Immobilization of proteins in silica gel: Biochemical and biophysical properties

The development of silica-based sol-gel techniques compatible with the retention of protein structure and function started more than 20 years ago, mainly for the design of biotechnological devices or biomedical applications. Silica gels are optically transparent, exhibit good mechanical stability, are manufactured with different geometries, and are easily separated from the reaction media. Biomolecules encapsulated in silica gel normally retain their structural and functional properties, are stabilized with respect to chemical and physical insults, and can sometimes exhibit enhanced activity in comparison to the soluble form. This review briefly describes the chemistry of protein encapsulation within the pores of a silica gel three-dimensional network, the mechanism of interaction between the protein and the gel matrix, and its effects on protein structure, function, stability and dynamics. The main applications in the field of biosensor design are described. Special emphasis is devoted to silica gel encapsulation as a tool to selectively stabilize subsets of protein conformations for biochemical and biophysical studies, an application where silica-based encapsulation demonstrated superior performance with respect to other immobilization techniques

Learning Ordinal Preferences on Multiattribute Domains: the Case of CP-nets

International audienceA recurrent issue in decision making is to extract a preference structure by observing the user's behavior in different situations. In this paper, we investigate the problem of learning ordinal preference orderings over discrete multi-attribute, or combinatorial, domains. Specifically, we focus on the learnability issue of conditional preference networks, or CP- nets, that have recently emerged as a popular graphical language for representing ordinal preferences in a concise and intuitive manner. This paper provides results in both passive and active learning. In the passive setting, the learner aims at finding a CP-net compatible with a supplied set of examples, while in the active setting the learner searches for the cheapest interaction policy with the user for acquiring the target CP-net

Exploring Amino Acid Auxotrophy in Bifidobacterium bifidum PRL2010

The acquisition and assimilation strategies followed by members of the infant gut microbiota to retrieve nitrogen from the gut lumen are still largely unknown. In particular, no information on these metabolic processes is available regarding bifidobacteria, which are among the first microbial colonizers of the human intestine. Here, evaluation of amino acid auxotrophy and prototrophy of Bifidobacterium bifidum, with particular emphasis on B. bifidum strain PRL2010 (LMG S-28692), revealed a putative auxotrophy for cysteine. In addition, we hypothesized that cysteine plays a role in the oxidative stress response in B. bifidum. The use of glutathione as an alternative reduced sulfur compound did not alleviate cysteine auxotrophy of this strain, though it was shown to stimulate expression of the genes involved in cysteine biosynthesis, reminiscent of oxidative stress response. When PRL2010 was grown on a medium containing complex substrates, such as whey proteins or casein hydrolysate, we noticed a distinct growth-promoting effect of these compounds. Transcriptional analysis involving B. bifidum PRL2010 cultivated on whey proteins or casein hydrolysate revealed that the biosynthetic pathways for cysteine and methionine are modulated by the presence of casein hydrolysate. Such findings support the notion that certain complex substrates may act as potential prebiotics for bifidobacteria in their ecological niche

Unveiling the gut microbiota composition and functionality associated with constipation through metagenomic analyses

Functional constipation (FC) is a gastrointestinal disorder with a high prevalence among the general population. The precise causes of FC are still unknown and are most likely multifactorial. Growing evidence indicates that alterations of gut microbiota composition contribute to constipation symptoms. Nevertheless, many discrepancies exist in literature and no clear link between FC and gut microbiota composition has as yet been identified. In this study, we performed 16 S rRNA-based microbial profiling analysis of 147 stool samples from 68 FC individuals and compared their microbial profiles with those of 79 healthy subjects (HS). Notably, the gut microbiota of FC individuals was shown to be depleted of members belonging to Bacteroides, Roseburia and Coprococcus 3. Furthermore, the metabolic capabilities of the gut microbiomes of five FC and five HS individuals were evaluated through shotgun metagenomics using a MiSeq platform, indicating that HS are enriched in pathways involved in carbohydrate, fatty acid and lipid metabolism as compared to FC. In contrast, the microbiomes corresponding to FC were shown to exhibit high abundance of genes involved in hydrogen production, methanogenesis and glycerol degradation. The identified differences in bacterial composition and metabolic capabilities may play an important role in development of FC symptoms

Simultaneous Elicitation of Committee and Voters' Preferences

Co-localisées avec la Plate-Forme Intelligence Artificielle (PFIA 2019)International audienceSocial choice deals with the problem of determining a consensus choice from the preferences of different voters. In the classical setting, the voting rule is fixed beforehand and full information concerning he preferences of the voters is provided. Recently, the assumption of full preference information has been questioned by a number of researchers and several methods for eliciting preferences have been proposed. In this paper we go one step further and we assume that both the voting rule and the voters’ preferences are partially specified. In this setting, we present an interactive elicitation protocol based on minimax regret and develop several query strategies that interleave questions to the chair and questions to the voters in order to attempt to acquire the most relevant information in order to quickly converge to optimal or a near-optimal alternative

Preference-based Search using Example-Critiquing with Suggestions

We consider interactive tools that help users search for their most preferred item in a large collection of options. In particular, we examine example-critiquing, a technique for enabling users to incrementally construct preference models by critiquing example options that are presented to them. We present novel techniques for improving the example-critiquing technology by adding suggestions to its displayed options. Such suggestions are calculated based on an analysis of users current preference model and their potential hidden preferences. We evaluate the performance of our model-based suggestion techniques with both synthetic and real users. Results show that such suggestions are highly attractive to users and can stimulate them to express more preferences to improve the chance of identifying their most preferred item by up to 78%

A Comparative Analysis of Deterministic Detection and Estimation Techniques for MIMO SFCW Radars

In this paper, the problem of the joint estimation of the range and azimuth of multiple targets in a multiple-input multiple-output stepped-frequency continuous wave radar system is investigated. Three deterministic algorithms solving it through an iterative beam cancellation procedure are described; moreover, an iterative technique, based on the expectation-maximization algorithm, is developed with the aim of refining their estimates. The accuracy achieved by all the considered algorithms is assessed on the basis of the raw data acquired from a low power wideband radar device. Our results evidence that these algorithms achieve similar accuracies, but at the price of different computational efforts

photosensitizing proteins for antibacterial photodynamic inactivation

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Difference in PaO2/FiO2 between high-flow nasal cannula and Venturi mask in hypoxemic COVID-19 patients

The ratio between arterial blood partial pressure of oxygen and fraction of inspired oxygen (PaO2/FiO2) was largely used for grading and managing the respiratory failure in non-mechanically ventilated COVID-19. In these patients, the assessment of the true FiO2 in the inspired mixture may be difficult with consequent inaccuracies in PaO2/FiO2 assessment. In 30 severe COVID-19 patients, we observed that PaO2/FiO2 values measured immediately before and after the transition from high-flow nasal cannula (HFNC) to one commercially available Venturi mask O2 therapy were similar (bias mean value 0, standard deviation 23 mmHg). In COVID-19 patients recovering from respiratory failure, PaO2/FiO2 is not different whether measured with a commercially available Venturi mask or HFNC