The pgip family in soybean and three other legume species: evidence for a birth-and-death model of evolution

Polygalacturonase-inhibiting proteins (PGIPs) are leucine-rich repeat (LRR) plant cell wall glycoproteins involved in plant immunity. They are typically encoded by gene families with a small number of gene copies whose evolutionary origin has been poorly investigated. Here we report the complete characterization of the full complement of the pgip family in soybean (Glycine max [L.] Merr.) and the characterization of the genomic region surrounding the pgip family in four legume species. Results: BAC clone and genome sequence analyses showed that the soybean genome contains two pgip loci. Each locus is composed of three clustered genes that are induced following infection with the fungal pathogen Sclerotinia sclerotiorum (Lib.) de Bary, and remnant sequences of pgip genes. The analyzed homeologous soybean genomic regions (about 126 Kb) that include the pgip loci are strongly conserved and this conservation extends also to the genomes of the legume species Phaseolus vulgaris L., Medicago truncatula Gaertn. and Cicer arietinum L., each containing a single pgip locus. Maximum likelihood-based gene trees suggest that the genes within the pgip clusters have independently undergone tandem duplication in each species. Conclusions: The paleopolyploid soybean genome contains two pgip loci comprised in large and highly conserved duplicated regions, which are also conserved in bean, M. truncatula and C. arietinum. The genomic features of these legume pgip families suggest that the forces driving the evolution of pgip genes follow the birth-and-death model, similar to that proposed for the evolution of resistance (R) genes of NBS-LRR-type

Molecular vibration in cold collision theory

Cold collisions of ground state oxygen molecules with Helium have been investigated in a wide range of cold collision energies (from 1 $\mu$K up to 10 K) treating the oxygen molecule first as a rigid rotor and then introducing the vibrational degree of freedom. The comparison between the two models shows that at low energies the rigid rotor approximation is very accurate and able to describe all the dynamical features of the system. The comparison between the two models has also been extended to cases where the interaction potential He - O$_2$ is made artificially stronger. In this case vibration can perturb rate constants, but fine-tuning the rigid rotor potential can alleviate the discrepancies between the two models.Comment: 11 pages, 3 figure

Modelo de rehabilitación ambiental para edificios terciarios: el caso del palacio de congresos Europa de Vitoria-Gasteiz

Este artículo presenta el desarrollo y resultados de la primera fase del asesoramiento ambiental que forma parte del proceso de rehabilitación y ampliación del Palacio de Congresos Europa (PEV-G) del Ayuntamiento de Vitoria-Gasteiz, en el marco de las actuaciones que esta ciudad ha decidido emprender como European Green Capital, a partir de haber obtenido este reconocimiento en 2012. Es un desarrollo de Green Building Council España (GBCe) en colaboración con Societat Orgànica (SO) que propone una metodología y unas acciones para abordar un proceso continuo de mejora ambiental para que el edificio, sus actividades y los actores directamente relacionados puedan alcanzar los máximos niveles posibles de sostenibilidad ambiental, atendiendo también a las dimensiones económica y social. A través de diferentes modelos se ha estudiado el edificio existente, así como las hipótesis de ampliación y rehabilitación determinadas por el ayuntamiento en su anteproyecto, empleando la metodología del análisis de ciclo de vida simplificado centrada en los vectores ambientales de energía, agua, materiales y residuos. Se han determinado diferentes opciones de mejora basadas en aspectos pasivos, activos y de gestión del edificio que han permitido establecer los objetivos ambientales a los cuales debe responder el proyecto, rehabilitación, ampliación y uso del PEV-G. Por último, se han redactado los requerimientos que forman parte de los pliegos de licitación del proceso que va del proyecto al edificio acabado, así como el protocolo ambiental a aplicar en las fases aun no ejecutadas. Los trabajos realizados incluyen el desarrollo inicial de una nueva herramienta de certificación de la calidad ambiental de los edificios Verde RH EQ Rehabilitación de Equipamientos, que se suma a las existentes. De la visión, objetivos, metodología y acciones de reducción de impactos ambientales aplicables al PEV-G se ha obtenido un protocolo de actuación válido para ser aplicado en otros equipamientos de Vitoria-Gasteiz, el País Vasco y el resto de España, a ser rehabilitados en el futuro próximo

Platelet proteome and clopidogrel response in patients with stable angina undergoing percutaneous coronary intervention

Objectives: We analyzed the platelet proteome of circulating platelets during the onset of clopidogrel therapy in patients with stable angina underwent percutaneous coronary intervention in order to investigate the mechanisms that control platelet reactivity and clopidogrel response in this context. Design & methods: Twenty patients were enrolled in this study. Blood samples were collected before coronary angiography (T0), 12 h after 600 mg of clopidogrel (T1) and 24 h after percutaneous coronary intervention (PCI) (T2). Platelet reactivity, Clopidogrel response and proteomic analysis were examined. Results: Clopidogrel loading dose produced a significant inhibition in all markers of platelet activation in both flow cytometry and aggregation tests. Among the proteins found differentially expressed, eighteen were identified by MS/MS analysis and they resulted involved in the cytoskeleton rearrangement (profilin-1, calpain, α-soluble NSF attachment protein, thrombospondin), in the energetic metabolism (ubiquitin-like modifier-activating enzyme 1, protein-L-isoaspartate-(D-aspartate) O-methyltransferase and nucleoside diphosphate kinase B) and in the oxidative stress (heat shock 70 kDa protein 5 and anti-stress induced phosphoprotein 1. Conclusions: The present study provides novel information on platelet proteome changes associated with platelet activation and clopidogrel response. This investigation supports the development of further proteomic studies for the identification of novel platelet biomarkers

Successful switch to tenofovir after suboptimal response to entecavir in an immunocompromised patient with chronic hepatitis B and without genotypic hepatitis B virus resistance

We report a case of an immunocompromised patient affected by chronic hepatitis B virus (HBV) with high basal HBV viremia (>8 log(10) IU/ml) who failed an entecavir regimen, despite the absence of primary or secondary drug resistance mutations. The patient achieved sustained virological success (serum HBV DNA <12 IU/ml) when tenofovir was added to the treatment. This case highlights the difficulty in choosing an optimal therapy in such specific conditions and supports the concept of tailoring therapy (including combination regimens) on the basis of the particular conditions of each individual patient

Polarization in the inner region of Pulsar Wind Nebulae

We present here the first effort to compute synthetic synchrotron polarization maps of Pulsar Wind Nebulae (PWNe). Our goal is to highlight how polarization can be used as an additional diagnostic tool for the flow structure in the inner regions of these nebulae. Recent numerical simulations suggest the presence of flow velocities ~0.5 c in the surroundings of the termination shock, where most of the high energy emission comes from. We construct polarization maps taking into account relativistic effects like Doppler boosting and position angle swing. The effect of different bulk velocities is clarified with the help of a toy-model consisting of a uniformly emitting torus. We also present a map based on recent numerical simulations of the entire nebula and compare it with presently available data. The comparison with upcoming high resolution observations could provide new insight into the inner structure of the nebula and put constraints on the geometrical properties of the magnetic field.Comment: Accepted for publication on A&A, 6 pages, 2 figure

New transcriptional-based insights into the pathogenesis of desmoplastic small round cell tumors (DSRCTs).

To gain new insights into desmoplastic small round cell tumors (DSRCTs) by means of gene expression profiling (GEP). Formalin-fixed, paraffin-embedded surgical specimens obtained from seven pretreated DSRCT patients were interrogated using GEP complemented by immunohistochemistry, a cancer stem cell array, and miRNA in situ hybridisation, including the combined chimera modules miRNA-200/ZEB1 and miRNA-34/SLUG. The chimera modules divided the cases into three classes that respectively recapitulated the traits of mesenchymal epithelial reverse transition (MErT), epithelial mesenchymal transition (EMT), and hybrid/partial EMT. This indicates a close correlation between the reprogramming governed by EMT regulators and DSRCT biology, which was further confirmed by miRNA-21 and is consistent with the broad morphological spectrum of DSRCTs. Starting from the miRNA-200/ZEB1 axis, we also found that DSRCTs carry a signature of immunological ignorance that is not responsive to PD--L1 blockade. Evidence that the up-regulation of miRNA-200 and E-cadherin, and quite a high level of miRNA-21 expression segregate with the MErT supports the idea that, in addition to the hybrid/partial state, MErT is also enriched in stemness: the androgen-positive cases, whose stemness traits were confirmed by stem cell arrays, all fell into these two classes. Our findings also confirmed that tumoral cell PDGFRA expression correlates with desmoplasia, and demonstrated the co-expression of PDGFRA and ISLR/Meflin, another marker of pluripotency. Despite the limited number of cases, these findings provide unexpectedly relevant information concerning the pathogenesis of DSRCTs, and prove the validity of miRNA-based chimera circuit modelling in the clinico-pathological setting