One electron less or one proton more: how do they differ?

From the NIST website and the literature, we have collected the Ionisation Energies (IE) of 3,052 and the Proton Affinities (PA) of 1,670 compounds. For 614 of these, both the IE and PA are known; this enables a study of the relationships between these quantities for a wide variety of molecules. From th

Aspects of the Noisy Burgers Equation

The noisy Burgers equation describing for example the growth of an interface subject to noise is one of the simplest model governing an intrinsically nonequilibrium problem. In one dimension this equation is analyzed by means of the Martin-Siggia-Rose technique. In a canonical formulation the morphology and scaling behavior are accessed by a principle of least action in the weak noise limit. The growth morphology is characterized by a dilute gas of nonlinear soliton modes with gapless dispersion law with exponent z=3/2 and a superposed gas of diffusive modes with a gap. The scaling exponents and a heuristic expression for the scaling function follow from a spectral representation.Comment: 23 pages,LAMUPHYS LaTeX-file (Springer), 13 figures, and 1 table, to appear in the Proceedings of the XI Max Born Symposium on "Anomalous Diffusion: From Basics to Applications", May 20-24, 1998, Ladek Zdroj, Polan

Proteomic Analysis of Human Osteoblastic Cells: Relevant Proteins and Functional Categories for Differentiation

Abstract Osteoblasts are the bone forming cells, capable of secreting an extracellular matrix with mineralization potential. The exact mechanism by which osteoblasts differentiate and form a mineralized extracellular matrix is presently not fully understood. To increase our knowledge about this process, we conducted proteomics analysis in human immortalized preosteoblasts (SV-HFO) able to differentiate and mineralize. We identified 381 proteins expressed during the time course of osteoblast differentiation. Gene ontology analysis revealed an overrepresentation of protein categories established as important players for osteoblast differentiation, bone formation, and mineralization such as pyrophosphatases. Proteins involved in antigen presentation, energy metabolism and cytoskeleton rearrangement constitute other overrepresented processes, whose function, albeit interesting, is not fully understood in the context of osteoblast differentiation and bone formation. Correlation analysis, based on quantitative data, revealed a biphasic osteoblast differentiation, encompassing a premineralization and a mineralization period. Identified differentially expressed proteins between mineralized and nonmineralized cells include cytoskeleton (e.g., CCT2, PLEC1, and FLNA) and extracellular matrix constituents (FN1, ANXA2, and LGALS1) among others. FT-ICR-MS data obtained for FN1, ANXA2, and LMNA shows a specific regulation of these proteins during the different phases of osteoblast differentiation. Taken together, this study increases our understanding of the proteomics changes that accompany osteoblast differentiation and may permit the discovery of novel modulators of bone formation

Large negative velocity gradients in Burgers turbulence

We consider 1D Burgers equation driven by large-scale white-in-time random force. The tails of the velocity gradients probability distribution function (PDF) are analyzed by saddle-point approximation in the path integral describing the velocity statistics. The structure of the saddle-point (instanton), that is velocity field configuration realizing the maximum of probability, is studied numerically in details. The numerical results allow us to find analytical solution for the long-time part of the instanton. Its careful analysis confirms the result of [Phys. Rev. Lett. 78 (8) 1452 (1997) [chao-dyn/9609005]] based on short-time estimations that the left tail of PDF has the form ln P(u_x) \propto -|u_x|^(3/2).Comment: 10 pages, RevTeX, 10 figure

Are specific testing protocols required for organic onion varieties? Analysis of onion variety testing under conventional and organic growing conditions

Organic growers need information on variety performance under their growing conditions. A 4-year onion variety research project was carried out to investigate whether setting up a variety testing system combining conventional and organic variety trials is feasible and efficient rather than organizing separate variety trials under the two management systems. During 4 years commercial onion cultivars were tested at a certified organic and a non-organic location. Both systems were managed without chemical pest, disease and sprouting control, but differed in fertility management (organic manure in autumn versus synthetic fertilizer), soil cultivation and weed management (mechanical weeding versus application of herbicide). Management system significantly affected plant density, thickness of neck, and proportion of small and large bulbs. Variety × management system interactions were significant for bulb uniformity, earliness, proportion of large bulbs, dormancy and relative storage success but did not change the ranking of the varieties. We conclude that organic growers can profit from a more conscious variety choice when conventionally fertilised trials would refrain from using pesticides, fungicides, herbicides and sprout inhibitors. However, this would require an adaptation of the management protocol in such a way that trials might no longer represent conditions of conventional farmers. Furthermore, assessments of leaf erectness, disease resistance to downy mildew and leaf blight should be included in the protocols for organic use. We advocate better communication between breeders and growers on specific variety characteristics contributing to improving yield stability under low-input, organic growing condition

Metabolic changes related to the IDH1 mutation in gliomas preserve TCA-cycle activity: An investigation at the protein level

The discovery of the IDH1 R132H (IDH1 mut) mutation in low-grade glioma and the associated change in function of the IDH1 enzyme has increased the interest in glioma metabolism. In an earlier study, we found that changes in expression of genes involved in the aerobic glycolysis and the TCA cycle are associated with IDH1 mut. Here, we apply proteomics to FFPE samples of diffuse gliomas with or without IDH1 mutations, to map changes in protein levels associated with this mutation. We observed significant changes in the enz

Canonical phase space approach to the noisy Burgers equation: Probability distributions

We present a canonical phase space approach to stochastic systems described by Langevin equations driven by white noise. Mapping the associated Fokker-Planck equation to a Hamilton-Jacobi equation in the nonperturbative weak noise limit we invoke a {\em principle of least action} for the determination of the probability distributions. We apply the scheme to the noisy Burgers and KPZ equations and discuss the time-dependent and stationary probability distributions. In one dimension we derive the long-time skew distribution approaching the symmetric stationary Gaussian distribution. In the short-time region we discuss heuristically the nonlinear soliton contributions and derive an expression for the distribution in accordance with the directed polymer-replica and asymmetric exclusion model results. We also comment on the distribution in higher dimensions.Comment: 18 pages Revtex file, including 8 eps-figures, submitted to Phys. Rev.

Down-Regulation of Collagen Hydroxylation in Colorectal Liver Metastasis

Collagen is significantly upregulated in colorectal liver metastasis (CRLM) compared to liver tissue. Expression levels of specific collagen types in CRLM resemble those in colorectal cancer (CRC) and colon tissue. We investigated whether the collagen hydroxylation pattern from the primary tumor also migrates with the metastatic tumor. The degree of collagen alpha-1(I) hydroxylation in colon, CRC, liver, and CRLM tissue of the same individuals (n = 14) was studied with mass spectrometry. The degree of hydroxylation was investigated in 36 collagen alpha-1(I) peptides, covering 54% of the triple helical region. The degree of hydroxylation in liver tissue was similar to that in colon tissue. The overall degree of hydroxylation was significantly lower (9 ± 14%) in CRC tissue and also significantly lower (12 ± 22%) in CRLM tissue compared to colon. Furthermore, eleven peptides with a specific number of hydroxylations are significantly different between CRLM and liver tissue; these peptides could be candidates for the detection of CRLM. For one of these eleven peptides, a matching naturally occurring peptide in urine has been identified as being significantly different between patients suffering from CRLM and healthy controls. The hydroxylation pattern in CRLM resembles partly the pattern in liver, primary colorectal cancer and colon

Small Hydrophobic Protein of Human Metapneumovirus Does Not Affect Virus Replication and Host Gene Expression In Vitro

Human metapneumovirus (HMPV) encodes a small hydrophobic (SH) protein of unknown function. HMPV from which the SH open reading frame was deleted (HMPVΔSH) was viable and displayed similar replication kinetics, cytopathic effect and plaque size compared with wild type HMPV in several cell-lines. In addition, no differences were observed in infection efficiency or cell-to-cell spreading in human primary bronchial epithelial cells (HPBEC) cultured at an air-liquid interphase. Host gene expression was analyzed in A549 cells infected with HMPV or HMPVΔSH using microarrays and mass spectrometry (MS) based techniques at multiple time points post infection. Only minor differences were observed in mRNA or protein expression levels. A possible function of HMPV SH as apoptosis blocker, as proposed for several members of the family Paramyxoviridae, was rejected based on this analysis. So far, a clear phenotype of HMPV SH deletion mutants in vitro at the virus and host levels is absent

Interstellar MHD Turbulence and Star Formation

This chapter reviews the nature of turbulence in the Galactic interstellar medium (ISM) and its connections to the star formation (SF) process. The ISM is turbulent, magnetized, self-gravitating, and is subject to heating and cooling processes that control its thermodynamic behavior. The turbulence in the warm and hot ionized components of the ISM appears to be trans- or subsonic, and thus to behave nearly incompressibly. However, the neutral warm and cold components are highly compressible, as a consequence of both thermal instability in the atomic gas and of moderately-to-strongly supersonic motions in the roughly isothermal cold atomic and molecular components. Within this context, we discuss: i) the production and statistical distribution of turbulent density fluctuations in both isothermal and polytropic media; ii) the nature of the clumps produced by thermal instability, noting that, contrary to classical ideas, they in general accrete mass from their environment; iii) the density-magnetic field correlation (or lack thereof) in turbulent density fluctuations, as a consequence of the superposition of the different wave modes in the turbulent flow; iv) the evolution of the mass-to-magnetic flux ratio (MFR) in density fluctuations as they are built up by dynamic compressions; v) the formation of cold, dense clouds aided by thermal instability; vi) the expectation that star-forming molecular clouds are likely to be undergoing global gravitational contraction, rather than being near equilibrium, and vii) the regulation of the star formation rate (SFR) in such gravitationally contracting clouds by stellar feedback which, rather than keeping the clouds from collapsing, evaporates and diperses them while they collapse.Comment: 43 pages. Invited chapter for the book "Magnetic Fields in Diffuse Media", edited by Elisabete de Gouveia dal Pino and Alex Lazarian. Revised as per referee's recommendation