Pressure Evolution of the Ferromagnetic and Field Re-entrant Superconductivity in URhGe

Fine pressure ($P$) and magnetic field ($H$) tuning on the ferromagnetic superconductor URhGe are reported in order to clarify the interplay between the mass enhancement, low field superconductivity (SC) and field reentrant superconductivity (RSC) by electrical resistivity measurements. With increasing $P$, the transition temperature and the upper critical field of the low field SC decrease slightly, while the RSC dome drastically shifts to higher fields and shrinks. The spin reorientation field $H_{\rm R}$ also increases. At a pressure $P\sim 1.8$ GPa, the RSC has collapsed while the low field SC persists and may disappear only above 4 GPa. Via careful $(P, H)$ studies of the inelastic $T^2$ resistivity term, it is demonstrated that this drastic change is directly related with the $P$ dependence of the effective mass which determines the critical field of the low field SC and RSC on the basis of triplet SC without Pauli limiting field.Comment: 5 pages, 6 figures, to appear in Journal of the Physical Society of Japa

Dilatometry study of the ferromagnetic order in single-crystalline URhGe

Thermal expansion measurements have been carried out on single-crystalline URhGe in the temperature range from 2 to 200 K. At the ferromagnetic transition (Curie temperature T_C = 9.7 K), the coefficients of linear thermal expansion along the three principal orthorhombic axes all exhibit pronounced positive peaks. This implies that the uniaxial pressure dependencies of the Curie temperature, determined by the Ehrenfest relation, are all positive. Consequently, the calculated hydrostatic pressure dependence dT_C/dp is positive and amounts to 0.12 K/kbar. In addition, the effective Gruneisen parameter was determined. The low-temperature electronic Gruneisen parameter \Gamma_{sf} = 14 indicates an enhanced volume dependence of the ferromagnetic spin fluctuations at low temperatures. Moreover, the volume dependencies of the energy scales for ferromagnetic order and ferromagnetic spin fluctuations were found to be identical.Comment: 5 page

Sweetened Drink and Snacking Cues in Adolescents. A Study Using Ecological Momentary Assessment

The objective of this study was to identify physical, social, and intrapersonal cues that were associated with the consumption of sweetened beverages and sweet and salty snacks among adolescents from lower SES neighborhoods. Students were recruited from high schools with a minimum level of 25% free or reduced cost lunches. Using ecological momentary assessment, participants (N=158) were trained to answer brief questionnaires on handheld PDA devices: (a) each time they ate or drank, (b) when prompted randomly, and (c) once each evening. Data were collected over 7days for each participant. Participants reported their location (e.g., school grounds, home), mood, social environment, activities (e.g., watching TV, texting), cravings, food cues (e.g., saw a snack), and food choices. Results showed that having unhealthy snacks or sweet drinks among adolescents was associated with being at school, being with friends, feeling lonely or bored, craving a drink or snack, and being exposed to food cues. Surprisingly, sweet drink consumption was associated with exercising. Watching TV was associated with consuming sweet snacks but not with salty snacks or sweet drinks. These findings identify important environmental and intrapersonal cues to poor snacking choices that may be applied to interventions designed to disrupt these food-related, cue-behavior linked habits

PhyloPattern: regular expressions to identify complex patterns in phylogenetic trees

<p>Abstract</p> <p>Background</p> <p>To effectively apply evolutionary concepts in genome-scale studies, large numbers of phylogenetic trees have to be automatically analysed, at a level approaching human expertise. Complex architectures must be recognized within the trees, so that associated information can be extracted.</p> <p>Results</p> <p>Here, we present a new software library, PhyloPattern, for automating tree manipulations and analysis. PhyloPattern includes three main modules, which address essential tasks in high-throughput phylogenetic tree analysis: node annotation, pattern matching, and tree comparison. PhyloPattern thus allows the programmer to focus on: i) the use of predefined or user defined annotation functions to perform immediate or deferred evaluation of node properties, ii) the search for user-defined patterns in large phylogenetic trees, iii) the pairwise comparison of trees by dynamically generating patterns from one tree and applying them to the other.</p> <p>Conclusion</p> <p>PhyloPattern greatly simplifies and accelerates the work of the computer scientist in the evolutionary biology field. The library has been used to automatically identify phylogenetic evidence for domain shuffling or gene loss events in the evolutionary histories of protein sequences. However any workflow that relies on phylogenetic tree analysis, could be automated with PhyloPattern.</p

Non-Centrosymmetric Heavy-Fermion Superconductors

In this chapter we discuss the physical properties of a particular family of non-centrosymmetric superconductors belonging to the class heavy-fermion compounds. This group includes the ferromagnet UIr and the antiferromagnets CeRhSi3, CeIrSi3, CeCoGe3, CeIrGe3 and CePt3Si, of which all but CePt3Si become superconducting only under pressure. Each of these superconductors has intriguing and interesting properties. We first analyze CePt3Si, then review CeRhSi3, CeIrSi3, CeCoGe3 and CeIrGe3, which are very similar to each other in their magnetic and electrical properties, and finally discuss UIr. For each material we discuss the crystal structure, magnetic order, occurrence of superconductivity, phase diagram, characteristic parameters, superconducting properties and pairing states. We present an overview of the similarities and differences between all these six compounds at the end.Comment: To appear in "Non-Centrosymmetric Superconductors: Introduction and Overview", Lecture Notes in Physics 847, edited by E. Bauer and M. Sigrist (Springer-Verlag, Berlin Heidelberg, 2012) Chap. 2, pp. 35-7

Critical Scaling of the Magnetization and Magnetostriction in the Weak Itinerant Ferromagnet UIr

The weak itinerant ferromagnet UIr is studied by magnetization and magnetostriction measurements. Critical behavior, which surprisingly extends up to several Tesla, is observed at the Curie temperature $T_C\simeq45$ K and is analyzed using Arrott and Maxwell relations. Critical exponents are found that do not match with any of the well-known universality classes. The low-temperature magnetization $M_s\simeq0.5$ $\mu_B \cong const.$ below 3 T rises towards higher fields and converges asymptotically around 50 T with the magnetization at $T_C$. From the magnetostriction and magnetization data, we extract the uniaxial pressure dependences of $T_C$, using a new method presented here, and of $M_s$. These results should serve as a basis for understanding spin fluctuations in anisotropic itinerant ferromagnets.Comment: 4 pages, 3 figure

Evolutionary origin of peptidoglycan recognition proteins in vertebrate innate immune system

<p>Abstract</p> <p>Background</p> <p>Innate immunity is the ancient defense system of multicellular organisms against microbial infection. The basis of this first line of defense resides in the recognition of unique motifs conserved in microorganisms, and absent in the host. Peptidoglycans, structural components of bacterial cell walls, are recognized by Peptidoglycan Recognition Proteins (PGRPs). PGRPs are present in both vertebrates and invertebrates. Although some evidence for similarities and differences in function and structure between them has been found, their evolutionary history and phylogenetic relationship have remained unclear. Such studies have been severely hampered by the great extent of sequence divergence among vertebrate and invertebrate PGRPs. Here we investigate the birth and death processes of PGRPs to elucidate their origin and diversity.</p> <p>Results</p> <p>We found that (i) four rounds of gene duplication and a single domain duplication have generated the major variety of present vertebrate PGRPs, while in invertebrates more than ten times the number of duplications are required to explain the repertoire of present PGRPs, and (ii) the death of genes in vertebrates appears to be almost null whereas in invertebrates it is frequent.</p> <p>Conclusion</p> <p>These results suggest that the emergence of new <it>PGRP </it>genes may have an impact on the availability of the repertoire and its function against pathogens. These striking differences in PGRP evolution of vertebrates and invertebrates should reflect the differences in the role of their innate immunity. Insights on the origin of <it>PGRP </it>genes will pave the way to understand the evolution of the interaction between host and pathogens and to lead to the development of new treatments for immune diseases that involve proteins related to the recognition of self and non-self.</p

Self-recognition and Ca2+-dependent carbohydrate–carbohydrate cell adhesion provide clues to the Cambrian explosion

Author Posting. © The Authors, 2009. This is the author's version of the work. It is posted here by permission of Oxford University Press for personal use, not for redistribution. The definitive version was published in Molecular Biology and Evolution 26 (2009): 2551-2561, doi:10.1093/molbev/msp170.The Cambrian explosion of life was a relatively short period ca. 540 million years ago that marked a generalized acceleration in the evolution of most animal phyla, but the trigger of this key biological event remains elusive. Sponges are the oldest extant Precambrian metazoan phylum and thus a valid model to study factors that could have unleashed the rise of multicellular animals. One such factor is the advent of self/non-self recognition systems, which would be evolutionarily beneficial to organisms to prevent germ cell parasitism or the introduction of deleterious mutations resulting from fusion with genetically different individuals. However, the molecules responsible for allorecognition probably evolved gradually before the Cambrian period, and some other (external) factor remains to be identified as the missing triggering event. Sponge cells associate through calcium-dependent, multivalent carbohydrate-carbohydrate interactions of the g200 glycan found on extracellular proteoglycans. Single molecule force spectroscopy analysis of g200-g200 binding indicates that calcium affects the lifetime (+Ca/-Ca: 680 s/3 s) and bond reaction length (+Ca/-Ca: 3.47 Å/2.27 Å). Calculation of mean g200 dissociation times in low and high calcium within the theoretical framework of a cooperative binding model indicates the non-linear and divergent characteristics leading to either disaggregated cells or stable multicellular assemblies, respectively. This fundamental phenomenon can explain a switch from weak to strong adhesion between primitive metazoan cells caused by the well documented rise in ocean calcium levels at the end of Precambrian time. We propose that stronger cell adhesion allowed the integrity of genetically uniform animals composed only of “self” cells, facilitating genetic constitutions to remain within the metazoan individual and be passed down inheritance lines. The Cambrian explosion might have been triggered by the coincidence in time of primitive animals endowed with self/non-self recognition, and of a surge in sea water calcium that increased the binding forces between their calcium-dependent cell adhesion molecules.D.A. and A.K. acknowledge financial support from the Collaborative Research Center SFB 613 from the Deutsche Forschungsgemeinschaft (DFG), and X.F.-B. acknowledges financial support from grants BIO2002-00128, BIO2005-01591, and CSD2006-00012 from the Ministerio de Ciencia y Tecnología, Spain, which included Fondo Europeo de Desarrollo Regional funds, and from grant 2005SGR-00037 from the Generalitat de Catalunya, Spain

A Post-Synaptic Scaffold at the Origin of the Animal Kingdom

The evolution of complex sub-cellular structures such as the synapse requires the assembly of multiple proteins, each conferring added functionality to the integrated structure. Tracking the early evolution of synapses has not been possible without genomic information from the earliest branching animals. As the closest extant relatives to the Eumetazoa, Porifera (sponges) represent a pivotal group for understanding the evolution of nervous systems, because sponges lack neurons with clearly recognizable synapses, in contrast to eumetazoan animals.We show that the genome of the demosponge Amphimedon queenslandica possesses a nearly complete set of post-synaptic protein homologs whose conserved interaction motifs suggest assembly into a complex structure. In the critical synaptic scaffold gene, dlg, residues that make hydrogen bonds and van der Waals interactions with the PDZ ligand are 100% conserved between sponge and human, as is the motif organization of the scaffolds. Expression in Amphimedon of multiple post-synaptic gene homologs in larval flask cells further supports the existence of an assembled structure. Among the few post-synaptic genes absent from Amphimedon, but present in Eumetazoa, are receptor genes including the entire ionotropic glutamate receptor family.Highly conserved protein interaction motifs and co-expression in sponges of multiple proteins whose homologs interact in eumetazoan synapses indicate that a complex protein scaffold was present at the origin of animals, perhaps predating nervous systems. A relatively small number of crucial innovations to this pre-existing structure may represent the founding changes that led to a post-synaptic element

Evaluation of cell-free DNA approaches for multi-cancer early detection

In the Circulating Cell-free Genome Atlas (NCT02889978) substudy 1, we evaluate several approaches for a circulating cell-free DNA (cfDNA)-based multi-cancer early detection (MCED) test by defining clinical limit of detection (LOD) based on circulating tumor allele fraction (cTAF), enabling performance comparisons. Among 10 machine-learning classifiers trained on the same samples and independently validated, when evaluated at 98% specificity, those using whole-genome (WG) methylation, single nucleotide variants with paired white blood cell background removal, and combined scores from classifiers evaluated in this study show the highest cancer signal detection sensitivities. Compared with clinical stage and tumor type, cTAF is a more significant predictor of classifier performance and may more closely reflect tumor biology. Clinical LODs mirror relative sensitivities for all approaches. The WG methylation feature best predicts cancer signal origin. WG methylation is the most promising technology for MCED and informs development of a targeted methylation MCED test