Draft Genome Sequence of anEnterobacterSpecies Associated with Illnesses and Powdered Infant Formula

This is the first report of the draft genome sequence of an Enterobacter species that may have been transmitted from powdered infant formula (PIF) to infants, resulting in illness. Enterobacter spp. are currently permitted in PIF, but the transmission of this strain indicates that the microbiological criteria for PIF may need revision

Assessment of the direct and indirect effects of MPP+ and dopamine on the human proteasome: implications for Parkinson's disease aetiology

Mitochondrial impairment, glutathione depletion and oxidative stress have been implicated in the pathogenesis of Parkinson’s disease (PD), linked recently to proteasomal dysfunction. Our study analysed how these factors influence the various activities of the proteasome in human SH-SY5Y neuroblastoma cells treated with the PD mimetics MPP+ (a complex 1 inhibitor) or dopamine. Treatment with these toxins led to dose- and time-dependent reductions in ATP and glutathione and also chymotrypsin-like and post-acidic like activities; trypsin-like activity was unaffected. Antioxidants blocked the effects of dopamine, but not MPP+, suggesting that oxidative stress was more important in the dopamine-mediated effects. With MPP+, ATP depletion was a prerequisite for loss of proteasomal activity. Thus in a dopaminergic neuron with complex 1 dysfunction both oxidative stress and ATP depletion will contribute independently to loss of proteasomal function. We show for the first time that addition of MPP+ or dopamine to purified samples of the human 20S proteasome also reduced proteasomal activities; with dopamine being most damaging. As with toxin-treated cells, chymotrypsin-like activity was most sensitive and trypsin-like activity the least sensitive. The observed differential sensitivity of the various proteasomal activities to PD mimetics is novel and its significance needs further study in human cells

Integration of disease-specific single nucleotide polymorphisms, expression quantitative trait loci and coexpression networks reveal novel candidate genes for type 2 diabetes.

Aims/hypothesisWhile genome-wide association studies (GWASs) have been successful in identifying novel variants associated with various diseases, it has been much more difficult to determine the biological mechanisms underlying these associations. Expression quantitative trait loci (eQTL) provide another dimension to these data by associating single nucleotide polymorphisms (SNPs) with gene expression. We hypothesised that integrating SNPs known to be associated with type 2 diabetes with eQTLs and coexpression networks would enable the discovery of novel candidate genes for type 2 diabetes.MethodsWe selected 32 SNPs associated with type 2 diabetes in two or more independent GWASs. We used previously described eQTLs mapped from genotype and gene expression data collected from 1,008 morbidly obese patients to find genes with expression associated with these SNPs. We linked these genes to coexpression modules, and ranked the other genes in these modules using an inverse sum score.ResultsWe found 62 genes with expression associated with type 2 diabetes SNPs. We validated our method by linking highly ranked genes in the coexpression modules back to SNPs through a combined eQTL dataset. We showed that the eQTLs highlighted by this method are significantly enriched for association with type 2 diabetes in data from the Wellcome Trust Case Control Consortium (WTCCC, p = 0.026) and the Gene Environment Association Studies (GENEVA, p = 0.042), validating our approach. Many of the highly ranked genes are also involved in the regulation or metabolism of insulin, glucose or lipids.Conclusions/interpretationWe have devised a novel method, involving the integration of datasets of different modalities, to discover novel candidate genes for type 2 diabetes

Hilbert Series for Flavor Invariants of the Standard Model

The Hilbert series is computed for the lepton flavor invariants of the Standard Model with three generations including the right-handed neutrino sector needed to generate light neutrino masses via the see-saw mechanism. We also compute the Hilbert series of the quark flavor invariants for the case of four generations.Comment: 6 page

Symmetry of Quantum Torus with Crossed Product Algebra

In this paper, we study the symmetry of quantum torus with the concept of crossed product algebra. As a classical counterpart, we consider the orbifold of classical torus with complex structure and investigate the transformation property of classical theta function. An invariant function under the group action is constructed as a variant of the classical theta function. Then our main issue, the crossed product algebra representation of quantum torus with complex structure under the symplectic group is analyzed as a quantum version of orbifolding. We perform this analysis with Manin's so-called model II quantum theta function approach. The symplectic group Sp(2n,Z) satisfies the consistency condition of crossed product algebra representation. However, only a subgroup of Sp(2n,Z) satisfies the consistency condition for orbifolding of quantum torus.Comment: LaTeX 17pages, changes in section 3 on crossed product algebr

Morita Equivalence of Noncommutative Supertori

In this paper we study the extension of Morita equivalence of noncommutative tori to the supersymmetric case. The structure of the symmetry group yielding Morita equivalence appears to be intact but its parameter field becomes supersymmetrized having both body and soul parts. Our result is mainly in the two dimensional case in which noncommutative supertori have been constructed recently: The group $SO(2,2,V_{\Z}^0)$, where $V_{\Z}^0$ denotes Grassmann even number whose body part belongs to ${\Z}$, yields Morita equivalent noncommutative supertori in two dimensions.Comment: LaTeX 18 pages, the version appeared in JM

Estimation of subsurface porosities and thermal conductivities of polygonal tundra by coupled inversion of electrical resistivity, temperature, and moisture content data

Studies indicate greenhouse gas emissions following permafrost thaw will amplify current rates of atmospheric warming, a process referred to as the permafrost carbon feedback. However, large uncertainties exist regarding the timing and magnitude of the permafrost carbon feedback, in part due to uncertainties associated with subsurface permafrost parameterization and structure. Development of robust parameter estimation methods for permafrost-rich soils is becoming urgent under accelerated warming of the Arctic. Improved parameterization of the subsurface properties in land system models would lead to improved predictions and a reduction of modeling uncertainty. In this work we set the groundwork for future parameter estimation (PE) studies by developing and evaluating a joint PE algorithm that estimates soil porosities and thermal conductivities from time series of soil temperature and moisture measurements and discrete in-time electrical resistivity measurements. The algorithm utilizes the Model-Independent Parameter Estimation and Uncertainty Analysis toolbox and coupled hydrological-thermal-geophysical modeling. We test the PE algorithm against synthetic data, providing a proof of concept for the approach. We use specified subsurface porosities and thermal conductivities and coupled models to set up a synthetic state, perturb the parameters, and then verify that our PE method is able to recover the parameters and synthetic state. To evaluate the accuracy and robustness of the approach we perform multiple tests for a perturbed set of initial starting parameter combinations. In addition, we varied types and quantities of data to better understand the optimal dataset needed to improve the PE method. The results of the PE tests suggest that using multiple types of data improve the overall robustness of the method. Our numerical experiments indicate that special care needs to be taken during the field experiment setup so that (1) the vertical distance between adjacent measurement sensors allows the signal variability in space to be resolved and (2) the longer time interval between resistivity snapshots allows signal variability in time to be resolved

A phylogenetic analysis of Jurinea (Compositae) species from Turkey based on ITS sequence data

In this study, the taxa which belong to the Jurinea Cass. genus, grown naturally in Turkey and collected from different localities, are compared in terms of their internal transcribed spacer (ITS) regions of nuclear ribosomal DNA (nrDNA). The DNAs of the taxa were isolated by using a commercial kit (Nucleon Phytopure). Sequences were aligned with Clustal X. Phylogenetic relationships are assessed by sequence analysis, conducted with the DNASTAR software after the amplification of ITS regions with the universally recognized primers, named as 17SE and 26SE. In conclusion, morphologically similartaxa are also clustered together when a phylogenetic analysis is conducted based on molecular data. Jurinea species of the Anatolian peninsula are closely related with the topography of the region and certain level of molecular isolation of the species is evidenced

Electrochemical Oxidation of Phenol using a Flow-through Micro-porous Lead Dioxide/Lead Cell

The electrochemical oxidation of phenol to benzoquinone followed by the reduction to hydroquinone and catechol was demonstrated by constructing a three-dimensional porous micro-flow cell from lead dioxideand lead. The electrodes were made by using the principles of curing and formation of lead oxide material that are common in the construction of the electrodes used in lead-acid batteries. This resulted in highly porous electrodes that can allow the reactant solution to flow through them in series, without the risk of having the products being oxidized again at the anode that usually occurs in a simple undivided cell. In this study, a 50 mM solution of phenol in a 60 % acetonitrile and water mixture was used that contained 2 % sulphuric acid. The reactantsolution would flow through the anode porous material oxidizing the phenol to benzoquinone. The benzoquinone in solution would then flow through the cathode porous material and reduce to catechol and hydroquinone. The study showed that almost all of the phenol could be converted in one continuous flow process in using a relatively low cost electrochemical micro-flow cell that can be easily scaled up to accommodate larger volumes and concentrations by using electrode manufacturing principles used in the lead-acid battery industry.Keywords: Phenol, hydroquinone, catechol, lead dioxide, micro-flow cel