The Use of Natural Genetic Diversity in the Understanding of Metabolic Organization and Regulation

The study of metabolic regulation has traditionally focused on analysis of specific enzymes, emphasizing kinetic properties, and the influence of protein interactions and post-translational modifications. More recently, reverse genetic approaches permit researchers to directly determine the effects of a deficiency or a surplus of a given enzyme on the biochemistry and physiology of a plant. Furthermore, in many model species, gene expression atlases that give important spatial information concerning the quantitative expression level of metabolism-associated genes are being produced. In parallel, “top-down” approaches to understand metabolic regulation have recently been instigated whereby broad genetic diversity is screened for metabolic traits and the genetic basis of this diversity is defined thereafter. In this article we will review recent examples of this latter approach both in the model species Arabidopsis thaliana and the crop species tomato (Solanum lycopersicum). In addition to highlighting examples in which this genetic diversity approach has proven promising, we will discuss the challenges associated with this approach and provide a perspective for its future utility

Iron substitution in Na4VMn(PO4)3 as a strategy for improving the electrochemical performance of sodium-ion batteries

Six NASICON type samples with Na4-xVFexMn1-x(PO4)3 (0 ≤ x ≤ 1) stoichiometry are examined as positive electrodes for sodium-ion batteries. The structural, morphological, and chemical state of elements in raw samples is unveiled by XRD diffraction, electron microscopy, and Raman and XPS spectroscopies. The effect of the dual Fe/Mn substitution is examined by electrochemical tests using both voltammetric and galvanostatic methods. The results reveal the beneficial effect of the iron substitution, justified by an improvement of the kinetic response, and supported by the calculation of the apparent diffusion coefficients and internal cell resistance

Domain II of calmodulin is involved in activation of calcineurin

AbstractA family of mutant proteins related to calmodulin (CaM) has been produced using cDNA constructs in bacterial expression vectors. The new proteins contain amino acid substitutions in Ca2+-binding domains I, II, both I and II, or both II and IV. The calmodulin-like proteins have been characterized with respect to mobility on SDS-polyacrylamide gels, Ca2+-dependent enhancement of tyrosine fluorescence, and abilities to activate the CaM-dependent phosphatase calcineurin. These studies suggest that an intact Ca2+-binding domain II is minimally required for full activation of calcineurin

Formation of 4-hydroxynonenal and further aldehydic mediators of inflammation during bromotrichlorornethane treatment of rat liver cells

Bromotrichloromethane (CBrCl3) treatment is a model for studies on molecular mechanisms of haloalkane toxicity with some advantages compared with CCl4 treatment. The formation of 4-hydroxynonenal and similar aldehydic products of lipid peroxidation, which play a role as mediators of inflammatory processes, was clearly demonstrated in rat hepatocytes treated with CBrCl3. It may be assumed that haloalkane toxicity is connected with the biological effects of those inflammation mediatory aldehydic compounds

An update on the Hirsch conjecture

The Hirsch conjecture was posed in 1957 in a letter from Warren M. Hirsch to George Dantzig. It states that the graph of a d-dimensional polytope with n facets cannot have diameter greater than n - d. Despite being one of the most fundamental, basic and old problems in polytope theory, what we know is quite scarce. Most notably, no polynomial upper bound is known for the diameters that are conjectured to be linear. In contrast, very few polytopes are known where the bound $n-d$ is attained. This paper collects known results and remarks both on the positive and on the negative side of the conjecture. Some proofs are included, but only those that we hope are accessible to a general mathematical audience without introducing too many technicalities.Comment: 28 pages, 6 figures. Many proofs have been taken out from version 2 and put into the appendix arXiv:0912.423

Construction and Analysis of Projected Deformed Products

We introduce a deformed product construction for simple polytopes in terms of lower-triangular block matrix representations. We further show how Gale duality can be employed for the construction and for the analysis of deformed products such that specified faces (e.g. all the k-faces) are ``strictly preserved'' under projection. Thus, starting from an arbitrary neighborly simplicial (d-2)-polytope Q on n-1 vertices we construct a deformed n-cube, whose projection to the last dcoordinates yields a neighborly cubical d-polytope. As an extension of thecubical case, we construct matrix representations of deformed products of(even) polygons (DPPs), which have a projection to d-space that retains the complete (\lfloor \tfrac{d}{2} \rfloor - 1)-skeleton. In both cases the combinatorial structure of the images under projection is completely determined by the neighborly polytope Q: Our analysis provides explicit combinatorial descriptions. This yields a multitude of combinatorially different neighborly cubical polytopes and DPPs. As a special case, we obtain simplified descriptions of the neighborly cubical polytopes of Joswig & Ziegler (2000) as well as of the ``projected deformed products of polygons'' that were announced by Ziegler (2004), a family of 4-polytopes whose ``fatness'' gets arbitrarily close to 9.Comment: 20 pages, 5 figure

On quantum estimation, quantum cloning and finite quantum de Finetti theorems

This paper presents a series of results on the interplay between quantum estimation, cloning and finite de Finetti theorems. First, we consider the measure-and-prepare channel that uses optimal estimation to convert M copies into k approximate copies of an unknown pure state and we show that this channel is equal to a random loss of all but s particles followed by cloning from s to k copies. When the number k of output copies is large with respect to the number M of input copies the measure-and-prepare channel converges in diamond norm to the optimal universal cloning. In the opposite case, when M is large compared to k, the estimation becomes almost perfect and the measure-and-prepare channel converges in diamond norm to the partial trace over all but k systems. This result is then used to derive de Finetti-type results for quantum states and for symmetric broadcast channels, that is, channels that distribute quantum information to many receivers in a permutationally invariant fashion. Applications of the finite de Finetti theorem for symmetric broadcast channels include the derivation of diamond-norm bounds on the asymptotic convergence of quantum cloning to state estimation and the derivation of bounds on the amount of quantum information that can be jointly decoded by a group of k receivers at the output of a symmetric broadcast channel.Comment: 19 pages, no figures, a new result added, published version to appear in Proceedings of TQC 201