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

Comparative analysis of the diffuse radio emission in the galaxy clusters A1835, A2029, and Ophiuchus

We recently performed a study of a sample of relaxed, cooling core galaxy clusters with deep Very Large Array observations at 1.4 GHz. We find that in the central regions of A1835, A2029, and Ophiuchus the dominant radio galaxy is surrounded by a diffuse low-brightness radio emission that takes the form of a mini-halo. Here we present the results of the analysis of the extended diffuse radio emission in these mini-halos. In order to investigate the morphological properties of the diffuse radio emission in clusters of galaxies we propose to fit their azimuthally averaged brightness profile with an exponential, obtaining the central brightness and the e-folding radius from which the radio emissivity can be calculated. We investigate the radio properties of the mini-halos in A1835, A2029, and Ophiuchus in comparison with the radio properties of a representative sample of mini-halos and halos already known in the literature. We find that radio halos can have quite different length-scales but their emissivity is remarkably similar from one halo to the other. In contrast, mini-halos span a wide range of radio emissivity. Some of them, like the Perseus mini-halos, are characterized by a radio emissivity which is more than 100 times greater than that of radio halos. On the other hand, the new mini-halos in cooling core clusters analyzed in this work, namely A2029, Ophiuchus, and A1835, have a radio emissivity which is much more typical of halos in merging clusters rather than similar to that of the other mini-halos previously known.Comment: 17 pages, 11 figures, A&A in press. For a version with high quality figures, see http://erg.ca.astro.it/preprints/mini_halo_2

USE OF GAS CHROMATOGRAPHY ORAL CHROMA™ IN THE ASSESSMENT OF VOLATILE SULFUR COMPOUNDS FOR BREATH’S ANALYSIS IN ORAL AND GASTRIC AFFECTION

Introduction: Breathomics (Breath-based metabolomics) is a new biotechnology approach that allow us to diagnose some human diseases by the oral breath analysis.The method is based on the identi#cation and quanti#cation of volatile organic compound (VOC) in breath, by a new portable gas chromatography’s tools such as Oral Chroma®. This instrument is able to detect and quantify three different volatile sulfur compounds, VSC ( H2S, CH3S ,(CH3)2S) in 5 ml of oral breath, in fast time and with good analytical accuracy. In addition, different authors recently have been described as a comparative analysis of VSC could be useful in the diagnosis of different oral or systemic diseases such as: (i) oral tongue halitosis or/and gastric affection such as Helicobacter pylori infectio

Mesenchymal/Stromal Gene Expression Signature Relates to Basal-Like Breast Cancers, Identifies Bone Metastasis and Predicts Resistance to Therapies

BACKGROUND: Mounting clinical and experimental evidence suggests that the shift of carcinomas towards a mesenchymal phenotype is a common paradigm for both resistance to therapy and tumor recurrence. However, the mesenchymalization of carcinomas has not yet entered clinical practice as a crucial diagnostic paradigm. METHODOLOGY/PRINCIPAL FINDINGS: By integrating in silico and in vitro studies with our epithelial and mesenchymal tumor models, we compare herein crucial molecular pathways of previously described carcinoma-derived mesenchymal tumor cells (A17) with that of both carcinomas and other mesenchymal phenotypes, such as mesenchymal stem cells (MSCs), breast stroma, and various types of sarcomas. We identified three mesenchymal/stromal-signatures which A17 cells shares with MSCs and breast stroma. By using a recently developed computational approach with publicly available microarray data, we show that these signatures: 1) significantly relates to basal-like breast cancer subtypes; 2) significantly relates to bone metastasis; 3) are up-regulated after hormonal treatment; 4) predict resistance to neoadjuvant therapies. CONCLUSIONS/SIGNIFICANCE: Our results demonstrate that mesenchymalization is an intrinsic property of the most aggressive tumors and it relates to therapy resistance as well as bone metastasis

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

Association studies of up to 1.2 million individuals yield new insights into the genetic etiology of tobacco and alcohol use.

Tobacco and alcohol use are leading causes of mortality that influence risk for many complex diseases and disorders1. They are heritable2,3 and etiologically related4,5 behaviors that have been resistant to gene discovery efforts6-11. In sample sizes up to 1.2 million individuals, we discovered 566 genetic variants in 406 loci associated with multiple stages of tobacco use (initiation, cessation, and heaviness) as well as alcohol use, with 150 loci evidencing pleiotropic association. Smoking phenotypes were positively genetically correlated with many health conditions, whereas alcohol use was negatively correlated with these conditions, such that increased genetic risk for alcohol use is associated with lower disease risk. We report evidence for the involvement of many systems in tobacco and alcohol use, including genes involved in nicotinic, dopaminergic, and glutamatergic neurotransmission. The results provide a solid starting point to evaluate the effects of these loci in model organisms and more precise substance use measures

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