Browsing by Issue Date, starting with "2017-07"
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- Bioelectrical signal detection using conducting polymer electrodes and the displacement current methodPublication . Inácio, Pedro; Mestre, Ana L G; Medeiros, C.R.; Asgarifar, Sanaz; ELAMINE, Youssef; Canudo, Joana; Santos, João; Bragança, José; Morgado, Jorge; Biscarini, Fabio; Gomes, Henrique L.Conducting polymer electrodes based on poly (3, 4 ethylenedioxythiophene): polystyrene sulfonate were used to record electrophysiological signals from autonomous cardiac contractile cells present in embryoid bodies. Signal detection was carried out by measuring the displacement current across the polymer/electrolyte double-layer capacitance, and compared with voltage detection. While for relatively low capacitance electrodes, the voltage amplification provides higher signal quality, and for high capacitive electrodes, the displacement current method exhibits a higher signal-to-noise ratio. It is proposed that the displacement current method combined with high capacitive polymer-based electrodes is adequate to measure clusters of cells and whole organs. Our approach has a great potential in fundamental studies of drug discovery and safety pharmacology.
- Iterative range estimation in a sloping-bottom shallow-water waveguide using the generalized array invariantPublication . Cho, Chomgun; Song, H. C.; Hursky, P.; Jesus, SergioThe array invariant theory was generalized by incorporating the waveguide invariant beta, referred to as the generalized array invariant. In this paper, the generalized array invariant is extended to mildly range-dependent environments with a sloping bottom where the waveguide invariant is variable in range. Assuming knowledge of the bottom slope, the array invariant can be applied iteratively to estimate the source range starting with beta=1 (i.e., range-independent), which converges toward the correct source range by updating b at the previously estimated range. The iterative array invariant approach is demonstrated using a short-aperture vertical array (2.8-m) in a sloping-bottom shallow-water waveguide from the Random Array of Drifting Acoustic Receivers 2007 experiment, where a high-frequency source (2-3.5 kHz) close to the surface (6-m) was towed between 0.5 and 5 km in range with the water depth varying from 80 to 50 m. (C) 2017 Acoustical Society of America.
- Trends and strategies to enhance triacylglycerols and high-value compounds in microalgaePublication . Lisa Schueler, Lisa M. Schueler; Schulze, Peter S.C.; Pereira, Hugo; Barreira, Luísa; Leon, Rosa; J. C. or Varela J. or Varela J.C.S., VarelaMicroalgae are important sources of triacylglycerols (TAGs) and high-value compounds such as carotenoids and long-chain polyunsaturated fatty acids (LC-PUFAs). TAGs are feedstocks for biofuels or edible oils; carotenoids are used as pigments in the food and feed industries; and LC-PUFAs are beneficial for human health, being also key to the correct development of fish in aquaculture. Current trends in microalgal biotechnology propose the combined production of biofuels with high-value compounds to turn large-scale production of microalgal biomass into an economically feasible venture. As TAGs, carotenoids and LC-PUFAs are lipophilic biomolecules, they not only share biosynthetic precursors and storage sinks, but also their regulation often depends on common environmental stimuli. In general, stressful conditions favor carotenoid and TAGs biosynthesis, whereas the highest accumulation of LC-PUFAs is usually obtained under conditions promoting growth. However, there are known exceptions to these general rules, as a few species are able to accumulate LC-PUFAs under low light, low temperature or long-term stress conditions. Thus, future research on how microalgae sense, transduce and respond to environmental stress will be crucial to understand how the biosynthesis and storage of these lipophilic molecules are regulated. The use of high-throughput methods (e.g. fluorescent activated cell sorting) will provide an excellent opportunity to isolate triple-producers, i.e. microalgae able to accumulate high levels of LC-PUFAs, carotenoids and TAGs simultaneously. Comparative transcriptomics between wild type and tripleproducers could then be used to identify key gene products involved in the regulation of these biomolecules even in microalgal species not amenable to reverse genetics. This combined approach could be a major step towards a better understanding of the microalgal metabolism under different stress conditions. Moreover, the generation of triple-producers would be essential to raise the biomass value in a biorefinery setting and contribute to meet the world's rising demand for food, feed and energy.
- HDNetDB: A Molecular Interaction Database for Network-Oriented Investigations into Huntington's DiseasePublication . Reddy Kalathur, Ravi Kiran; Pinto, Jose Pedro; Sahoo, Biswanath; Chaurasia, Gautam; Futschik, Matthias E.Huntington's disease (HD) is a progressive and fatal neurodegenerative disorder caused by an expanded CAG repeat in the huntingtin gene. Although HD is monogenic, its molecular manifestation appears highly complex and involves multiple cellular processes. The recent application of high throughput platforms such as microarrays and mass-spectrometry has indicated multiple pathogenic routes. The massive data generated by these techniques together with the complexity of the pathogenesis, however, pose considerable challenges to researchers. Network-based methods can provide valuable tools to consolidate newly generated data with existing knowledge, and to decipher the interwoven molecular mechanisms underlying HD. To facilitate research on HD in a network-oriented manner, we have developed HDNetDB, a database that integrates molecular interactions with many HD-relevant datasets. It allows users to obtain, visualize and prioritize molecular interaction networks using HD-relevant gene expression, phenotypic and other types of data obtained from human samples or model organisms. We illustrated several HDNetDB functionalities through a case study and identified proteins that constitute potential cross-talk between HD and the unfolded protein response (UPR). HDNetDB is publicly accessible at http://hdnetdb.sysbiolab.eu.
- Quantum vibrational excitations and protein folding in vivoPublication . Cruzeiro, LeonorOne main hypothesis is that when triggers like water molecules or ions or other ligands, or chemical reactions, act on a protein, the energy input to the protein is in the form of local quantum vibrational excited states (the VES hypothesis).
- Benthic food webs support the production of sympatric flatfish larvae in estuarine nursery habitatPublication . Dias, Ester; Morais, Pedro; Faria, Ana M.; Antunes, C.; Hoffman, Joel C.Identifying nursery habitats is of paramount importance to define proper management and conservation strategies for flatfish species. Flatfish nursery studies usually report upon habitat occupation, but few attempted to quantify the importance of those habitats to larvae development. The reliance of two sympatric flatfish species larvae, the European flounder Platichthys flesus and the common sole Solea solea, on the estuarine food web (benthic versus pelagic), was determined through carbon and nitrogen stable isotope analysis. The organic matter sources supporting the production of P.flesus and S.solea larvae biomass originates chiefly in the benthic food web. However, these species have significantly different C-13 and N-15 values which suggest that they prey on organisms that use a different mixture of sources or assimilate different components from similar OM pools (or both).
- Historical analysis of storm events: case studies in France, England, Portugal and ItalyPublication . Garnier, E.; Ciavola, P.; Spencer, T.; Ferreira, Óscar; Armaroli, C.; McIvor, A.An historical analysis of the occurrence of storms and their damage intensity is presented. The work analysed historical large-scale events from The Middle Ages to the 1960s at case study sites along the coasts of North Norfolk (UK); Charente-Maritime and Vendée (France); Cinque Terre-Liguria coast (Italy); Emilia-Romagna coast (Italy) and Ria Formosa (Portugal). The work presented here used a database of events built by the RISC-KIT project, including the characteristics of the storms as well as recorded human impacts. Historical records can provide an important test bed to complement the statistical analysis of the return period of events based on measurements and provide important indicators of past events and their impact that are no longer within the historical memories of resident populations and coastal managers.
- "How" and "what" matters: Sampling method affects biodiversity estimates of reef fishesPublication . Bosch, Nestor E.; Gonçalves, Jorge Manuel Santos; Erzini, Karim; Tuya, FernandoUnderstanding changes in biodiversity requires the implementation of monitoring programs encompassing different dimensions of biodiversity through varying sampling techniques. In this work, fish assemblages associated with the "outer" and "inner" sides of four marinas, two at the Canary Islands and two at southern Portugal, were investigated using three complementary sampling techniques: underwater visual censuses (UVCs), baited cameras (BCs), and fish traps (FTs). We firstly investigated the complementarity of these sampling methods to describe species composition. Then, we investigated differences in taxonomic (TD), phylogenetic (PD) and functional diversity (FD) between sides of the marinas according to each sampling method. Finally, we explored the applicability/reproducibility of each sampling technique to characterize fish assemblages according to these metrics of diversity. UVCs and BCs provided complementary information, in terms of the number and abundances of species, while FTs sampled a particular assemblage. Patterns of TD, PD, and FD between sides of the marinas varied depending on the sampling method. UVC was the most cost-efficient technique, in terms of personnel hours, and it is recommended for local studies. However, for large-scale studies, BCs are recommended, as it covers greater spatio-temporal scales by a lower cost. Our study highlights the need to implement complementary sampling techniques to monitor ecological change, at various dimensions of biodiversity. The results presented here will be useful for optimizing future monitoring programs.
- Thyroid function of steatitis-affected Mozambique tilapia Oreochromis mossambicus from a sub-tropical African reservoirPublication . Dabrowski, J.; Oberholster, P.; Steyl, J.; Osthoff, G.; Hugo, A.; Power, Deborah M; van Wyk, J. H.Thyroid function and nutritional indicators were measured in obese, steatitis-affected Mozambique tilapia Oreochromis mossambicus from Loskop Reservoir (LR), South Africa. Plasma thyroid hormones (especially T3) and thyroid follicle histomorphology revealed high levels of activity in every aspect of the thyroid cascade measured in fish from LR compared to a reference population of steatitis-free fish. Concurrent measurements of nutritional state including plasma lipids, liver lipid content and hepatocyte size showed that fish from LR had significant energy stores indicative of abundant nutritional intake. There were distinct sex and seasonal differences, with the highest plasma lipids and T3 levels observed in steatitis-affected females during spring and summer. Positive correlations were observed between plasma lipids (especially cholesterol) and T3 concentrations in fish from both populations, indicating a link between lipid metabolism and thyroid function. There was no direct evidence of thyroid disruption, but this cannot be ruled out until further research determines the factors that underlie the homeostatic shift leading to elevated plasma and liver lipids and T3 levels in steatitis-affected tilapia.
- A microsatellite sequence in the fifth intron provides a broad-spectrum SSR marker for multiple alleles of the er1/PsMLO1 powdery mildew resistance gene in Pisum sativum L.Publication . Cardoso, André; Pereira, Ricardo; Fonseca, Maria; M Leitão, JPowdery mildew caused by the biotrophic ascomycete fungus Erysiphe pisi Syd. is one the most devastating diseases of peas (Pisum sativum L.) with enormous impact in seed production. The most efficient genetic resistance to this disease, so far identified, is conferred by the naturally occurring or experimentally induced by chemical mutagenesis recessive state of the locus er1. Genetically mapped over 2 decades ago, this gene was recently identified as a homolog of the barley (Hordeum sativum L.) powdery mildew resistance gene MLO, and renamed as PsMLO1. The broad wide resistance conferred by the er1/PsMLO1 locus was found to be a consequence of the loss of function of the encoded PsMLO1 protein. After the publication of the expressed sequence of this gene by another research group, we published the genomic sequences of this gene which harbors a relatively long (TA) microsatellite sequence (SSR) in the fifth intron. SSR markers based on this highly polymorphic microsatellite can be used for marker-assisted selection in multiple pea powdery mildew resistance breeding programs involving the er1/PsMLO1 resistance, except in the rare circumstances where the progenitor lines are monomorphic for the microsatellite sequence.