Investigative proteomics: identification of an unknown plant virus from infected plants using mass spectrometry

We describe the identification of a previously uncharacterized plant virus that is capable of infecting Nicotiana spp. and Arabidopsis thaliana. Protein extracts were first prepared from leaf tissue of uninfected tobacco plants, and the proteins were visualized with two-dimensional electrophoresis (2-DE). Matching gels were then run using protein extracts of a tobacco plant infected with tobacco mosaic virus (TMV). After visual comparison, the proteins spots that were differentially expressed in infected plant tissues were cut from the gels and analyzed by high performance liquid chromatography-tandem mass spectrometry (HPLC-MS/MS). Tandem mass spectrometry data of individual peptides was searched with SEQUEST. Using this approach we demonstrated a successful proof-of-concept experiment by identifying TMV proteins present in the total protein extract. The same procedure was then applied to tobacco plants infected with a laboratory viral isolate of unknown identity. Several of the differentially expressed protein spots were identified as proteins of potato virus X (PVX), thus successfully identifying the causative agent of the uncharacterized viral infection. We believe this demonstrates that HPLC-MS/MS can be used to successfully characterize unknown viruses in infected plants.     

Thermodynamic properties of hexacosane

The heat capacity of a purified sample of hexacosane, n-C₂₆H₅₄, has been measured from 13 to 358 K. The enthalpies of transition near 325.5 K and fusion at 329.25 K, and the purity of the sample have been determined; the accuracy of the results is influenced by the closeness in temperature, and overlap, of the crystal-to-crystal and crystal-to-liquid phase transitions. Thermodynamic properties have been calculated from the heat capacities and enthalpies.     

Shape resonances in slow electron scattering by aromatic molecules. I. Anthraquinone derivatives

A series of anthraquinone (C(14)O(2)H(8)) derivatives has been studied by means of electron capture negative ion mass spectrometry (ECNI-MS), photoelectron spectroscopy (PES), and AM1 quantum chemical calculations. Mean lifetimes of molecular negative ions M(-.) (MNI) have been measured. The mechanism of long-lived MNI formation in the epithermal energy region of incident electrons has been investigated. A simple model of a molecule (a spherical potential well with the repulsive centrifugal term) has been applied for the analysis of the energy dependence of cross sections at the first stage of the electron capture process. It has been shown that a temporary resonance of MNI at the energy approximately 0.5 eV corresponds to a shape resonance with lifetime 1-2.10(-13) s in the f-partial wave (l = 3) of the incident electron. The next resonant state of MNI at the energy approximately 1.7 eV has been associated with the electron excited Feshbach resonance (whose parent state is a triplet npi* transition). In all cases the initial electron state of the MNI relaxes into the ground state by means of a radiationless transition, and the final state of the MNI is a nuclear excited resonance with a lifetime measurable on the mass spectrometry timescale. Copyright 1999 John Wiley & Sons, Ltd.     

Steering population flow in coherently driven lossy quantum ladders

We present a detailed theory of a technique for the adiabatic control of the population flow through a preselected decaying excited level in a three-level ladder quantum system, as was experimentally demonstrated recently by Garcia-Fernandez et al. [Phys. Rev. Lett. 95, 043001 (2005)]. Specifically, we consider a three-state excitation chain of bound states, 1-2-3, of successively increasing excitation energy, in which probability loss via fluorescence occurs from states 2 and 3. We describe a laser excitation scheme that can, by adjustment of laser parameters, alter at will the relative fraction of population that, starting from state 1, is ultimately lost through states 2 and 3. We present analytical results for the conditions under which quasiadiabatic passage can take place.     

Modelling of extreme wave heights and periods through copulas

Optimal design of coastal or offshore structures requires the estimation of extreme quantiles of oceanographic data such as wave heights and wave periods. Since there are strong correlations between oceanographic variables, it is necessary to use multivariate models in order to capture its dependencies. To achieve this, an approach based on copulas is proposed and is compared to a model based on the physical behaviour of waves.