Diagnosis and Management of Small-Scale and Data-Limited Fisheries

C.M.T. would like to thank Fundação para a Ciência e a Tecnologia (FCT) for funding MARE (UIDB/04292/2020) and ARNET (LA/P/0069/2020)

Dieta, crecimiento y reproducción de cuatro especies de peces planos en la costa portuguesa

Four flatfish species were collected between January 2003 and June 2005 from commercial fishing vessels operating with gill nets and bottom trawls along the Portuguese coast in order to examine feeding habits, age and growth and reproduction. Citharus linguatula (Linnaeus, 1758), Lepidorhombus boscii (Risso, 1810) and Microchirus azevia (de Brito Capello, 1867) fed mainly on crustaceans, whereas Platichthys flesus (Linnaeus, 1758) fed mainly on echinoderms and crustaceans. Feeding activity was highest in spring and summer; females and small individuals showed the lowest vacuity index values. For all the species, significant differences were found in the proportion of prey items according to season, sex and size class. M. azevia had the largest diet spectrum. Ages were determined from sagittal otoliths. The von Bertalanffy growth equation coefficients differed between sexes. The asymptotic length L∞ of females was higher than that of males, except in C. linguatula. The lowest growth coefficient was obtained for P. flesus (k=0.11 for males and k=0.10 for females) and M. azevia showed the highest growth coefficient estimates (k=0.40 for females and k=0.30 for males). The highest proportion of individuals at spawning stage was recorded in winter for L. boscii, P. flesus and M. azevia, and in autumn for C. linguatula.Cuatro especies de peces planos fueron capturadas desde enero de 2003 hasta junio de 2005 por embarcaciones comerciales operando con redes de enmalle y arrastre de fondo, a lo largo de la costa portuguesa, con objeto de examinar los hábitos alimenticios, la edad, el crecimiento y el ciclo sexual. Citharus linguatula (Linnaeus, 1758), Lepidorhombus boscii (Risso, 1810) y Microchirus azevia (de Brito Capello, 1867), se alimentaron sobre todo de crustáceos. La dieta de Platichthys flesus (Linnaeus, 1758) estuvo compuesta principalmente por equinodermos y crustáceos. La mayor actividad alimenticia se observó en la primavera y el verano. Las hembras y los individuos más pequeños presentaron valores de índices de vacuidad más bajos. Para todas las especies se encontraron diferencias significativas en la proporción de ítems alimenticios según la estación, el sexo y la talla. M. azevia presentó el espectro más amplio de dieta. Las edades fueron determinadas a partir de los otolitos sagittae. Los coeficientes de la ecuación de crecimiento de von Bertalanffy fueron diferentes para los dos sexos. La talla asintótica L∞ de las hembras fue mayor que la de los machos, excepto para C. linguatula. El coeficiente de crecimiento más bajo se observó para P. flesus (k=0.11 para los machos y k=0.10 para las hembras), M. azevia presentó el mayor coeficiente de crecimiento (k=0.40 para hembras y k=0.30 para machos). La mayor proporción de individuos maduros en L. boscii, P. flesus y M. azevia se observó en invierno y en C. linguatula en otoño

Prevention of fungal contamination in semi-hard cheeses by whey-gelatin film incorporated with Levilactobacillus brevis SJC120

Cheese whey fermented by lactic acid bacteria (LAB) was used to develop an edible film with antifungal properties. Five LAB strains isolated from artisanal cheeses were screened for antifungal activity and incorporated into a whey–gelatin film. Of the strains tested, Levilactobacillus brevis SJC120 showed the strongest activity against five filamentous fungi isolated from cheese and cheese-making environment, at both 10 °C and 20 °C. The cell-free supernatant from L. brevis inhibited fungal growth by more than 80%. Incorporation of bacterial cells into the film did not alter the moisture content, water vapor permeability, or mechanical and optical properties. The whey–gelatin film was also able to maintain the viability of L. brevis cells at 107 log CFU/g after 30 days at 10 °C. In cheeses wrapped with L. brevis film, the size of fungal colonies decreased by 55% to 76%. Furthermore, no significant differences (p > 0.05) were observed in cheese proteolysis or in the moisture, fat, and protein content of the cheese wrapped with films. The results showed that whey–gelatin film with L. brevis SJC120 can reduce the contamination of cheese with filamentous fungi and could be used as an alternative to conventional cheese preservation and packaging.This work was financed by Fundo Regional para a Ciência e Tecnologia, project M1.1.a/008/ Funcionamento/2021 (ITTAA), Portuguese Foundation for Science and Technology (FCT), under the scope of the project UID/CVT/00153/2019, strategic funding of UIDB/00153/2020 and UIDB/04469/2020 unit, and by LABBELS–Associate Laboratory in Biotechnology, Bioengineering and Microelectromechanical Systems, LA/P/0029/2020. Sofia P.M. Silva received support through grant SFRH/BD/139525/2018 from the Portuguese Foundation for Science and Technology (FCT).info:eu-repo/semantics/publishedVersio

A potential signature for muscle-invasive tumors

Funding: This work was supported by the Astellas European Foundation Uro-Oncology Grant 2014; JABA RECORDATI Urology 2011 - Portuguese Society of Urology; Portuguese Foundation for Science and Technology (Strategic Project: PEst-C/SAU/UI3282/2013 and UID/NEU/04539/2013); GAI/FMUC and Santander Totta (Ref. FreitasGomes04.01.13) and Center of Investigation in Environment, Genetics and Oncobiology (CIMAGO), Portugal (Ref. 14/12). Margarida FerreiraTeixeira benefits from a PhD scholarship from the Portuguese Foundation for Science and Technology (Reference SFRH/BD/77314/2011).Striking evidence associates cancer stem cells (CSCs) to the high recurrence rates and poor survival of patients with muscle-invasive bladder cancer (BC). However, the prognostic implication of those cells in risk stratification is not firmly established, mainly due to the functional and phenotypic heterogeneity of CSCs populations, as well as, to the conflicting data regarding their identification based on a single specific marker. This emphasizes the need to exploit putative CSC-related molecular markers with potential prognostic significance in BC patients. This study aimed to isolate and characterize bladder CSCs making use of different functional and molecular approaches. The data obtained provide strong evidence that muscle-invasive BC is enriched with a heterogeneous stem-like population characterized by enhanced chemoresistance and tumor initiating properties, able to recapitulate the heterogeneity of the original tumor. Additionally, a logistic regression analysis identified a 2-gene stem-like signature (SOX2 and ALDH2) that allows a 93% accurate discrimination between non-muscle-invasive and invasive tumors. Our findings suggest that a stemness-related gene signature, combined with a cluster of markers to more narrowly refine the CSC phenotype, could better identify BC patients that would benefit from a more aggressive therapeutic intervention targeting CSCs population.publishersversionpublishe

Editorial: Emerging topics in coastal and transitional ecosystems: science, literacy, and innovation

Marine coastal and transitional ecosystems are facing increasing impacts, and often reflect the most immediate effects of environmental change, habitat destruction, and biodiversity loss. With over half of the population currently living in coastal areas, these areas are of interest for multiple uses and resources, as well as subjected to multiple stressors and associated impacts derived from local and upstream anthropogenic activities. The challenges coastal and transitional ecosystems now face is not new and have far-reaching implications for the ocean (Borja et al.). Nevertheless, significant knowledge gaps on their functioning and structure still exist and new solutions or approaches to this old problem are still needed, from blue biotechnological innovations to improved ocean literacy (Borja et al.). This Research Topic aimed to contribute to the sustainability of coastal and transitional environments, providing a broad overview of ecosystem resources and functioning, assessment and monitoring tools, restoration, biotechnology, and ocean literacy. A growing human population has also increased the reliance on the sea for food and feed resources. Despite soaring demand, the management of seafood resources is still hampered by key knowledge gaps on many life-history traits of target species as well as on ecosystem’s functioning (Golden et al., 2021). From tropical regions, where mangroves function as nursery habitats for various crustaceans and fish species, contributing to maintaining adjacent marine stocks, a poorly studied system on Príncipe Island, Gulf of Guinea, evidenced the importance of seasonality and mangrove zone on fish assemblages (Cravo et al.). In the deep sea, a particular challenge to commercial exploitation of fish species is how changing environmental conditions affect these organisms, which are generally characterized by high longevity, late reproduction, and low fecundity.info:eu-repo/semantics/publishedVersio

The amino acids motif-32GSSYN36-in the catalytic domain of E. coli flavorubredoxin NO reductase is essential for its activity

Funding Information: Funding: This study was financially supported by the Portuguese Fundação para a Ciência e Tec-nologia (FCT), grants PTDC/BIA-BQM/27959/2017 and PTDC/BIA-BQM/0562/2020, and Project MOSTMICRO-ITQB with references UIDB/04612/2020 and UIDP/04612/2020. This project has also received funding from the European Union’s Horizon 2020 research and innovation program under grant agreement 810856. MCM is the recipient of FCT grant SFRH/BD/143651/2019. BAS is the recipient of FCT grant DFA/BD/8066/2020. Funding Information: This study was financially supported by the Portuguese Funda??o para a Ci?ncia e Tecnologia (FCT), grants PTDC/BIA-BQM/27959/2017 and PTDC/BIA-BQM/0562/2020, and Project MOSTMICRO-ITQB with references UIDB/04612/2020 and UIDP/04612/2020. This project has also received funding from the European Union?s Horizon 2020 research and innovation program under grant agreement 810856. MCM is the recipient of FCT grant SFRH/BD/143651/2019. BAS is the recipient of FCT grant DFA/BD/8066/2020. Publisher Copyright: © 2021 by the authors. Licensee MDPI, Basel, Switzerland.Flavodiiron proteins (FDPs) are a family of modular and soluble enzymes endowed with nitric oxide and/or oxygen reductase activities, producing N2O or H2O, respectively. The FDP from Escherichia coli, which, apart from the two core domains, possesses a rubredoxin-like domain at the C-terminus (therefore named flavorubredoxin (FlRd)), is a bona fide NO reductase, exhibiting O2 reducing activity that is approximately ten times lower than that for NO. Among the flavorubredoxins, there is a strictly conserved amino acids motif,-G[S,T]SYN-, close to the catalytic diiron center. To assess its role in FlRd’s activity, we designed several site-directed mutants, replacing the conserved residues with hydrophobic or anionic ones. The mutants, which maintained the general characteristics of the wild type enzyme, including cofactor content and integrity of the diiron center, revealed a decrease of their oxygen reductase activity, while the NO reductase activity—specifically, its physiological function—was almost completely abolished in some of the mutants. Molecular modeling of the mutant proteins pointed to subtle changes in the predicted structures that resulted in the reduction of the hydration of the regions around the conserved residues, as well as in the elimination of hydrogen bonds, which may affect proton transfer and/or product release.publishe

Candidate biomarkers of antibiotic resistance for the monitoring of wastewater and the downstream environment

Urban wastewater treatment plants (UWTPs) are essential for reducing the pollutants load and protecting water bodies. However, wastewater catchment areas and UWTPs emit continuously antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARGs), with recognized impacts on the downstream environments. Recently, the European Commission recommended to monitor antibiotic resistance in UWTPs serving more than 100 000 population equivalents. Antibiotic resistance monitoring in environmental samples can be challenging. The expected complexity of these systems can jeopardize the interpretation capacity regarding, for instance, wastewater treatment efficiency, impacts of environmental contamination, or risks due to human exposure. Simplified monitoring frameworks will be essential for the successful implementation of analytical procedures, data analysis, and data sharing. This study aimed to test a set of biomarkers representative of ARG contamination, selected based on their frequent human association and, simultaneously, rare presence in pristine environments. In addition to the 16S rRNA gene, ten potential biomarkers (intI1, sul1, ermB, ermF, aph(3′’)-Ib, qacEΔ1, uidA, mefC, tetX, and crAssphage) were monitored in DNA extracts (n = 116) from raw wastewater, activated sludge, treated wastewater, and surface water (upstream and downstream of UWTPs) samples collected in the Czech Republic, Denmark, Israel, the Netherlands, and Portugal. Each biomarker was sensitive enough to measure decreases (on average by up to 2.5 log-units gene copy/mL) from raw wastewater to surface water, with variations in the same order of magnitude as for the 16S rRNA gene. The use of the 10 biomarkers allowed the typing of water samples whose origin or quality could be predicted in a blind test. The results show that, based on appropriate biomarkers, qPCR can be used for a cost-effective and technically accessible approach to monitoring wastewater and the downstream environment.info:eu-repo/semantics/publishedVersio

Biomarkers for monitoring antibiotic resistance in aquatic environments

info:eu-repo/semantics/publishedVersio

Monitoring antibiotic resistance in aquatic environments

info:eu-repo/semantics/publishedVersio

Optoelectronic simulations for novel light management concepts in Cu(In,Ga)Se2 solar cells

One of the trends making its way through the Photovoltaics (PV) industry, is the search for new application possibilities. Cu(In,Ga)Se2 (CIGS) thin film solar cells stand out due to their class leading power conversion efficiency of 23.35 %, flexibility, and low cost. The use of sub-μm ultrathin CIGS solar cells has been gaining prevalence, due to the reduction in material consumption and the manufacturing time. Precise CIGS finite-difference time-domain (FDTD) and 3D-drift diffusion baseline models were developed for the Lumerical suite and a 1D electrical model for SCAPS, allowing for an accurate description of the optoelectronic behavior and response of thin and ultrathin CIGS solar cells. As a result, it was possible to obtain accurate descriptions of the optoelectronic behavior of thin and ultrathin solar cells, and to perform an optical study and optimization of novel light management approaches, such as, random texturization, photonic nanostructures, plasmonic nanoparticles, among others. The developed light management architectures enabled to push the optical performance of an ultrathin solar cell and even surpass the performance of a thin film solar cell, enabling a short-circuit current enhancement of 6.15 mA/cm2 over an ultrathin reference device, without any light management integrated.publishe