A dipicolinic acid tag for rigid lanthanide tagging of proteins and paramagnetic NMR spectroscopy

A new lanthanide tag was designed for site-specific labeling of proteins with paramagnetic lanthanide ions. The tag, 4-mercaptomethyl-dipicolinic acid, binds lanthanide ions with nanomolar affinity, is readily attached to proteins via a disulfide bond, and avoids the problems of diastereomer formation associated with most of the conventional lanthanide tags. The high lanthanide affinity of the tag opens the possibility to measure residual dipolar couplings in a single sample containing a mixture of paramagnetic and diamagnetic lanthanides. Using the DNA-binding domain of the E. coli arginine repressor as an example, it is demonstrated that the tag allows immobilization of the lanthanide ion in close proximity of the protein by additional coordination of the lanthanide by a carboxyl group of the protein. The close proximity of the lanthanide ion promotes accurate determinations of magnetic susceptibility anisotropy tensors. In addition, the small size of the tag makes it highly suitable for studies of intermolecular interactions.     

Vibrational Distributions of N2 (A3∑+u) in the nitrogen afterglow

Absolute populations of the lowest six vibrational levels of N₂ (A³∑⁺_u) have been measured under various conditions in the Lewis-Rayleigh afterglow of nitrogen for the first time. These vibrational distributions are interpreted in terms of a simple kinetic model which permits the evaluation of rate constants for vibrational relaxation of the A-state levels by V-V energy transfer to ground state nitrogen molecules.     

Dissolution of uranium oxides under alkaline oxidizing conditions

Bench scale experiments were conducted to determine the dissolution characteristics of UO₂, U₃O₈, and UO₃ in aqueous peroxide-containing carbonate solutions. The experimental parameters investigated included carbonate countercation (NH₄ ⁺, Na⁺, K⁺, and Rb⁺) and H₂O₂ concentration. The carbonate countercation had a dramatic influence on the dissolution behavior of UO₂ in 1 M carbonate solutions containing 0.1 M H₂O₂, with the most rapid dissolution occurring in (NH₄)₂CO₃ solution. The initial dissolution rate (y) of UO₂ in 1 M (NH₄)₂CO₃ increased linearly with peroxide concentration (x) ranging from 0.05 to 2 M according to: y = 2.41x + 1.14. The trend in initial dissolution rates for the three U oxides under study was UO₃ ≫ U₃O₈ > UO₂.     

Highly sensitive non‐isotopic restriction endonuclease fingerprinting of nucleotide variability in the gp60 gene within Cryptosporidium species,genotypes and subgenotypes infective to humans,and its implications

The high‐resolution analysis of genetic variation has major implications for the identification of parasites and micro‐organisms to species and subspecies as well as for population genetic and epidemiological studies. In this study, we critically assessed the effectiveness of a PCR‐based restriction endonuclease fingerprinting (REF) method for the detection of mutations in the 60 kDa glycoprotein gene (gp60) of Cryptosporidium, a genus of parasitic protists of major human and animal health importance globally. This gene displays substantial intraspecific variability in sequence, particularly in a TCA (perfect and imperfect) microsatellite region, is present as a single copy in the nuclear genome and is used widely as a marker in molecular epidemiological studies of Cryptosporidium hominis and C. parvum, the two predominant species that infect humans. The results of this study demonstrated an exquisite capacity of REF to detect nucleotide variability in the gp60 gene within each of the two species. The differentiation of genotypes/subgenotypes based on REF analysis was supported by targeted sequencing, allowing the detection of levels of variation as low as a single‐nucleotide transversion for amplicons of ∼1 kb in size. The high‐throughput potential and relatively low‐cost of REF make it a particularly useful tool for large‐scale genetic analyses of C. hominis and C. parvum. REF could also be utilized for comparative surveys of genetic variability across large nuclear genomic regions. Such analyses of Cryptosporidium in clinical and environmental samples by REF have important implications for identifying sources of infection, modes of transmission and/or possible infectivity to humans, thus assisting in the surveillance and control of cryptosporidiosis. Given its excellent mutation detection capacity, REF should find broad applicability to various single‐copy genes as well as a wide range of other protozoan and metazoan parasites. (The nucleotide sequences reported in this article are available in the GenBank database under accession numbers GU214343–GU214371).     

Elimination of non-uniform, extra-device flow effects in membrane adsorbers

Commercial use of membrane adsorbers in the biotechnology industry is increasing. Here the system time lag created by membrane adsorber peripherals and the membrane adsorber flow distribution headers has been modeled using an anion exchange membrane and bovine serum albumin (BSA). The system time lag was modeled as a zero order and first order time lag. The zero and first order time lags have been removed from the breakthrough curve. The method used does not involve fitting a mathematical expression to the breakthrough curve. Further no assumptions are made regarding the shape of the breakthrough curve in the absence of the time lag. The method has been used to calculate the Langmuir isotherm parameters.The membrane capacity was found to be twice as large as the capacity determined after removal of the time lag. The Langmuir constant was five times as large for the system without accounting for the time lag. Errors in fitting isotherm parameters can significantly impact frontal analysis and membrane adsorber scale-up. The Langmuir isotherm calculated under dynamic conditions with the system time lag removed, was in agreement with the static adsorption isotherm.     

Synthesis of azepino[3,4b]indoles via the Plancher rearrangement

The reaction of benzyl 3-formylpiperidine-1-carboxylate and aryl hydrazines under standard Fisher Indole conditions followed by reductive work-up affords azepino[3,4b]indoles in moderate to good yields. The products are proposed to be derived via a Plancher rearrangement [(a) Plancher, G. Gazz. Chim. Ital. 1898, 28, II, 374; (b) Plancher, G. Atti. Accad.Lincei1900, 9, 5, 115; (c) Boyd-Barrett, H. S. J. Chem. Soc.1932, 321].     

Isoform specific gene auto-regulation via miRNAs: a case study on miR-128b and ARPP-21

In this study, we investigate whether miRNAs located within “host” protein-coding genes may regulate the expression of their host genes. We find that 43 of 174 miRNAs encoded within RefSeq genes are predicted to target their host genes. Statistical analysis of this phenomenon suggests that gene auto-regulation via miRNAs may be under positive selective pressure. Our analysis also indicates that several of the 43 miRNAs have a much lower expectation of targeting their host genes by chance than others. Among these examples, we identify miR-128b:ARPP-21 (cyclic AMP-regulated phosphoprotein, 21 kD) as a case in which both the miRNA and the target site are also evolutionarily conserved. We provide experimental support for this miRNA:target interaction via reporter silencing assays, and present evidence that this isoform-specific gene auto-regulation has been preserved in vertebrate species in order to prevent detrimental consequences of ARPP-21 over-expression in brain.