University of Trento

About: University of Trento is a education organization based out in Trento, Italy. It is known for research contribution in the topics: Population & Context (language use). The organization has 10527 authors who have published 30978 publications receiving 896614 citations. The organization is also known as: Universitá degli Studi di Trento & Universita degli Studi di Trento.

Microbial strain-level population structure and genetic diversity from metagenomes.

Abstract: Among the human health conditions linked to microbial communities, phenotypes are often associated with only a subset of strains within causal microbial groups. Although it has been critical for decades in microbial physiology to characterize individual strains, this has been challenging when using culture-independent high-throughput metagenomics. We introduce StrainPhlAn, a novel metagenomic strain identification approach, and apply it to characterize the genetic structure of thousands of strains from more than 125 species in more than 1500 gut metagenomes drawn from populations spanning North and South American, European, Asian, and African countries. The method relies on per-sample dominant sequence variant reconstruction within species-specific marker genes. It identified primarily subject-specific strain variants ( 70% of species). Microbial population structure was correlated in several distinct ways with the geographic structure of the host population. In some cases, discrete subspecies (e.g., for Eubacterium rectale and Prevotella copri) or continuous microbial genetic variations (e.g., for Faecalibacterium prausnitzii) were associated with geographically distinct human populations, whereas few strains occurred in multiple unrelated cohorts. We further estimated the genetic variability of gut microbes, with Bacteroides species appearing remarkably consistent (0.45% median number of nucleotide variants between strains), whereas P. copri was among the most plastic gut colonizers. We thus characterize here the population genetics of previously inaccessible intestinal microbes, providing a comprehensive strain-level genetic overview of the gut microbial diversity.

Performance of the ATLAS trigger system in 2015

Abstract: During 2015 the ATLAS experiment recorded 3.8 fb(-1) of proton-proton collision data at a centre-of-mass energy of 13 TeV. The ATLAS trigger system is a crucial component of the experiment, respons ...

A Theoretical Framework for Unsupervised Change Detection Based on Change Vector Analysis in the Polar Domain

Abstract: This paper addresses unsupervised change detection by proposing a proper framework for a formal definition and a theoretical study of the change vector analysis (CVA) technique. This framework, which is based on the representation of the CVA in polar coordinates, aims at: 1) introducing a set of formal definitions in the polar domain (which are linked to the properties of the data) for a better general description (and thus understanding) of the information present in spectral change vectors; 2) analyzing from a theoretical point of view the distributions of changed and unchanged pixels in the polar domain (also according to possible simplifying assumptions); 3) driving the implementation of proper preprocessing procedures to be applied to multitemporal images on the basis of the results of the theoretical study on the distributions; and 4) defining a solid background for the development of advanced and accurate automatic change-detection algorithms in the polar domain. The findings derived from the theoretical analysis on the statistical models of classes have been validated on real multispectral and multitemporal remote sensing images according to both qualitative and quantitative analyses. The results obtained confirm the interest of the proposed framework and the validity of the related theoretical analysis

Whole powder pattern modelling.

Abstract: A new approach for the modelling of diffraction patterns without using analytical profile functions is described and tested on ball milled f.c.c. Ni powder samples. The proposed whole powder pattern modelling (WPPM) procedure allows a one-step refinement of microstructure parameters by a direct modelling of the experimental pattern. Lattice parameter and defect content, expressed as dislocation density, outer cut-off radius, contrast factor, twin and deformation fault probabilities), can be refined together with the parameters (mean and variance) of a grain-size distribution. Different models for lattice distortions and domain size and shape can be tested to simulate or model diffraction data for systems as different as plastically deformed metals or finely dispersed crystalline powders. TEM pictures support the conclusions obtained by WPPM and confirm the validity of the proposed procedure.

A unified catalog of 204,938 reference genomes from the human gut microbiome.

Abstract: Comprehensive, high-quality reference genomes are required for functional characterization and taxonomic assignment of the human gut microbiota. We present the Unified Human Gastrointestinal Genome (UHGG) collection, comprising 204,938 nonredundant genomes from 4,644 gut prokaryotes. These genomes encode >170 million protein sequences, which we collated in the Unified Human Gastrointestinal Protein (UHGP) catalog. The UHGP more than doubles the number of gut proteins in comparison to those present in the Integrated Gene Catalog. More than 70% of the UHGG species lack cultured representatives, and 40% of the UHGP lack functional annotations. Intraspecies genomic variation analyses revealed a large reservoir of accessory genes and single-nucleotide variants, many of which are specific to individual human populations. The UHGG and UHGP collections will enable studies linking genotypes to phenotypes in the human gut microbiome.