Publications

Herein we describe the synthesis of water-soluble platinum nanodendrites in dimethylformamide (DMF), in the presence of polyethyleneimine (PEI) as a stabilizing agent. The average size of the dendrites is in the range of 20-25 nm while their porosity can be tuned by modifying the concentration of the metal precursor. Electron tomography revealed different crystalline orientations of nanocrystallites in the nanodendrites and allowed a better understanding of their peculiar branching and porosity. The high surface area of the dendrites (up to 22 m(2) g(-1)) was confirmed by BET measurements, while X-ray diffraction confirmed the abundance of high-index facets in the face-centered-cubic crystal structure of Pt. The prepared nanodendrites exhibit excellent performance in the electrocatalytic oxidation of ethanol in alkaline solution. Sensing, selectivity, cycleability and great tolerance toward poisoning were demonstrated by cyclic voltammetry measurements.

Abstract Single-cell DNA sequencing (scDNA-seq) has enabled the identification of single nucleotide somatic variants and the reconstruction of cell phylogenies. However, statistical phylogenetic models for cell phylogeny reconstruction from raw sequencing data are still in their infancy. Here we present SIEVE (SIngle-cell EVolution Explorer), a statistical method for the joint inference of somatic variants and cell phylogeny under the finite-sites assumption from scDNA-seq reads. SIEVE leverages raw read counts for all nucleotides at candidate variant sites, and corrects the acquisition bias of branch lengths. In our simulations, SIEVE outperforms other methods both in phylogenetic accuracy and variant calling accuracy. We apply SIEVE to three scDNA-seq datasets, for colorectal (CRC) and triple-negative breast cancer (TNBC), one of them generated by us. On simulated data, SIEVE reliably infers homo-and heterozygous somatic variants. The analysis of real data uncovers that double mutant genotypes are rare in CRC but unexpectedly frequent in TNBC samples.

Abstract This study focuses on the determination of the chemical profile of 24 non-aged Brazilian artisanal sugarcane spirits ( cachaça ) samples through chromatographic quantification and chemometric treatment via principal component analysis (PCA) and Kohonen’s neural network. In total, forty-seven (47) chemical compounds were identified in the samples of non-aged artisanal cachaça , in addition to determining alcohol content, volatile acidity, and copper. For the PCA of the chemical compounds’ profile, it could be observed that the samples were grouped into seven groups. On the other hand, the variables’ bearings were grouped together, making it difficult to separate the components in relation to the sample groups and reducing the chances of obtaining all the necessary information. However, by using a Kohonen’s neural network, samples were grouped into eight groups. This tool proved to be more accurate in the groups’ formation. Among the chemical classes of the compounds observed, esters stood out, followed by alcohols, acids, aldehydes, ketones, phenol, and copper. The abundance of esters in these samples may suggest that these compounds would be part of the regional standard for cachaças produced in the region of Salinas, Minas Gerais.

Abstract We introduce a maximum likelihood framework called CellPhy for inferring phylogenetic trees from single-cell DNA sequencing (scDNA-seq) data. CellPhy leverages a finite-site Markov genotype substitution model with 16 diploid states, akin to those typically used in statistical phylogenetics. It includes a dedicated error function for single cells that incorporates amplification/sequencing error and allelic dropout (ADO). Moreover, it can explicitly consider the uncertainty of the variant calling process by using genotype likelihoods as input. We implemented CellPhy in a widely used open-source phylogenetic inference package (RAxML-NG) that provides statistical confidence measurements on the estimated tree and scales particularly well on large scDNA-seq datasets with hundreds or thousands of cells. To benchmark CellPhy, we carried out 19,400 coalescent simulations of cell samples from exponentially-growing tumors for which the true phylogeny was known. We evolved single-cell diploid DNA genotypes along the simulated genealogies under different scenarios, including infinite- and finite-sites nucleotide mutation models, trinucleotide mutational signatures, sequencing, and amplification errors, allele dropouts, and cell doublets. Our simulations suggest that CellPhy is robust to amplification/sequencing errors and ADO and outperforms state-of-the-art methods under realistic scDNA-seq scenarios both in terms of accuracy and speed. Also, we sequenced 24 single-cell whole-genomes from a colorectal tumor. Together with three published scDNA-seq data sets, we analyzed these empirical data to illustrate how CellPhy can provide more reliable biological insights than most competing methods. CellPhy is freely available at https://github.com/amkozlov/cellphy .

Meat constitutes one the main protein sources worldwide. However, ethical and health concerns have limited its consumption over the last years. To overcome this negative impact, new ingredients from natural sources are being applied to meat products to obtain healthier proteinaceous meat products. Algae is a good source of unsaturated fatty acids, proteins, essential amino acids, and vitamins, which can nutritionally enrich several foods. On this basis, algae have been applied to meat products as a functional ingredient to obtain healthier meat-based products. This paper mainly reviews the bioactive compounds in algae and their application in meat products. The bioactive ingredients present in algae can give meat products functional properties such as antioxidant, neuroprotective, antigenotoxic, resulting in healthier foods. At the same time, algae addition to foods can also contribute to delay microbial spoilage extending shelf-life. Additionally, other algae-based applications such as for packaging materials for meat products are being explored. However, consumers' acceptance for new products (particularly in Western countries), namely those containing algae, not only depends on their knowledge, but also on their eating habits. Therefore, it is necessary to further explore the nutritional properties of algae-containing meat products to overcome the gap between new meat products and traditional products, so that healthier algae-containing meat can occupy a significant place in the market.

The recent coronavirus disease 2019 (COVID-19) pandemic is a global threat for healthcare management and the economic system, and effective treatments against the pathogenic severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus responsible for this disease have not yet progressed beyond the developmental phases. As drug refinement and vaccine progression require enormously broad investments of time, alternative strategies are urgently needed. In this study, we examined phytochemicals extracted from Avicennia officinalis and evaluated their potential effects against the main protease of SARS-CoV-2. The antioxidant activities of A. officinalis leaf and fruit extracts at 150 µg/mL were 95.97% and 92.48%, respectively. Furthermore, both extracts displayed low cytotoxicity levels against Artemia salina. The gas chromatography–mass spectroscopy analysis confirmed the identifies of 75 phytochemicals from both extracts, and four potent compounds, triacontane, hexacosane, methyl linoleate, and methyl palminoleate, had binding free energy values of −6.75, −6.7, −6.3, and −6.3 Kcal/mol, respectively, in complexes with the SARS-CoV-2 main protease. The active residues Cys145, Met165, Glu166, Gln189, and Arg188 in the main protease formed non-bonded interactions with the screened compounds. The root-mean-square difference (RMSD), root-mean-square fluctuations (RMSF), radius of gyration (Rg), solvent-accessible surface area (SASA), and hydrogen bond data from a molecular dynamics simulation study confirmed the docked complexes′ binding rigidity in the atomistic simulated environment. However, this study′s findings require in vitro and in vivo validation to ensure the possible inhibitory effects and pharmacological efficacy of the identified compounds.

Wheat germ protein is a potential resource to produce bioactive peptides. As a cheap, safe, and healthy nutritional factor, wheat germ-derived bioactive peptides (WGBPs) provide benefits and great potential for biomedical applications. The objective of this review is to reveal the current research status of WGBPs, including their preparation methods and biological functions, such as antibacterial, anti-tumor, immune regulation, antioxidant, and anti-inflammatory properties, etc. We also reviewed the information in terms of the preventive ability of WGBPs to treat serious infectious diseases, to offer their reference to further research and application. Opinions on future research directions are also discussed. Through the review of previous research, we find that there are still some scientific issues in the basic research and industrialization process of WGBPs that deserve further exploration. Firstly, based on current complex enzymolysis, the preparation and production of WGBPs need to be combined with other advanced technology to achieve efficient and large-scale production. Secondly, studies on the bioavailability, biosafety, and mechanism against different diseases of WGBPs need to be carried out in different in vitro and in vivo models. More human experimental evidence is also required to support its industrial application as a functional food and nutritional supplement.HighlightsThe purification and identification of wheat germ-derived bioactive peptides.The main biological activities and potential mechanisms of wheat germ hydrolysates/peptides.Possible absorption and transport pathways of wheat germ hydrolysate/peptide.Wheat germ peptide shows a variety of health benefits according to its amino acid sequence.Current food applications and future perspectives of wheat germ protein hydrolysates/peptide.

The cost-effective adsorbents of carbonized pistachio shell magnetic nanoparticles (CPSMNPs) were synthesized. SEM, EDX, and BET characterized the prepared CPSMNPs. The CPSMNPs were used as adsorbents to remove Metanil Yellow (MY) dye. The adsorption of MY was investigated with the effect of pH, contact time, initial dye concentration, adsorbent dose, and temperature. The SEM image of CPSMNPs reveals fine particles with an average size of 400–700 nm and a substantial surface area increase (112.58 m2/g). The EDX analysis confirms the carbonization of PS to CPS and the successful impregnation of Fe3O4 nanoparticles. CPSMNPs showed excellent adsorption efficiency, i.e., 94% for adsorption of MY of 10 mL of 100 ppm MY at optimum conditions. Kinetics data fit pseudo-second-order kinetics. The Langmuir isotherm better represents the equilibrium data with the spontaneous sorption process. This study investigates that the synthesized nanoparticles have an excellent texture and can be used as a special adsorbent for the adsorption of wastewater pollutants like MY.

Objective: To evaluate the nutritional quality of energy sources in the diet of the rural population of Galicia (N.W. Spain), including their alcohol and fibre intake, in order to detect risk groups with nutritional unbalance of the energy sources within a balanced group in global terms. All this with a view to the development of a nutritional education policy addressed to such groups to change their food habits little by little with specific clear messages. Design: Cross-sectional assessment of diet from a representative sample of rural Galician population by means of a 24-hour dietary recall questionnaire (in three visits on non-consecutive days). Subjects: 981 healthy subjects of either sex aged 20-64 years (482 belonging to three inland municipalities and 499 from three coastal municipalities) were evaluated along one year since Spring 1994 till Winter 1995. Main outcome measures: The data obtained for each sex, age group, season and geographical area were compared with published recommendations for the Spanish population (recommended intakes, Rl, and nutritional objectives, NO). Results: The results show that the diet of the communities studied features an excess of alcohol (30-150 NO%), animal fat (150-160 NO%) and protein (200-225 RI%), while it is low in fibre (60-65 NO%), complex carbohydrates (45-49 NO%), and also simple carbohydrates consumed as fruit and vegetables (47-92 NO%). Conclusions: It is proposed the development of nutritional education programmes directed to the rural Galician population to modify their diet in order to achieve the Spanish nutritional recommended intakes. Sponsorship: This work was financed by Instituto de Desarrollo Comunitario (IDC) in Santiago de Compostela, Galicia, NW Spain, an organization dedicated to rural development. Descriptors: nutritional intake, energy sources, nutritional education programmes, Galicia.