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.
- 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 - 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 - LIFE REFISH -
<p>Flexible biorefinery to valorise discards and by-products of the European fish and seafood production (REFISH)</p>
Principal investigator:VázquezÁlvarezXosé AntónFunding body:LIFE Environment (Nature & Circular Economy)Funding for IIM-CSIC:357637€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 | Development of intelligent sensors for the optimization of food processing and conservation
Development of non-invasive methods and technologies (i.e. hyperspectral imaging technology) for quality inspection of food products.
- Capacidades | Modelaxe e optimización de procesos fermentativos e outros bioprocesos de uso industrial
Desenvolvemento de algoritmos matemáticos e software de simulación para a optimización global e o control de bioprocesos nas industrias alimentaria e biotecnolóxica.
- Capacidades | Caracterización de propiedades fotosintéticas y subproductos del fitoplancton
Caracterización de las propiedades fotosintéticas y de los subproductos de diversas especies de fitoplancton en condiciones de laboratorio, de cultivo industrial y naturales.
- Capacidades | Desarrollo de sensores inteligentes para optimizar el procesado y la conservación de los alimentos
Desarrollo de métodos y tecnologías no invasivas (como la tecnología de toma de imagen hiperespectral) para inspeccionar la calidad de los productos alimentarios.
- Capabilities | Assessment of nutritional value in seafood and design of personalized nutrition treatments and products
Design and development of seafood products for target consumers (elderly, young, diabetic, allergic to seafood, etc.) that guarantee specific nutritional requirements, safety and sustainability. Development of techniques (i.e. metabolomics, proteomics, genomics, lipidomics, etc.), using animal models and cell cultures, to characterize the response of a patient/consumer to diet and to design personalized nutrition treatments and products (i.e. nutraceutics, hypoallergenic fish products, immunostimulants, functional foods, etc).
- 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.
- 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.
