The effects of different warm stratification periods on the seed germination of some Rosa taxa

In this study, the effects of different warm stratification periods on the seed germination of some Rosa species such as Rosa heckellana ssp. vanheurckiana, Rosa canina, Rosa pulverelanta and Rosa dumalis naturally grown in the Van region were investigated. In 2007, seeds of these species were kept at 25°C warm stratification for 10, 11 and 12 weeks, and then transferred to 5°C for cold stratification till the initiation of germination. Germination response to treatments of R. heckellana ssp. vanheurckiana seeds was different compared to the other species. The seeds of R. heckellana ssp. vanheurckiana germinated in a short time (when they kept in warm stratification followed by cold stratification between 1 - 3 weeks). The seeds of the other species required 5 months of cold stratification after warm stratification to overcome seed dormancy. The overall germination percentage were 18.80% in R. canina, 13.80% in R. pulverelanta and 13.53% in R. dumalis at 25°C of warm stratification followed by 5°C cold stratification. We determined that for these three taxa, the most appropriate method of stratification was 11 week warm stratification followed by cold stratification

The Use of Artificial Neural Network for Prediction of Dissolution Kinetics

Colemanite is a preferred boron mineral in industry, such as boric acid production, fabrication of heat resistant glass, and cleaning agents. Dissolution of the mineral is one of the most important processes for these industries. In this study, dissolution of colemanite was examined in water saturated with carbon dioxide solutions. Also, prediction of dissolution rate was determined using artificial neural networks (ANNs) which are based on the multilayered perceptron. Reaction temperature, total pressure, stirring speed, solid/liquid ratio, particle size, and reaction time were selected as input parameters to predict the dissolution rate. Experimental dataset was used to train multilayer perceptron (MLP) networks to allow for prediction of dissolution kinetics. Developing ANNs has provided highly accurate predictions in comparison with an obtained mathematical model used through regression method. We conclude that ANNs may be a preferred alternative approach instead of conventional statistical methods for prediction of boron minerals

New Physics at the LHC. A Les Houches Report: Physics at TeV Colliders 2009 - New Physics Working Group

We present a collection of signatures for physics beyond the standard model that need to be explored at the LHC. First, are presented various tools developed to measure new particle masses in scenarios where all decays include an unobservable particle. Second, various aspects of supersymmetric models are discussed. Third, some signatures of models of strong electroweak symmetry are discussed. In the fourth part, a special attention is devoted to high mass resonances, as the ones appearing in models with warped extra dimensions. Finally, prospects for models with a hidden sector/valley are presented. Our report, which includes brief experimental and theoretical reviews as well as original results, summarizes the activities of the "New Physics" working group for the "Physics at TeV Colliders" workshop (Les Houches, France, 8-26 June, 2009).Comment: 189 page

IRE1β negatively regulates IRE1α signaling in response to endoplasmic reticulum stress

IRE1β is an ER stress sensor uniquely expressed in epithelial cells lining mucosal surfaces. Here, we show that intestinal epithelial cells expressing IRE1β have an attenuated unfolded protein response to ER stress. When modeled in HEK293 cells and with purified protein, IRE1β diminishes expression and inhibits signaling by the closely related stress sensor IRE1α. IRE1β can assemble with and inhibit IRE1α to suppress stress-induced XBP1 splicing, a key mediator of the unfolded protein response. In comparison to IRE1α, IRE1β has relatively weak XBP1 splicing activity, largely explained by a nonconserved amino acid in the kinase domain active site that impairs its phosphorylation and restricts oligomerization. This enables IRE1β to act as a dominant-negative suppressor of IRE1α and affect how barrier epithelial cells manage the response to stress at the host–environment interface

Force-dependent focal adhesion assembly and disassembly: A computational study

Cells interact with the extracellular matrix (ECM) via cell–ECM adhesions. These physical interactions are transduced into biochemical signals inside the cell which influence cell behaviour. Although cell–ECM interactions have been studied extensively, it is not completely understood how immature (nascent) adhesions develop into mature (focal) adhesions and how mechanical forces influence this process. Given the small size, dynamic nature and short lifetimes of nascent adhesions, studying them using conventional microscopic and experimental techniques is challenging. Computational modelling provides a valuable resource for simulating and exploring various “what if?” scenarios in silico and identifying key molecular components and mechanisms for further investigation. Here, we present a simplified mechano-chemical model based on ordinary differential equations with three major proteins involved in adhesions: integrins, talin and vinculin. Additionally, we incorporate a hypothetical signal molecule that influences adhesion (dis)assembly rates. We find that assembly and disassembly rates need to vary dynamically to limit maturation of nascent adhesions. The model predicts biphasic variation of actin retrograde velocity and maturation fraction with substrate stiffness, with maturation fractions between 18–35%, optimal stiffness of ∼1 pN/nm, and a mechanosensitive range of 1-100 pN/nm, all corresponding to key experimental findings. Sensitivity analyses show robustness of outcomes to small changes in parameter values, allowing model tuning to reflect specific cell types and signaling cascades. The model proposes that signal-dependent disassembly rate variations play an underappreciated role in maturation fraction regulation, which should be investigated further. We also provide predictions on the changes in traction force generation under increased/decreased vinculin concentrations, complementing previous vinculin overexpression/knockout experiments in different cell types. In summary, this work proposes a model framework to robustly simulate the mechanochemical processes underlying adhesion maturation and maintenance, thereby enhancing our fundamental knowledge of cell–ECM interactions

Mapping interactions with the chaperone network reveals factors that protect against tau aggregation.

A network of molecular chaperones is known to bind proteins ('clients') and balance their folding, function and turnover. However, it is often unclear which chaperones are critical for selective recognition of individual clients. It is also not clear why these key chaperones might fail in protein-aggregation diseases. Here, we utilized human microtubule-associated protein tau (MAPT or tau) as a model client to survey interactions between ~30 purified chaperones and ~20 disease-associated tau variants (~600 combinations). From this large-scale analysis, we identified human DnaJA2 as an unexpected, but potent, inhibitor of tau aggregation. DnaJA2 levels were correlated with tau pathology in human brains, supporting the idea that it is an important regulator of tau homeostasis. Of note, we found that some disease-associated tau variants were relatively immune to interactions with chaperones, suggesting a model in which avoiding physical recognition by chaperone networks may contribute to disease

New Physics at the LHC. A Les Houches Report: Physics at TeV Colliders 2009 - New Physics Working Group

We present a collection of signatures for physics beyond the standard model that need to be explored at the LHC. First, are presented various tools developed to measure new particle masses in scenarios where all decays include an unobservable particle. Second, various aspects of supersymmetric models are discussed. Third, some signatures of models of strong electroweak symmetry are discussed. In the fourth part, a special attention is devoted to high mass resonances, as the ones appearing in models with warped extra dimensions. Finally, prospects for models with a hidden sector/valley are presented. Our report, which includes brief experimental and theoretical reviews as well as original results, summarizes the activities of the "New Physics" working group for the "Physics at TeV Colliders" workshop (Les Houches, France, 8-26 June, 2009)

Heterogeneously catalyzed lignin depolymerization

Biomass offers a unique resource for the sustainable production of bio-derived chemical and fuels as drop-in replacements for the current fossil fuel products. Lignin represents a major component of lignocellulosic biomass, but is particularly recalcitrant for valorization by existing chemical technologies due to its complex cross-linking polymeric network. Here, we highlight a range of catalytic approaches to lignin depolymerisation for the production of aromatic bio-oil and monomeric oxygenates

Collider aspects of flavour physics at high Q

This review presents flavour related issues in the production and decays of heavy states at LHC, both from the experimental side and from the theoretical side. We review top quark physics and discuss flavour aspects of several extensions of the Standard Model, such as supersymmetry, little Higgs model or models with extra dimensions. This includes discovery aspects as well as measurement of several properties of these heavy states. We also present public available computational tools related to this topic.Comment: Report of Working Group 1 of the CERN Workshop ``Flavour in the era of the LHC'', Geneva, Switzerland, November 2005 -- March 200