Unravelling the paleoecology of flat clams: new insights from an Upper Triassic halobiid bivalve

Flat clams are ubiquitous in marine Triassic and Jurassic deep-water environments, where they are often recovered as mono- or pauci-specific assemblages. Their abundance in deep-water facies deposited under oxygen-depleted conditions suggests a potentially unique, but nevertheless debated, paleoecology. The distribution of Halobia cordillerana in an Upper Triassic hemipelagic succession outcropping at Tsiko Lake, Vancouver Island, Canada, serves as a revealing case study. There, deep-water deposits were investigated using a multi-disciplinary approach including facies description (mineralogical, fossil and organic content), taphonomy, morphometry, microscopy (cathodoluminescence, scanning-electron microscope) and independent paleo-redox proxy constraints (framboidal pyrite distributions, Fe speciation). Overall, halobiids' taphonomy at Tsiko Lake is indicative of in situ accumulations with little or no reworking. Among the hemipelagic deposits, three major litho-biofacies (BFC 1, 2, 3) were identified; paleo-redox proxies indicate that these litho-biofacies were deposited under different oxygen conditions ranging from extreme dysoxic (BFC 1) to dominantly euxinic (BFC 3). The distribution of H. cordillerana is shown to be directly influenced by bottom water oxygenation with this organism peaking both in abundance and dimensions under extreme dysoxic to anoxic conditions (i.e. BFC 1 & 2). Conversely, under prevailing euxinic conditions (i.e. BFC 3), the population of H. cordillerana is dominated by forms at larval or post-larval stage which were presumably killed by water-column euxinia. Thus, although the species is here shown to have lived most likely as an epibenthic recliner, an early (larval) planktonic/nektonic stage is needed to explain its mode of occurrence during dominantly euxinic conditions (i.e. BFC 3), and its wide distribution and rapid expansion. Finally, this study highlights the colonizing capacity of halobiids in case of restored oxygen conditions, stressing the potential significance of flat clams for paleoenvironmental reconstruction

Masonry behaviour and modelling

In this Chapter we present the basic experimental facts on masonry materials and introduce simple and refined models for masonry. The simple models are essentially macroscopic and based on the assumption that the material is incapable of sustaining tensile loads (No-Tension assumption). The refined models account for the microscopic structure of masonry, modeling the interaction between the blocks and the interfaces.(undefined

Characterization of an In-Beam PET Prototype for Proton Therapy With Different Target Compositions

At the University of Pisa, the DoPET (Dosimetry with a Positron Emission Tomograph) project has focused on the development and characterization of an ad hoc, scalable, dual-head PET prototype for in-beam treatment planning verification of the proton therapy. In this paper we report the first results obtained with our current prototype, consisting of two opposing lutetium yttrium orthosilicate (LYSO) detectors, each one covering an area of 4.5 × 4.5 cm2. We measured the β+-activation induced by 62 MeV proton beams at Catana facility (LNS, Catania, Italy) in several plastic phantoms. Experiments were performed to evaluate the possibility to extract accurate phantom geometrical information from the reconstructed PET images. The PET prototype proved its capability of locating small air cavities in homogeneous PMMA phantoms with a submillimetric accuracy and of distinguishing materials with different 16O and 12C content by back mapping phantom geometry through the separation of the isotope contributions. This could be very useful in the clinical practice as a tool to highlight anatomical or physiological organ variations among different treatment sessions and to discriminate different tissue types, thus providing feedbacks for the accuracy of dose deposition

The variable finesse locking technique

Virgo is a power recycled Michelson interferometer, with 3 km long Fabry-Perot cavities in the arms. The locking of the interferometer has been obtained with an original lock acquisition technique. The main idea is to lock the instrument away from its working point. Lock is obtained by misaligning the power recycling mirror and detuning the Michelson from the dark fringe. In this way, a good fraction of light escapes through the antisymmetric port and the power build-up inside the recycling cavity is extremely low. The benefit is that all the degrees of freedom are controlled when they are almost decoupled, and the linewidth of the recycling cavity is large. The interferometer is then adiabatically brought on to the dark fringe. This technique is referred to as variable finesse, since the recycling cavity is considered as a variable finesse Fabry-Perot. This technique has been widely tested and allows us to reach the dark fringe in few minutes, in an essentially deterministic way

Phase field modeling of nonlinear material behavior

Materials that undergo internal transformations are usually described in solid mechanics by multi-well energy functions that account for both elastic and transformational behavior. In order to separate the two effects, physicists use instead phase-field-type theories where conventional linear elastic strain is quadratically coupled to an additional field that describes the evolution of the reference state and solely accounts for nonlinearity. In this paper we propose a systematic method allowing one to split the non-convex energy into harmonic and nonharmonic parts and to convert a nonconvex mechanical problem into a partially linearized phase-field problem. The main ideas are illustrated using the simplest framework of the Peierls-Nabarro dislocation model.Comment: 12 pages, 4 figures. v1: as submitted. v2: as published (conclusion added, unessential part of appendix removed, minor typesetting revisions). To appear in: K. Hackl (ed.), Proceedings of the IUTAM Symposium on Variational Concepts with Applications to the Mechanics of Materials, September 22-26, 2008, Bochum. (Springer-Verlag, 2010 presumably

ENPP1 Affects Insulin Action and Secretion: Evidences from In Vitro Studies

The aim of this study was to deeper investigate the mechanisms through which ENPP1, a negative modulator of insulin receptor (IR) activation, plays a role on insulin signaling, insulin secretion and eventually glucose metabolism. ENPP1 cDNA (carrying either K121 or Q121 variant) was transfected in HepG2 liver-, L6 skeletal muscle- and INS1E beta-cells. Insulin-induced IR-autophosphorylation (HepG2, L6, INS1E), Akt-Ser473, ERK1/2-Thr202/Tyr204 and GSK3-beta Ser9 phosphorylation (HepG2, L6), PEPCK mRNA levels (HepG2) and 2-deoxy-D-glucose uptake (L6) was studied. GLUT 4 mRNA (L6), insulin secretion and caspase-3 activation (INS1E) were also investigated. Insulin-induced IR-autophosphorylation was decreased in HepG2-K, L6-K, INS1E-K (20%, 52% and 11% reduction vs. untransfected cells) and twice as much in HepG2-Q, L6-Q, INS1E-Q (44%, 92% and 30%). Similar data were obtained with Akt-Ser473, ERK1/2-Thr202/Tyr204 and GSK3-beta Ser9 in HepG2 and L6. Insulin-induced reduction of PEPCK mRNA was progressively lower in untransfected, HepG2-K and HepG2-Q cells (65%, 54%, 23%). Insulin-induced glucose uptake in untransfected L6 (60% increase over basal), was totally abolished in L6-K and L6-Q cells. GLUT 4 mRNA was slightly reduced in L6-K and twice as much in L6-Q (13% and 25% reduction vs. untransfected cells). Glucose-induced insulin secretion was 60% reduced in INS1E-K and almost abolished in INS1E-Q. Serum deficiency activated caspase-3 by two, three and four folds in untransfected INS1E, INS1E-K and INS1E-Q. Glyburide-induced insulin secretion was reduced by 50% in isolated human islets from homozygous QQ donors as compared to those from KK and KQ individuals. Our data clearly indicate that ENPP1, especially when the Q121 variant is operating, affects insulin signaling and glucose metabolism in skeletal muscle- and liver-cells and both function and survival of insulin secreting beta-cells, thus representing a strong pathogenic factor predisposing to insulin resistance, defective insulin secretion and glucose metabolism abnormalities

Mechanics of Reversible Unzipping

We study the mechanics of a reversible decohesion (unzipping) of an elastic layer subjected to quasi-static end-point loading. At the micro level the system is simulated by an elastic chain of particles interacting with a rigid foundation through breakable springs. Such system can be viewed as prototypical for the description of a wide range of phenomena from peeling of polymeric tapes, to rolling of cells, working of gecko's fibrillar structures and denaturation of DNA. We construct a rigorous continuum limit of the discrete model which captures both stable and metastable configurations and present a detailed parametric study of the interplay between elastic and cohesive interactions. We show that the model reproduces the experimentally observed abrupt transition from an incremental evolution of the adhesion front to a sudden complete decohesion of a macroscopic segment of the adhesion layer. As the microscopic parameters vary the macroscopic response changes from quasi-ductile to quasi-brittle, with corresponding decrease in the size of the adhesion hysteresis. At the micro-scale this corresponds to a transition from a `localized' to a `diffuse' structure of the decohesion front (domain wall). We obtain an explicit expression for the critical debonding threshold in the limit when the internal length scales are much smaller than the size of the system. The achieved parametric control of the microscopic mechanism can be used in the design of new biological inspired adhesion devices and machines

Canine and human gastrointestinal stromal tumors display similar mutations in c-KIT exon 11

<p>Abstract</p> <p>Background</p> <p>Gastrointestinal stromal tumors (GISTs) are common mesenchymal neoplasms in the gastrointestinal tract of humans and dogs. Little is known about the pathogenesis of these tumors. This study evaluated the role of <it>c-KIT </it>in canine GISTs; specifically, we investigated activating mutations in exons 8, 9, 11, 13, and 17 of <it>c-KIT </it>and exons 12, 14, and 18 of platelet-derived growth factor receptor, alpha polypeptide (<it>PDGFRA</it>), all of which have been implicated in human GISTs.</p> <p>Methods</p> <p>Seventeen canine GISTs all confirmed to be positive for KIT immunostaining were studied. Exons 8, 9, 11, 13 and 17 of <it>c-KIT </it>and exons 12, 14, and 18 of <it>PDGFRA</it>, were amplified from DNA isolated from formalin-fixed paraffin-embedded samples.</p> <p>Results</p> <p>Of these seventeen cases, six amplicons of exon 11 of <it>c-KIT </it>showed aberrant bands on gel electrophoresis. Sequencing of these amplicons revealed heterozygous in-frame deletions in six cases. The mutations include two different but overlapping six base pair deletions. Exons 8, 9, 13, and 17 of <it>c-KIT </it>and exons 12, 14, and 18 of <it>PDGFRA </it>had no abnormalities detected by electrophoresis and sequencing did not reveal any mutations, other than synonymous single nucleotide polymorphisms (SNPs) found in exon 11 of <it>c-KIT </it>and exons 12 and 14 of <it>PDGFRA</it>.</p> <p>Conclusions</p> <p>The deletion mutations detected in canine GISTs are similar to those previously found in the juxtamembrane domain of <it>c-KIT </it>in canine cutaneous mast cell tumors in our laboratory as well as to those reported in human GISTs. Interestingly, none of the other <it>c-KIT </it>or <it>PDGFRA </it>exons showed any abnormalities in our cases. This finding underlines the critical importance of <it>c-KIT </it>in the pathophysiology of canine GISTs. The expression of KIT and the identification of these activating mutations in <it>c-KIT </it>implicate KIT in the pathogenesis of these tumors. Our results indicate that mutations in <it>c-KIT </it>may be of prognostic significance and that targeting KIT may be a rational approach to treatment of these malignant tumors. This study further demonstrates that spontaneously occurring canine GISTs share molecular features with human GISTs and are an appropriate model for human GISTs.</p

A Novel Gene Signature for Molecular Diagnosis of Human Prostate Cancer by RT-qPCR

Prostate cancer (CaP) is one of the most relevant causes of cancer death in Western Countries. Although detection of CaP at early curable stage is highly desirable, actual screening methods present limitations and new molecular approaches are needed. Gene expression analysis increases our knowledge about the biology of CaP and may render novel molecular tools, but the identification of accurate biomarkers for reliable molecular diagnosis is a real challenge. We describe here the diagnostic power of a novel 8-genes signature: ornithine decarboxylase (ODC), ornithine decarboxylase antizyme (OAZ), adenosylmethionine decarboxylase (AdoMetDC), spermidine/spermine N(1)-acetyltransferase (SSAT), histone H3 (H3), growth arrest specific gene (GAS1), glyceraldehyde 3-phosphate dehydrogenase (GAPDH) and Clusterin (CLU) in tumour detection/classification of human CaP. METHODOLOGY/PRINCIPAL FINDINGS: The 8-gene signature was detected by retrotranscription real-time quantitative PCR (RT-qPCR) in frozen prostate surgical specimens obtained from 41 patients diagnosed with CaP and recommended to undergo radical prostatectomy (RP). No therapy was given to patients at any time before RP. The bio-bank used for the study consisted of 66 specimens: 44 were benign-CaP paired from the same patient. Thirty-five were classified as benign and 31 as CaP after final pathological examination. Only molecular data were used for classification of specimens. The Nearest Neighbour (NN) classifier was used in order to discriminate CaP from benign tissue. Validation of final results was obtained with 10-fold cross-validation procedure. CaP versus benign specimens were discriminated with (80+/-5)% accuracy, (81+/-6)% sensitivity and (78+/-7)% specificity. The method also correctly classified 71% of patients with Gleason score&lt;7 versus &gt; or =7, an important predictor of final outcome. CONCLUSIONS/SIGNIFICANCE: The method showed high sensitivity in a collection of specimens in which a significant portion of the total (13/31, equal to 42%) was considered CaP on the basis of having less than 15% of cancer cells. This result supports the notion of the "cancer field effect", in which transformed cells extend beyond morphologically evident tumour. The molecular diagnosis method here described is objective and less subjected to human error. Although further confirmations are needed, this method poses the potential to enhance conventional diagnosis