ABSTRACTGene knock-out studies on Geobacter sulfurreducens cells showed that the outer membrane-associated monoheme cytochrome OmcF is involved in respiratory pathways leading to the extracellular reduction of Fe(III) and U(VI). In addition, microarray analysis of an OmcF-deficient mutant revealed that many of the genes with decreased transcript level were those whose expression is up-regulated in cells grown with a graphite electrode as electron acceptor, suggesting that OmcF also regulates the electron transfer to electrode surfaces and the concomitant electricity production by G. sulfurreducens in microbial fuel cells. 15N,13C–labeled OmcF was produced and NMR spectroscopy was used to determine the solution structure of the protein in the fully reduced state and the pH-dependent conformational changes. In addition, 15N relaxation NMR experiments were used to characterize the overall and internal backbone dynamics of OmcF. The structure obtained is well defined, with an average pairwise root mean square deviation of 0.37 Å for the backbone atoms and 0.98 Å for all heavy atoms. For the first time a solution structure and the protein motions were determined for an outer membrane cytochrome from G. sulfurreducens, which constitutes an important step to understand the extracellular electron transfer mechanism in Geobacter cells.

Cadmium selenide quantum dots (CdSe QDs), were synthesized by one‐pot or water‐to‐organic phase transfer and capped with molten 2,2′‐bipyridine (bipy). The obtained CdSe QDs by the two‐step procedure, reveal average sizes of 2 nm while the one‐pot are mixed with secondary salt products and bipy and are undetectable by TEM. However the absorption peak of both CdSe QDs was at 425 nm and the emission band is centered at 535 nm, with a band width at half height of 77 nm, when excited with 425 nm light. The two‐step CdSe QDs synthesis has the great advantage of capping the CdSe QDs with bipy, forming a solid phase, which is easily stored and dispersed in most of the organic solvents. On the other hand, the one‐pot procedure requires an extra step to remove the secondary products.

The incorporation of thermosensitive microgels that can act as active sites into polymeric fibers through colloidal electrospinning originates multifunctional, highly porous, and biocompatible membranes suitable for biomedical applications. The use of polyvinylpyrrolidone (PVP), a biocompatible, water-soluble polymer as a fiber template, not only allows the use of a simple set-up to produce composite membranes, but also avoids the use of organic solvents to prepare such systems. Further crosslinking with ultraviolet (UV) radiation avoids membrane dissolution in physiological conditions. Highly porous, UV crosslinked composite membranes with monodisperse mean fiber diameters around 530 nm were successfully produced. These composite membranes showed a Young Modulus of 22 MPa, and an ultimate tensile strength of 3 MPa, accessed in the mechanical tests. Furthermore, the same composite membranes were able to swell about 30 times their weight after 1 hour in aqueous medium. In this work composite multifunctional membranes were designed and extensively studied. PVP, a biocompatible water-soluble polymer, was used as a fiber template to incorporate thermoresponsive poly-(N-isopropylacrylamide) (PNIPAAm)-based microgels into the composite membrane using colloidal electrospinning. The design of multifunctional membranes can be further tailored to several biomedical applications such as temperature-controlled drug delivery systems.

Genomic instability is frequently caused by nucleic acid structures termed R-loops that are formed during transcription. Despite their harmful potential, mechanisms that sense, signal, and suppress these structures remain elusive. Here, we report that oscillations in transcription dynamics are a major sensor of R-loops. We show that pausing of RNA polymerase II (RNA Pol II) initiates a signaling cascade whereby the serine/arginine protein kinase 2 (SRPK2) phosphorylates the DDX23 helicase, culminating in the suppression of R-loops. We show that in the absence of either SRPK2 or DDX23, accumulation of R-loops leads to massive genomic instability revealed by high levels of DNA double-strand breaks (DSBs). Importantly, we found DDX23 mutations in several cancers and detected homozygous deletions of the entire DDX23 locus in 10 (17%) adenoid cystic carcinoma (ACC) samples. Our results unravel molecular details of a link between transcription dynamics and RNA-mediated genomic instability that may play important roles in cancer development.

The cooperative assembly of biopolymers and small molecules can yield functional materials with precisely tunable properties. Here, the fabrication, characterization, and use of multicomponent hybrid gels as selective gas sensors are reported. The gels are composed of liquid crystal droplets self-assembled in the presence of ionic liquids, which further coassemble with biopolymers to form stable matrices. Each individual component can be varied and acts cooperatively to tune gels' structure and function. The unique molecular environment in hybrid gels is explored for supramolecular recognition of volatile compounds. Gels with distinct compositions are used as optical and electrical gas sensors, yielding a combinatorial response conceptually mimicking olfactory biological systems, and tested to distinguish volatile organic compounds and to quantify ethanol in automotive fuel. The gel response is rapid, reversible, and reproducible. These robust, versatile, modular, pliant electro-optical soft materials possess new possibilities in sensing triggered by chemical and physical stimuli.

Nano-Fe3O4-synthetic talc gel was used as filler in the synthesis of waterborne polyurethane/Fe3O4-synthetic talc nanocomposites. This filler presents numerous edges (Si–O and Mg–O) and OH groups easily forming hydrogen bonds and polar interaction with water conferring hydrophilic character, consequently improving filler dispersion within a water-based matrix. Yet, the use of waterborne polyurethane (WPU) as matrix must be highlighted due to its environmentally friendly characteristics and low toxicity compared to solvent-based product. Fe3O4-synthetic talc-nanofillers were well dispersed into the polyurethane matrix even at high filler content as supported by XRD and TEM analyses. NMR indicates the interaction of filler OH groups with the matrix. For all nanocomposites, one can see a typical ferromagnetic behavior below Curie temperature (about 120 K) and a superparamagnetic behavior above this temperature. The use of Fe3O4-synthetic talc for obtaining magnetic nanocomposites resulted in improved materials with superior mechanical properties compared to solvent-based nanocomposites.

In the last two decades, it has been observed an increasing low enrolment of students in chemistry teaching courses in secondary schools. On the one hand, because of the negative connotation of chemistry, associated with the potentially toxic and pollutant chemical industry, and on the other hand, that the teaching of this subject is exclusively carried out only in a theoretical classroom environment with almost non-existent practical/experimental component, despite chemistry is an experimental science in its essence. This state of affairs has been reflected in chemistry degrees offered by Portuguese universities throughout the country, which in the application process for each academic year, ended up by never completely fulfilling the number of offered nunerus clausus. Considering that the pedagogical mission of the Faculty of Science and Technology of Universidade NOVA de Lisboa (FCT-NOVA), in particular its Department of Chemistry (DQ), aims to contribute to the human, scientific and technical development of students, a project has been settled in the last nine years in order to offer to high school students a unique opportunity to arouse in them the interest in Science in general and Chemistry in particular, to stimulate impart on them the joy of curiosity, while at the same time conferring the necessary skills for their future activity as students of higher education or in the labour market. It is also through the close contact with students that method, discipline, and intellectual honesty are transmitted and cultivated. The aim of this Project was thus to promote the study and taste interest for Chemistry, through experimental activities, fitting the Portuguese High School Education curricula, offered to students enrolled in Chemistry subjects attending the 10th, 11th and 12th grades (the latter, compulsory high school degree to apply to University Throughout 2016/17 academic year, DQ-FCT-NOVA will receive, from October to May, 1888 students visits from eleven High Schools distributed among Physical Chemistry for 10th/11th grade and of the 12th grade attending the Chemistry subject. The former are offer one single laboratory activity while the latter participate up to 10 different experimental activities. During 70 practical sessions of 2.5 hours each, with an average attendance of 27 students, the number of higher education school staff involved are 22. Each high school class is accompanied by 1 teacher, who's also proactively contributing to the design of the practical session. The session is carried out in groups of 2/3 students, and the laboratories have a capacity of 24/48 according onto classes sizes. A quality questionnaire is filled by the students in order to monitor the action. In 2015/16, 63 % of the students answered the questionnaire in which more than 90% students were very satisfied with the action. This project has already been implemented for 9 years reflecting a growing collaboration between FCT-NOVA and in High Schools in the vicinity (Setubal District). Above all, this Project allowed most of these schools to continue to motivate students to enrol in 12th grade Chemistry subject. Actually, in the first year of the initiative, many of these schools did not have enough students to open chemistry classes for the 12th grade. After the first initiative, almost all high schools have been able to maintain open 12th grade chemistry classes. On the other hand, FCT-NOVA, namely, the Applied Chemistry course, has been able to fill 100% of the numerus clausus available in the first phase of the application period, which is not the case for other higher education schools courses in Portugal for the same domain - Chemistry.

Arsenic is a widely distributed environmental toxin whose presence in drinking water poses a threat to >140 million people worldwide. The respiratory enzyme arsenite oxidase from various bacteria catalyses the oxidation of arsenite to arsenate and is being developed as a biosensor for arsenite. The arsenite oxidase from Rhizobium sp. str. NT-26 (a member of the Alphaproteobacteria) is a heterotetramer consisting of a large catalytic subunit (AioA), which contains a molybdenum centre and a 3Fe-4S cluster, and a small subunit (AioB) containing a Rieske 2Fe-2S cluster. Stopped-flow spectroscopy and isothermal titration calorimetry (ITC) have been used to better understand electron transfer through the redox-active centres of the enzyme, which is essential for biosensor development. Results show that oxidation of arsenite at the active site is extremely fast with a rate of >4000s−1 and reduction of the electron acceptor is rate-limiting. An AioB-F108A mutation results in increased activity with the artificial electron acceptor DCPIP and decreased activity with cytochrome c, which in the latter as demonstrated by ITC is not due to an effect on the protein-protein interaction but instead to an effect on electron transfer. These results provide further support that the AioB F108 is important in electron transfer between the Rieske subunit and cytochrome c and its absence in the arsenite oxidases from the Betaproteobacteria may explain the inability of these enzymes to use this electron acceptor.

The use of gold nanoparticles for effective gene silencing has demonstrated its potential as a tool for gene expression experiments and for the treatment of several diseases. Here, we used a gold nanobeacon designed to specifically silence the enhanced green fluorescence protein (EGFP) mRNA in embryos of a fli-EGFP transgenic zebrafish line, while simultaneously allowing the tracking and localization of the silencing events via the beacon’s emission. Fluorescence imaging measurements demonstrated a decrease of the EGFP emission with a concomitant increase in the fluorescence of the Au-nanobeacon. Furthermore, microinjection of the Au-nanobeacon led to a negligible difference in mortality and malformations in comparison to the free oligonucleotide, indicating that this system is a biocompatible platform for the administration of gene silencing moieties. Together, these data illustrate the potential of Au-nanobeacons as tools for in vivo zebrafish gene modulation with low toxicity which may be used towards any gene of interest.

Spacer-less RED stacks using membranes with integrated spacer profiles have been investigated during the last years to eliminate the spacer shadow effect. The presence of spacers partially blocks the membrane surface and creates a tortuous and thus longer path for ions in the channel, meaning higher ohmic resistance. Consequently, power outputs are reduced. Profiled membranes may solve this problem as they provide flow channels for the feed streams, while the relief formed on their surfaces keeps the membranes separated. Although the geometry and arrangement of so far used profiles led to lower ohmic resistance, it did not grant an efficient fluid mixing. Recently, so-called chevron profiles, with enhanced mixing, were proposed based on computational fluid dynamics (CFD) simulations. In the present study, the performance of such chevron-profiled membranes, prepared by thermal pressing, was experimentally validated in a reverse electrodialysis (RED) stack. According to the obtained experimental values of non-ohmic resistance and total pressure drop across the RED stack, the chevron-profiled membranes assure efficient fluid mixing at comparatively low hydraulic losses. The net power density obtained with chevron-profiled membranes was the highest obtained for the present stack design. It outperformed the alternative RED stack configurations investigated in this study, such as channels with optimized spacers and channels formed by pillar-profiled membranes. To allow for an even more straightforward and efficient RED stack assembling with chevron-profiled membranes, recommendations for a further simplified design, consisting of diagonal ridges that are assembled perpendicularly, are provided.

Accepted Manuscript online January 16, 2017.Geobacter bacteria usually prevail among other microorganisms in soils and sediments where Fe(III) reduction has a central role. This reduction is achieved by extracellular electron transfer (EET), where the electrons are exported from the interior of the cell to the surrounding environment. Periplasmic cytochromes play an important role in establishing an interface between inner and outer membrane electron transfer components. In addition, periplasmic cytochromes, in particular nanowire cytochromes that contain at least 12 haem groups, have been proposed to play a role in electron storage in conditions of an environmental lack of electron acceptors. Up to date, no redox partners have been identified in Geobacter sulfurreducens, and concomitantly, the EET and electron storage mechanisms remain unclear. In this work, NMR chemical shift perturbation measurements were used to probe for an interaction between the most abundant periplasmic cytochrome PpcA and the dodecahaem cytochrome GSU1996, one of the proposed nanowire cytochromes in G. sulfurreducens. The perturbations on the haem methyl signals of GSU1996 and PpcA showed that the proteins form a transient redox complex in an interface that involves haem groups from two different domains located at the C-terminal of GSU1996. Overall, the present study provides for the first time a clear evidence for an interaction between periplasmic cytochromes that might be relevant for the EET and electron storage pathways in G. sulfurreducens.1D, one-dimensional; CbcL, c- and b-type cytochrome for low potential; EET, extracellular electron transfer; HP, His-patch; ImcH, inner membrane c-type cytochrome; MacA, metal-reduction-associated cytochrome; NaPi, sodium phosphate; NBAF, acetate-fumarate medium; NMR, nuclear magnetic resonance; PpcA, periplasmic c-type cytochrome; SDS–PAGE, sodium dodecyl sulphate–polyacrylamide gel electrophoresis; STC, small tetrahaem cytochrome.

Proteomic and genetic studies have identified a family of five triheme cytochromes (PpcA-E) that are essential in the iron respiratory pathways of Geobacter sulfurreducens. These include the reduction of Fe(iii) soluble chelated forms or Fe(iii) oxides{,} which can be used as terminal acceptors by G. sulfurreducens. The relevance of these cytochromes in the respiratory pathways of soluble or insoluble forms of iron is quite distinct. In fact{,} while PpcD had a higher abundance in the Fe(iii) oxides supplanted G. sulfurreducens cultures{,} PpcA{,} PpcB and PpcE were important in Fe(iii) citrate supplanted cultures. Based on these observations we probed the molecular interactions between these cytochromes and Fe(iii) citrate by NMR spectroscopy. NMR spectra were recorded for natural abundance and 15N-enriched PpcA{,} PpcB or PpcE samples at increasing amounts of Fe(iii) citrate. The addition of this molecule caused pronounced perturbations on the line width of the protein{'}s NMR signals{,} which were used to map the interaction region between each cytochrome and the Fe(iii) citrate molecule. The perturbations on the NMR signals corresponding to the backbone NH and heme methyl substituents showed that complex interfaces consist of a well-defined patch{,} which surrounds the more solvent-exposed heme IV methyl groups in each cytochrome. Overall{,} this study provides for the first time a clear illustration of the formation of an electron transfer complex between Fe(iii) citrate and G. sulfurreducens triheme cytochromes{,} shown to be crucial in this respiratory pathway.

Accepted Manuscript online November 14, 2016.The periplasmic triheme cytochrome PpcA from Geobacter sulfurreducens is highly abundant; it is the likely reservoir of electrons to the outer surface to assist the reduction of extracellular terminal acceptors; these include insoluble metal oxides in natural habitats and electrode surfaces from which electricity can be harvested. A detailed thermodynamic characterization of PpcA showed that it has an important redox-Bohr effect that might implicate the protein in e-/H+ coupling mechanisms to sustain cellular growth. This functional mechanism requires control of both the redox state and the protonation state. In the present study, isotope-labeled PpcA was produced and the three-dimensional structure of PpcA in the oxidized form was determined by NMR. This is the first solution structure of a G. sulfurreducens cytochrome in the oxidized state. The comparison of oxidized and reduced structures revealed that the heme I axial ligand geometry changed and there were other significant changes in the segments near heme I. The pH-linked conformational rearrangements observed in the vicinity of the redox-Bohr center, both in the oxidized and reduced structures, constitute the structural basis for the differences observed in the pKa values of the redox-Bohr center, providing insights into the e-/H+ coupling molecular mechanisms driven by PpcA in G. sulfurreducens.EET, extracellular electron transfer; IM, inner membrane; IPTG, isopropyl β-d-thiogalactoside; MFCs, microbial fuel cells; NOE, Nuclear Overhauser effect; OM, outer membrane; rmsd, root mean square deviation.

Aldehyde oxidases (AOXs) are molybdo-flavoenzymes characterized by broad substrate specificity, oxidizing aromatic/aliphatic aldehydes into the corresponding carboxylic acids and hydroxylating various heteroaromatic rings. Mammals are characterized by a complement of species-specific \{AOX\} isoenzymes, that varies from one in humans (AOX1) to four in rodents (AOX1, AOX2, \{AOX3\} and AOX4). The physiological function of mammalian \{AOX\} isoenzymes is unknown, although human \{AOX1\} is an emerging enzyme in phase-I drug metabolism. Indeed, the number of therapeutic molecules under development which act as \{AOX\} substrates is increasing. The recent crystallization and structure determination of human \{AOX1\} as well as mouse \{AOX3\} has brought new insights into the mechanisms underlying substrate/inhibitor binding as well as the catalytic activity of this class of enzymes.

Adsorption of model systems of triclosan by mineral sorbent diatomite is studied. The triclosan equilibrium concentration was measured spectrophotometrically, the morphology of the diatomite characterized using scanning electron microscopy and the amount of the adsorbed triclosan on the diatomite quantified by a mass balance. Adsorption isotherms were analyzed according to the linear/nonlinear form of Langmuir, Freundlich, Sips and Toth isotherm models isotherms, using AMPL software. It is shown that nonlinear Langmuir and Sips isotherm model provided suitable fitting results and no pronounced difference in adsorption efficiency between isotherms measured after 1, 2 and 3days adsorption was observed. Determined maximum adsorption capacity of diatomite towards triclosan qs is 140mg/g. Averaged calculated values of ΔG are −9.9 and −9.6kJ/mol for Langmuir and Sips models respectively. The negative sign of such values indicates spontaneous, physical in nature adsorption.

The cooperative assembly of biopolymers and small molecules can yield functional materials with precisely tunable properties. Here, the fabrication, characterization, and use of multicomponent hybrid gels as selective gas sensors are reported. The gels are composed of liquid crystal droplets self-assembled in the presence of ionic liquids, which further coassemble with biopolymers to form stable matrices. Each individual component can be varied and acts cooperatively to tune gels' structure and function. The unique molecular environment in hybrid gels is explored for supramolecular recognition of volatile compounds. Gels with distinct compositions are used as optical and electrical gas sensors, yielding a combinatorial response conceptually mimicking olfactory biological systems, and tested to distinguish volatile organic compounds and to quantify ethanol in automotive fuel. The gel response is rapid, reversible, and reproducible. These robust, versatile, modular, pliant electro-optical soft materials possess new possibilities in sensing triggered by chemical and physical stimuli.