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Optimization of fed-batch fermentation processes with bio-inspired algorithms
Rocha, Miguel; Mendes, Rui; Rocha, Orlando; Rocha, I.; Ferreira, E. C.The optimization of the feeding trajectories in fed-batch fermentation processes is a complex problem that has gained attention given its significant economical impact. A number of bio-inspired algorithms have approached this task with considerable success, but systematic and statistically significant comparisons of the different alternatives are still lacking. In this paper, the performance of different metahe...
Metabolic responses to recombinant bioprocesses in Escherichia coli
Carneiro, S.; Ferreira, E. C.; Rocha, I.Escherichia coli has been widely used for the production of recombinant proteins. However, the unbalances between host metabolism and recombinant biosynthesis continue to hamper the efficiency of these recombinant bioprocesses. The additional drainage of biosynthetic precursors toward recombinant processes burdens severely the metabolism of cells that, ultimately, elicits a series of stress responses, reducing ...
Energy recovery and impact on land use of Maltese municipal solid waste inciner...
Pirotta, F. J. C.; Ferreira, E. C.; Bernardo, C. A.An investigation of the potential of Maltese Municipal Solid Waste (MSW) for energy recovery is carried in this work together with a preliminary assessment of the corresponding economic and land use impacts. MSW composition data was collected to evaluate the waste combustion enthalpy. Data from 1997 to 2010 allowed the conclusion that an incinerator with a capacity of 32,500kg/h can treat all the waste expectab...
Automatic identification of activated sludge disturbances and assessment of ope...
Amaral, A. L.; Mesquita, D. P.; Ferreira, E. C.Activated sludge systems are prone to be affected by changes in operating conditions leading to problems such as pinpoint flocs formation, filamentous bulking, dispersed growth, and viscous bulking. These problems are often related with the floc structure and filamentous bacteria contents. In this work, a lab-scale activated sludge system was operated sequentially obtaining filamentous bulking, pinpoint floc fo...
Molecular aspects and comparative genomics of bacteriophage endolysins
Oliveira, Hugo; Melo, Luís D. R.; Santos, Sílvio; Nóbrega, Franklin; Ferreira, E. C.; Cerca, Nuno; Azeredo, Joana; Kluskens, LeonPhages are recognized as the most abundant and diverse entities on the planet. Their diversity is predominantly determined by their dynamic adaptation capacities, when confronted with different selective pressures in an endless cycle of co-evolution with a widespread group of bacterial hosts. At the end of the infection cycle, progeny virions are confronted with a rigid cell wall that hinders their release into...
Prediction of intracellular storage polymers using quantitative image analysis ...
Mesquita, D. P.; Leal, C.; Cunha, J. R.; Oehmen, Adrian; Amaral, A. L.; Reis, Maria A. M.; Ferreira, E. C.The present study focuses on predicting the concentration of intracellular storage polymers in enhanced biological phosphorus removal (EBPR) systems. For that purpose, quantitative image analysis techniques were developed for determining the intracellular concentrations of PHA (PHB and PHV) with Nile blue and glycogen with aniline blue staining. Partial least squares (PLS) were used to predict the standard anal...
Identification of metabolic engineering targets through analysis of optimal and...
Soons, Zita; Ferreira, E. C.; Patil, Kiran Raosaheb; Rocha, I.Identification of optimal genetic manipulation strategies for redirecting substrate uptake towards a desired product is a challenging task owing to the complexity of metabolic networks, esp. in terms of large number of routes leading to the desired product. Algorithms that can exploit the whole range of optimal and suboptimal routes for product formation while respecting the biological objective of the cell are...
Towards a genome-scale metabolic model for the Kluyveromyces lactis yeast
Dias, O.; Gombert, Andreas Karoly; Ferreira, E. C.; Rocha, I.The interest in Kluyveromyces lactis (K. lactis) has begun in academia due to its ability to metabolize the betaglycoside (1). Since then, this yeast has been considered a model organism for studies in genetics and physiology (2). This yeast had its genome sequenced back in 2004 (3) and recently we have published a full metabolic re-annotation of its genome (4). This re-annotation can be used, among other appli...
RecFinder – a new tool to find phage proteins responsible for host recognition
Mucha, Ângela O.; Nóbrega, Franklin; Santos, Sílvio; Ferreira, E. C.; Kluskens, Leon; Azeredo, Joana(Bacterio)phages are bacterial viruses that represent the most abundant and genetically diverse biological entities on the planet [1,2]. The largest virus group, the order Caudovirales (containing 96% of all known phages), has evolved recognition peptides for efficient virus-host interaction [3]. The peptides, usually located at the phage tail fiber, baseplate and other tail proteins mediate recognition and att...
Host-Endolysins interactions
Nóbrega, Franklin; Santos, Sílvio; Ferreira, E. C.; Azeredo, Joana; Kluskens, Leon37 Host-Endolysins interactions Franklin L. Nobrega, Silvio Santos, Eugénio C. Ferreira, Joana Azeredo, Leon D. Kluskens IBB – Institute for Biotechnology and Bioengineering, Centre of Biological Engineering, Universidade do Minho, Campus de Gualtar, 4710-057 Braga, Portugal Abstract (Bacterio)phages are viruses that specifically infect bacteria. They are tremendously diverse and the most abundant living entiti...
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