Browsing by Author "Costa, Joana"
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- A population genetics toolbox for the threatened canopy-forming brown seaweeds Cystoseira tamariscifolia and C-amentacea (Fucales, Sargassaceae)Publication . Engelen, Aschwin; Costa, Joana; Bermejo, Ricardo; Marba, NAria; Duarte, Carlos M.; Serro, Ester A.The brown macroalga Cystoseira tamariscifolia is a foundation species along the northeastern Atlantic and western Mediterranean Sea. It occurs from lower intertidal rock pools to the shallow subtidal. Anthropogenic pollution and rising seawater temperatures can threaten its local distributions. In order to address impacts of historical and current environmental changes, to quantify effective dispersal and population connectivity, and to provide genetic tools for restoration and coastal management strategies, we have developed ten microsatellite markers, validated on 48 individuals from a single population. With 2-11 alleles per locus, the observed heterozygosity varied between 0.244 and 0.875. All of the developed microsatellites cross-amplified also on Cystoseira amentacea. The ten microsatellite loci developed here show high genetic diversity, making them useful for connectivity and population genetic studies aimed at small to large spatial scales, and provide essential insight for the development of conservation strategies for this important but threatened foundation species.
- Are Physicochemical Properties Shaping the Allergenic Potency of Animal Allergens?Publication . Costa, Joana; Villa, Caterina; Verhoeckx, Kitty; Cirkovic-Velickovic, Tanja; Schrama, Denise; Roncada, Paola; Rodrigues, Pedro M.; Piras, Cristian; Martin-Pedraza, Laura; Monaci, Linda; Molina, Elena; Mazzucchelli, Gabriel; Mafra, Isabel; Lupi, Roberta; Lozano-Ojalvo, Daniel; Larre, Colette; Klueber, Julia; Gelencser, Eva; Bueno-Diaz, Cristina; Diaz-Perales, Araceli; Benede, Sara; Bavaro, Simona Lucia; Kuehn, Annette; Hoffmann-Sommergruber, Karim; Holzhauser, ThomasKey determinants for the development of an allergic response to an otherwise 'harmless' food protein involve different factors like the predisposition of the individual, the timing, the dose, the route of exposure, the intrinsic properties of the allergen, the food matrix (e.g. lipids) and the allergen modification by food processing. Various physicochemical parameters can have an impact on the allergenicity of animal proteins. Following our previous review on how physicochemical parameters shape plant protein allergenicity, the same analysis was proceeded here for animal allergens. We found that each parameter can have variable effects, ranging on an axis from allergenicity enhancement to resolution, depending on its nature and the allergen. While glycosylation and phosphorylation are common, both are not universal traits of animal allergens. High molecular structures can favour allergenicity, but structural loss and uncovering hidden epitopes can also have a similar impact. We discovered that there are important knowledge gaps in regard to physicochemical parameters shaping protein allergenicity both from animal and plant origin, mainly because the comparability of the data is poor. Future biomolecular studies of exhaustive, standardised design together with strong validation part in the clinical context, together with data integration model systems will be needed to unravel causal relationships between physicochemical properties and the basis of protein allergenicity.
- Are physicochemical properties shaping the allergenic potency of plant allergens?Publication . Costa, Joana; Bavaro, Simona Lucia; Benede, Sara; Diaz-Perales, Araceli; Bueno-Diaz, Cristina; Gelencser, Eva; Klueber, Julia; Larre, Colette; Lozano-Ojalvo, Daniel; Lupi, Roberta; Mafra, Isabel; Mazzucchelli, Gabriel; Molina, Elena; Monaci, Linda; Martin-Pedraza, Laura; Piras, Cristian; Rodrigues, Pedro M.; Roncada, Paola; Schrama, Denise; Cirkovic-Velickovic, Tanja; Verhoeckx, Kitty; Villa, Caterina; Kuehn, Annette; Hoffmann-Sommergruber, Karin; Holzhauser, ThomasThis review searched for published evidence that could explain how different physicochemical properties impact on the allergenicity of food proteins and if their effects would follow specific patterns among distinct protein families. Owing to the amount and complexity of the collected information, this literature overview was divided in two articles, the current one dedicated to protein families of plant allergens and a second one focused on animal allergens. Our extensive analysis of the available literature revealed that physicochemical characteristics had consistent effects on protein allergenicity for allergens belonging to the same protein family. For example, protein aggregation contributes to increased allergenicity of 2S albumins, while for legumins and cereal prolamins, the same phenomenon leads to a reduction. Molecular stability, related to structural resistance to heat and proteolysis, was identified as the most common feature promoting plant protein allergenicity, although it fails to explain the potency of some unstable allergens (e.g. pollen-related food allergens). Furthermore, data on physicochemical characteristics translating into clinical effects are limited, mainly because most studies are focused on in vitro IgE binding. Clinical data assessing how these parameters affect the development and clinical manifestation of allergies is minimal, with only few reports evaluating the sensitising capacity of modified proteins (addressing different physicochemical properties) in murine allergy models. In vivo testing of modified pure proteins by SPT or DBPCFC is scarce. At this stage, a systematic approach to link the physicochemical properties with clinical plant allergenicity in real-life scenarios is still missing.
- A bayesian approach to infer the sustainable use of artificial reefs in fisheries and recreationPublication . Ramos, Jorge; Drakeford, Benjamin; Madiedo, Ana; Costa, Joana; Miguel de Sousa Leitão, FranciscoThe presence of artificial reefs (ARs) in the south of Portugal that were deployed a few decades ago and the corroboration of fishing patterns and other activities related to the use of these habitats have not been followed. It is important to note that monitoring the use of ARs was difficult in the past but is currently facilitated by the application of non-intrusive tools. In the present study, an approach is developed where, based on monitoring data from fishing and non-fishing boats, influence diagrams (IDs) are constructed to provide some evidence on fisheries or other use patterns and consequent AR effectiveness as coastal tools. These IDs allow us to infer various usefulness scenarios, namely catches, which are tangible, and satisfaction, which is intangible, and overall assessment of ARs and nearby areas in terms of human activities. After calibrating the Bayesian ID based on monitoring evidence, the obtained model was evaluated for several scenarios. In the base case, which assumes the occurrence of more fishing than recreation (assuming 3:1, respectively), the obtained utility is 18.64% (catches) and 31.96% (satisfaction). Of the scenarios run, the one that obtained the best results in the utility nodes together was the second one. The use of these tailored tools and approaches seems to be of fundamental importance for the adequate management of coastal infrastructures, particularly with regard to the inference of fishing resources and their sustainable use. An adequate interpretation based on the use of these tools implies being able to safeguard the ecological balance and economic sustainability of the communities operating in these areas.
- Disentangling housing supply to shift towards Smart Cities: analysing theoretical and empirical studiesPublication . Garcês, Pedro; Pires, Cesaltina Pacheco; Costa, Joana; Jorge, Sílvia Ferreira; Catalão-Lopes, Margarida; Alventosa, AdrianaThe search for a pleasant home has concerned people ever since. Paradoxically, people are facing strong difficulties in finding a decent place to settle their lives in cities. As such, the housing market regained momentum in connection with the development of Smart Cities, where life quality of residents is strongly emphasized. Well-being in the metropolis is affected by a wide variety of factors with housing supply being among the most important, hence stirred by financing costs, construction costs, vacancy rate, sales delay, inflation rate, housing stock, price of agricultural land, and regulation. The present article reviews empirical studies on housing supply for a better understanding of the dynamics in this market, shedding some light on the expectable outcomes of policy actions in the promotion of sustainable housing towards the smart city transition. Our review shows that the long-run price elasticity of housing supply is larger than the short-run, as well as the existence of substantial differences in the price elasticity across countries and regions. As such, overall, the hypothesis of a perfectly elastic supply is rejected. In addition, our review highlights that housing supply is negatively related to financial costs, inflation, sales delay, and the existence of regulatory or physical constraints. Also, the elasticity is lower when there are regulatory constraints. Newfangled strategic interaction models, though overlooked in the literature, reinforce that housing does not fit the perfect competition frame. The review proves that we are in face of a non-competitive market in which policy intervention is required to maximize social welfare; policy packages to grant people access to the housing market may be required. However, policy interventions should be carefully designed and clear, to mitigate their potentially negative impact on the housing supply as adverse results may be harmful to the transition towards a smart city.
- Gene pool and connectivity patterns of Pinna nobilis in the Balearic Islands (Spain, Western Mediterranean Sea): Implications for its conservation through restockingPublication . Gonzalez-Wanguemert, Mercedes; Basso, Lorena; Balau, Ana; Costa, Joana; Renault, Lionel; Serrao, Ester; Duarte, Carlos M.; Hendriks, Iris E.Pinna nobilis is an endemic bivalve of the Mediterranean Sea, and a vulnerable species registered as endangered and protected under the European Council Directive 92/43/EEC and Barcelona Convention. In early autumn 2016, a mass mortality event impacted P. nobilis populations in the south-western Mediterranean Sea, including the Balearic Islands. At the time of this study, P. nobilis still maintained high population densities along the Balearic coasts (Western Mediterranean). This study evaluated the connectivity of P. nobilis post-larvae and adults in seagrass habitats around the Balearic Islands and identified its source and sink populations. These objectives were reached through a multidisciplinary approach including population genetics (10 microsatellites) and hydrodynamic modelling. High genetic diversity was found and significant genetic differentiation (inferred by fixation index F-ST) was detected between post-larvae samples, but not between adult populations. Significant genic and genotypic differentiation was recorded for adults and post-larvae. This pattern was confirmed by correspondence analysis using allele frequencies. The genetic connectivity pattern was consistent with marine currents and dispersal models. This work not only improves knowledge of the P. nobilis gene pool in south-west Mediterranean populations and their connectivity patterns, but is also crucial to help evaluate the possibility of recovery from source populations and the possibility of restocking programmes, as well as provide a solid base to establish effective marine reserve networks.
- Intraspecific genetic lineages of a marine mussel show behavioural divergence and spatial segregation over a tropical/subtropical biogeographic transitionPublication . Zardi, Gerardo I.; Nicastro, Katy R; McQuaid, C. D.; Castilho, Rita; Costa, Joana; Serrão, Ester; Pearson, G. A.Background: Intraspecific variability is seen as a central component of biodiversity. We investigated genetic differentiation, contemporary patterns of demographic connectivity and intraspecific variation of adaptive behavioural traits in two lineages of an intertidal mussel (Perna perna) across a tropical/subtropical biogeographic transition. Results: Microsatellite analyses revealed clear genetic differentiation between western (temperate) and eastern (subtropical/tropical) populations, confirming divergence previously detected with mitochondrial (COI) and nuclear (ITS) markers. Gene flow between regions was predominantly east-to-west and was only moderate, with higher heterozygote deficiency where the two lineages co-occur. This can be explained by differential selection and/or oceanographic dynamics acting as a barrier to larval dispersal. Common garden experiments showed that gaping (periodic closure and opening of the shell) and attachment to the substratum differed significantly between the two lineages. Western individuals gaped more and attached less strongly to the substratum than eastern ones. Conclusions: These behavioural differences are consistent with the geographic and intertidal distributions of each lineage along sharp environmental clines, indicating their strong adaptive significance. We highlight the functional role of diversity below the species level in evolutionary trends and the need to understand this when predicting biodiversity responses to environmental change.
- Wider sampling reveals a non-sister relationship for geographically contiguous lineages of a marine musselPublication . Lopes Da Cunha, Regina; Nicastro, Katy; Costa, Joana; McQuaid, Christopher D.; Serrao, Ester A.; Zardi, GerardoThe accuracy of phylogenetic inference can be significantly improved by the addition of more taxa and by increasing the spatial coverage of sampling. In previous studies, the brown mussel Perna perna showed a sister-lineage relationship between eastern and western individuals contiguously distributed along the South African coastline. We used mitochondrial (COI) and nuclear (ITS) sequence data to further analyze phylogeographic patterns within P.perna. Significant expansion of the geographical coverage revealed an unexpected pattern. The western South African lineage shared the most recent common ancestor (MRCA) with specimens from Angola, Venezuela, and Namibia, whereas eastern South African specimens and Mozambique grouped together, indicating a non-sister relationship for the two South African lineages. Two plausible biogeographic scenarios to explain their origin were both supported by the hypotheses-testing analysis. One includes an Indo-Pacific origin for P.perna, dispersal into the Mediterranean and Atlantic through the Tethys seaway, followed by recent secondary contact after southward expansion of the western and eastern South African lineages. The other scenario (Out of South Africa) suggests an ancient vicariant divergence of the two lineages followed by their northward expansion. Nevertheless, the Out of South Africa hypothesis would require a more ancient divergence between the two lineages. Instead, our estimates indicated that they diverged very recently (310 kyr), providing a better support for an Indo-Pacific origin of the two South African lineages. The arrival of the MRCA of P.perna in Brazil was estimated at 10 [0-40] kyr. Thus, the hypothesis of a recent introduction in Brazil through hull fouling in wooden vessels involved in the transatlantic itineraries of the slave trade did not receive strong support, but given the range for this estimate, it could not be discarded. Wider geographic sampling of marine organisms shows that lineages with contiguous distributions need not share a common ancestry.