolvemento de produtos do mar para persoas consumidoras obxectivo (terceira idade, mocidade, pacientes con diabetes ou alerxias ao marisco, etc.) que cumpran uns requisitos específicos tanto nutricionais como de seguridade e sostibilidade. Desenvolvemento de técnicas (metabolómicas, proteómicas, xenómicas, lipidómicas, etc.) mediante o uso de modelos animais e cultivos celulares para caracterizar a resposta a unha dieta de pacientes ou persoas consumidoras e deseñar tratamentos e produtos para unha nutrición personalizada (p. ex., nutracéuticos, produtos do mar hipoalerxénicos, inmunoestimulantes, alimentos funcionais, etc.).
- Capacidades | Desenvolvemento de novos produtos alimentarios a partir de subprodutos da pesca e da acuicultura
Desenvolvemento de procesos para a transformación de descartes e subprodutos do mar en novas materias primas (pasta de peixe, aceite de peixe, etc.) con valor engadido para a xeración de innovadores produtos alimentarios procesados (hamburguesas, nuggets, etc.), garantindo a súa trazabilidade, o seu valor nutricional e a súa seguridade ao longo de novas cadeas de valor.
- Capacidades | Desarrollo de sistemas de control y optimización a nivel de la planta completa en la industria alimentaria
Modelado a múltiples escalas para flexibilizar la toma de decisiones y optimizar procesos complejos (p. ej., esterilización) basado en el control de la seguridad y calidad de los productos alimentarios mediante técnicas no invasivas (sensores de software, etc.).
- Capabilities | Threat assessment and critical control points along seafood value chains
Assessment and development of protocols to identify the most problematic areas and products in terms of microbial contamination and parasitic infestation along the value chain of seafood products.
- Capabilities | Development of bioprocesses (biorefineries) for the extraction of bioproducts and bioactive compounds from food industry by-products
Development of processes that allow extracting useful components of industrial interest from discards and food industry by-products and effluents. Biochemical characterization of useful components present in different kinds of fisheries products and by-products, such as skin collagen, visceral enzymes, chondroitin sulphate present in cartilage, chitin from crustacean shells and cuttlebone or protein hydrolysates obtained from muscle. Evaluation of potential applications of these compounds through the characterization of their biological activities (antioxidants, etc.) and functional properties for their use in different industries, such as biomedical, chemistry, cosmetic, food, etc.
- Software | ACOmi: Ant Colony Optimization for mixed integer nonlinear programming problems (MINLPs)
The method is described in Schlater, M., J. A. Egea, J. R. Banga (2009) Extended ant colony optimization for non-convex mixed integer nonlinear programming. Computers & Operations Research 36(7): 2217-2229.
Software available upon request (email us if interested).
- Software | BioPreDyn-bench: a suite of benchmark problems for dynamic modeling in systems biology
BioPreDyn-Bench is a suite of benchmark problems for dynamic modeling in systems biology. Currently, it contains six challenging parameter estimation problems, which aspire to serve as reference test cases in this area. This set includes medium- and large-scale kinetic models of E.coli, S. cerevisiae, D. melanogaster, Chinese Hamster Ovary (CHO) cells and a generic signaling network. The level of description includes metabolism, transcription, signal transduction and development.
More information here.
- Prototype | iObserver: On-board electronic monitoring system for catch identification and quantification
iObserver is an innovative monitoring device based on automated video monitoring coupled with artificial intelligence developments for visual recognition and quantification of the catches on board fishing vessels.
iObserver implements a continuous image recording system adaptable to different fishing vessels and deep learning algorithms to automatically identify and quantify catches on board in real time.
iObserver focuses mainly on developing algorithms for robust automatic species recognition and size estimation of fish transported on a conveyor belt. Trials have been performed on board Spanish oceanographic vessels and commercial vessels. With over 300 days at sea, iObserver was used in more than 1000 hauls and took more than 200,000 pictures, and 17 species have already been included in the system's catalogue.
For further information, please contact us by e-mail.
- Software | MIDER: a toolbox for network inference using mutual information distance and entropy reduction
MIDER (mutual information distance and entropy reduction) is a general purpose software tool for inferring network structures. It has been developed with biological networks in mind but can be applied to other areas.
More information here.
- Software | MEIGO: a multiplatform toolbox for Global Optimization using Metaheuristics
MEIGO is a global optimization toolbox that includes a number of metaheuristic methods, as well as a Bayesian inference method for parameter estimation.
More information here.
