Oral microbiota, health, and cancer: the dual face of the same coin in the field of the host-microbe interactome

In recent years, within the extensive research regarding human microbiota and chronic diseases, new medical and laboratory technologies have played a crucial role in understanding more complex biological pathways between human cells and microbes. On the other hand, molecular and cellular diversity and their involvement in health responses to changing host conditions have only recently been understood, through the development of brand-new laboratory tools based on ‘omics approaches. The continuous insertion of already conceptualized, new experimental large datasets and raw data onto bibliographic platforms means that they are now accessible for subsequent elaboration by other researchers. This aspect has allowed the creation of an interactive mesh of proteins, genes, and small molecules, usually called, interactome or interactomics

Draft Genome Sequence of Lactobacillus plantarum Lp90 Isolated from Wine

Contains fulltext : 155072.pdf (publisher's version ) (Open Access)Here, we describe the draft genome sequence and annotation of Lactobacillus plantarum strain Lp90, the first sequenced genome of a L. plantarum strain isolated from wine. This strain has a noticeable ropy phenotype and showed potential probiotic properties. The genome consists of 3,324,076 bp (33 contigs) and contains 3,155 protein coding genes, 34 pseudogenes, and 84 RNA genes

Oral human papilloma virus infection: an overview of clinical-laboratory diagnosis and treatment

Abstract. – OBJECTIVE: The aim of this review is to describe the “hot points” of current clinical governance for oral HPV comprising the use of new diagnostic molecular procedures, namely, Pyrosequencing and Next Generation Sequencing. MATERIALS AND METHODS: The data on oral HPV was collected through two levels of research. First for all, we used the canonical medical search engines, PubMed, and Medline, followed by the study of current commercial tools for HPV diagnosis, particularly within commercial companies involved in the molecular procedures for HPV detecting and genotyping. RESULTS: Different medical procedures are now described and used throughout the world in HPV diagnosis and treatment. However, the laboratory methods are often validated and used for genital infections, and, in these cases, data are missing in the literature as regards the clinical approach for oral lesions. CONCLUSIONS: Dental care units are often the front line for a clinical evaluation of a possible HPV lesion in the oral cavity, which means that correct clinical governance could avoid a viral neoplastic progression of this disease with great advantages for the patient. In this case, the problem is due to the difficulty in lesion recognition but also and more especially the absence of correct laboratory diagnosis and subsequent treatment in the clinical course

Remnant radio-loud AGN in the Herschel-ATLAS field

Only a small fraction of observed active galactic nuclei (AGN) display large-scale radio emission associated with jets, yet these radio-loud AGN have become increasingly important in models of galaxy evolution. In determining the dynamics and energetics of the radio sources over cosmic time, a key question concerns what happens when their jets switch off. The resulting ‘remnant' radio-loud AGN have been surprisingly evasive in past radio surveys, and therefore statistical information on the population of radio-loud AGN in their dying phase is limited. In this paper, with the recent developments of Low-Frequency Array (LOFAR) and the Very Large Array, we are able to provide a systematically selected sample of remnant radio-loud AGN in the Herschel-ATLAS field. Using a simple core-detection method, we constrain the upper limit on the fraction of remnants in our radio-loud AGN sample to 9 per cent, implying that the extended lobe emission fades rapidly once the core/jets turn off. We also find that our remnant sample has a wide range of spectral indices (−1.5 ⩽ α1400150 ⩽ −0.5), confirming that the lobes of some remnants may possess flat spectra at low frequencies just as active sources do. We suggest that, even with the unprecedented sensitivity of LOFAR, our sample may still only contain the youngest of the remnant population

Improving SNR and reducing training time of classifiers in large datasets via kernel averaging

Kernel methods are of growing importance in neuroscience research. As an elegant extension of linear methods, they are able to model complex non-linear relationships. However, since the kernel matrix grows with data size, the training of classifiers is computationally demanding in large datasets. Here, a technique developed for linear classifiers is extended to kernel methods: In linearly separable data, replacing sets of instances by their averages improves signal-to-noise ratio (SNR) and reduces data size. In kernel methods, data is linearly non-separable in input space, but linearly separable in the high-dimensional feature space that kernel methods implicitly operate in. It is shown that a classifier can be efficiently trained on instances averaged in feature space by averaging entries in the kernel matrix. Using artificial and publicly available data, it is shown that kernel averaging improves classification performance substantially and reduces training time, even in non-linearly separable data

The Apertif Surveys:The First Six Months

Apertif is a new phased-array feed for the Westerbork Synthesis Radio Telescope (WSRT), greatly increasing its field of view and turning it into a natural survey instrument. In July 2019, the Apertif legacy surveys commenced; these are a time-domain survey and a two-tiered imaging survey, with a shallow and medium-deep component. The time-domain survey searches for new (millisecond) pulsars and fast radio bursts (FRBs). The imaging surveys provide neutral hydrogen (HI), radio continuum and polarization data products. With a bandwidth of 300 MHz, Apertif can detect HI out to a redshift of 0.26. The key science goals to be accomplished by Apertif include localization of FRBs (including real-time public alerts), the role of environment and interaction on galaxy properties and gas removal, finding the smallest galaxies, connecting cold gas to AGN, understanding the faint radio population, and studying magnetic fields in galaxies. After a proprietary period, survey data products will be publicly available through the Apertif Long Term Archive (ALTA, https://alta.astron.nl). I will review the progress of the surveys and present the first results from the Apertif surveys, including highlighting the currently available public data

Combining Private Set-Intersection with Secure Two-Party Computation

Private Set-Intersection (PSI) is one of the most popular and practically relevant secure two-party computation (2PC) tasks. Therefore, designing special-purpose PSI protocols (which are more efficient than generic 2PC solutions) is a very active line of research. In particular, a recent line of work has proposed PSI protocols based on oblivious transfer (OT) which, thanks to recent advances in OT-extension techniques, is nowadays a very cheap cryptographic building block. Unfortunately, these protocols cannot be plugged into larger 2PC applications since in these protocols one party (by design) learns the output of the intersection. Therefore, it is not possible to perform secure post-processing of the output of the PSI protocol. In this paper we propose a novel and efficient OT-based PSI protocol that produces an encrypted output that can therefore be later used as an input to other 2PC protocols. In particular, the protocol can be used in combination with all common approaches to 2PC including garbled circuits, secret sharing and homomorphic encryption. Thus, our protocol can be combined with the right 2PC techniques to achieve more efficient protocols for computations of the form $z=f(X\cap Y)$ for arbitrary functions $f$

Clusters of galaxies : observational properties of the diffuse radio emission

Clusters of galaxies, as the largest virialized systems in the Universe, are ideal laboratories to study the formation and evolution of cosmic structures...(abridged)... Most of the detailed knowledge of galaxy clusters has been obtained in recent years from the study of ICM through X-ray Astronomy. At the same time, radio observations have proved that the ICM is mixed with non-thermal components, i.e. highly relativistic particles and large-scale magnetic fields, detected through their synchrotron emission. The knowledge of the properties of these non-thermal ICM components has increased significantly, owing to sensitive radio images and to the development of theoretical models. Diffuse synchrotron radio emission in the central and peripheral cluster regions has been found in many clusters. Moreover large-scale magnetic fields appear to be present in all galaxy clusters, as derived from Rotation Measure (RM) studies. Non-thermal components are linked to the cluster X-ray properties, and to the cluster evolutionary stage, and are crucial for a comprehensive physical description of the intracluster medium. They play an important role in the cluster formation and evolution. We review here the observational properties of diffuse non-thermal sources detected in galaxy clusters: halos, relics and mini-halos. We discuss their classification and properties. We report published results up to date and obtain and discuss statistical properties. We present the properties of large-scale magnetic fields in clusters and in even larger structures: filaments connecting galaxy clusters. We summarize the current models of the origin of these cluster components, and outline the improvements that are expected in this area from future developments thanks to the new generation of radio telescopes.Comment: Accepted for the publication in The Astronomy and Astrophysics Review. 58 pages, 26 figure