Evaluation of the use of consensus values in proficiency testing programmes

Proficiency testing (PT) is an essential tool used by laboratory accreditation bodies to assess the competency of laboratories. Because of limited resources of PT providers or for other reasons, the assigned reference value used in the calculation of z-score values has usually been derived from some sort of consensus value obtained by central tendency estimators such as the arithmetic mean or robust mean. However, if the assigned reference value deviates significantly from the ‘true value’ of the analyte in the test material, laboratories’ performance will be evaluated incorrectly. This paper evaluates the use of consensus values in proficiency testing programmes using the Monte Carlo simulation technique. The results indicated that the deviation of the assigned value from the true value could be as large as 40%, depending on the parameters of the proficiency testing programmes under investigation such as sample homogeneity, number of participant laboratories, concentration level, method precision and laboratory bias. To study how these parameters affect the degree of discrepancy between the consensus value and the true value, a fractional factorial design was also applied. The findings indicate that the number of participating laboratories and the distribution of laboratory bias were the prime two factors affecting the deviation of the consensus value from the true value.     

A comparison of crystalline- and graft polymer-based chemosensors

Herein, we report a highly sensitive luminescent thin film chemosensor constructed out of a small-molecule donor/acceptor system. Two types of films were compared: one using a small-molecule crystalline donor/acceptor pair and the other using a donor-graft polymer/small-molecule acceptor pair. The acceptor selected for this proof of concept responds to acid, causing its absorption and emission bands to red-shift, which increases spectral overlap with the donor. This increase in overlap greatly enhances energy transfer from the acceptor to the donor. Signal amplification was ascertained by measuring the ratio of acceptor fluorescence when the donor was excited versus direct excitation of the acceptor. Both types of films exhibited large amplification. For the polymeric system, the mechanism of energy migration was investigated by the use of steady-state fluorescence spectroscopy. The mechanism was determined to be dominated by an exciton-hopping process.     

Deuterium spin probes of side-chain dynamics in proteins. 2. Spectral density mapping and identification of nanosecond time-scale side-chain motions

In the previous paper in this issue we have demonstrated that it is possible to measure the five different relaxation rates of a deuteron in (13)CH(2)D methyl groups of (13)C-labeled, fractionally deuterated proteins. The extensive set of data acquired in these experiments provides an opportunity to investigate side-chain dynamics in proteins at a level of detail that heretofore was not possible. The data, acquired on the B1 domain of peptostreptococcal protein L, include 16 (9) relaxation measurements at 4 (2) different magnetic field strengths, 25 degrees C (5 degrees C). These data are shown to be self-consistent and are analyzed using a spectral density mapping procedure which allows extraction of values of the spectral density function at a number of frequencies with no assumptions about the underlying dynamics. Dynamics data from 31 of 35 methyls in the protein for which data could be obtained were well-fitted using the two-parameter Lipari-Szabo model (Lipari, G.; Szabo, A. J. Am. Chem. Soc. 1982, 104, 4546). The data from the remaining 4 methyls can be fitted using a three-parameter version of the Lipari-Szabo model that takes into account, in a simple manner, additional nanosecond time-scale local dynamics. This interpretation is supported by analysis of a molecular dynamics trajectory where spectral density profiles calculated for side-chain methyl sites reflect the influence of slower (nanosecond) time-scale motions involving jumps between rotameric wells. A discussion of the minimum number of relaxation measurements that are necessary to extract the full complement of dynamics information is presented along with an interpretation of the extracted dynamics parameters.     

Stereospecific NMR assignments of prochiral methyls, rotameric states and dynamics of valine residues in malate synthase G

Near complete stereospecific assignments of the prochiral methyl carbons of Leu and Val residues in malate synthase G, a 723 residue enzyme, are reported. Assignments were obtained on the basis of a 10% fractional (13)C-labeling strategy developed by Wüthrich and co-workers [Neri, D; Szyperski, T; Otting, G; Senn, H; Wüthrich, K. Biochemistry 1989, 28, 7510-7516] and, in the case of Val residues, supplemented with results from a series of new methyl-TROSY quantitative J experiments for measuring (3)J(C)(gamma)(N) and (3)J(C)(gamma)(C)' couplings. The measured (3)J couplings were also used to probe Val side chain dynamics. A strong correlation is observed between rotamer averaging established on the basis of the couplings and side chain millisecond time scale dynamics measured using methyl-TROSY based (1)H-(13)C multiple quantum relaxation dispersion experiments.     

The210Pb and137Cs profiles in sediment cores from Bay of Quinte,Lake Ontario

²¹⁰Pb,²²⁶Ra and¹³⁷Cs profiles have been measured for sediment cores from three locations in Bay of Quinte, Lake Ontario, Canada. Compaction of the sediment with depth of burial is taken into account in calculating recent sedimentation rates and age profiles at these locations from the excess²¹⁰Pb profiles. The rates are 1.803+0.592 cm·y^–1 (0.254±0.083 g·cm^–2·y^–1), 0.101±0.017 cm·y^–1 (0.036+0.006 g·cm^–2·y^–1), and 0.795±0.218 cm·y^–1 (0.076±0.021 g·cm^–2·y^–1). The corresponding fluxes of excess²¹⁰Pb to sediment/water interface are determined to be 1.652, 0.253, and 1.123 pCi·cm^–2·y^–1, respectively. The anomalies observed in the radionuclide concentration profiles are attributed to physical mixing. It is postulated that the significantly higher flux of²¹⁰Pb observed at one of the locations is due to inputs from Trent River which joins the Bay near this location.     

Tunable UV generation at 283 nm by frequency doubling and sum frequency mixing of two semiconductor lasers for the detection of Pb

High resolution atomic absorption measurements of lead at 283 nm in a vapor cell were performed by frequency doubling an 850 nm laser diode to obtain 425 nm light, followed by sum frequency generation of the harmonic radiation with a second 850 nm laser diode.     

Internalization and processing of the EGF receptor in the induction of DNA synthesis in cultured fibroblasts: the endocytic activation hypothesis.

The addition of EGF to cultured murine 3T3 cells produces a decrease in EGF binding activity with concomitant internalization and degradation of the initially bound EGF. When the EGF receptor on cultured 3T3 cells is affinity labeled with high specific activity 125I-EGF, and the fate of the affinity labeled EGF-receptor complex determined, the loss in binding activity was accounted for by receptor internalization and subsequent proteolytic processing of the EGF receptor molecules in the lysosomes. Studies of the effects of EGF concentration on EGF binding by cells, EGF-induced receptor internalization and EGF-induced stimulation of 3H-thymidine uptake into cellular DNA show that there is a direct correlation between EGF-induced receptor internalization and EGF-induced stimulation of DNA synthesis, but not between EGF binding and EGF-induced stimulation of DNA synthesis. This correlation is lost at high EGF concentrations, where stimulation of DNA synthesis is suboptimal. Optimal stimulation of DNA synthesis requires a minimum of 6 h of incubation of EGF with cells, and the suboptimal stimulation of DNA synthesis at high EGF concentration is intensified when the period of incubation of EGF with cells is less than 6 h. These data are consistent with a model of hormone signal transmission by Endocytic Activation, wherein the activation of EGF-induced processes requires constant EGF-induced internalization of receptor for a requisite 6-8 h period as an obligatory step in production of "second messenger" in the action of this hormone.     

CFD simulation of aggregation and breakage processes in laminar Taylor-Couette flow

An experimental and computational investigation of the effects of local fluid shear rate on the aggregation and breakage of approximately 10 microm latex spheres suspended in an aqueous solution undergoing laminar Taylor-Couette flow was carried out according to the following program. First, computational fluid dynamics (CFD) simulations were performed and the flow field predictions were validated with data from particle image velocimetry experiments. Subsequently, the quadrature method of moments (QMOM) was implemented into the CFD code to obtain predictions for mean particle size that account for the effects of local shear rate on the aggregation and breakage. These predictions were then compared with experimental data for latex sphere aggregates (using an in situ optical imaging method) and with predictions using spatial average shear rates. The mean particle size evolution predicted by CFD and QMOM using appropriate kinetic expressions that incorporate information concerning the particle morphology (fractal dimension) and the local fluid viscous effects on aggregation collision efficiency match well with the experimental data.     

Pyrimidines-19: Ring transformation of 5-nitrouracil into nitroresorcinols

The first intermolecular right transformation of a uracil derivative into the benzene system is reported. Treatment of 1,3-dimethyl-5-nitrouracil (1) with acetone in NaOMe/MeOH afforded 6-acetonyl-5,6-dihydro-1,3-dimethyl-5-nitrouracil (6) which was converted into 4-nitroresorcinol (5) upon treatment with NaOEt/EtOH at reflux. Reaction of1 with butanone gave two major products, 3-(5,6-dihydro-1,3-dimethyl-5-nitrouracil-6-yl)butanone (7) and the 1-(uracil-6-yl)butanone isomer (8). Prolonged treatment of7 with NaOEt/EtOH afforded 4-methyl-6-nitro-resorcinol (9) whereas8 was converted into 2-methyl-4-nitro-resorcinol (10). Treatment of1 with diethyl acetonedicar?ylate in NaOEt/EtOH afforded diethyl-2-(5,6-dihydro-1,3-dimethyl-5-nitrouracil-6-yl)-acetonedicar?ylate (2). Prolonged treatment of2 with NaOEt/EtOH at reflux afforded (5,6-dihydro-1,3-dimethyl-6-nitrouracil-6-yl)-acetate (3). Apparently,2 underwent a retroClaisen reaction to give3. Reaction of1 with ethyl acetoacetate in NaOEt/EtOH gave adduct isomers4 which underwent transformation reaction to give eventually 6-nitroresorcinol (5).