Isometric artifacts from polymerase chain reaction-massively parallel sequencing analysis of short tandem repeat loci: An emerging issue from a new technology?

The recent introduction of polymerase chain reaction (PCR)-massively parallel sequencing (MPS) technologies in forensics has changed the approach to allelic short tandem repeat (STR) typing because sequencing cloned PCR fragments enables alleles with identical molecular weights to be distinguished based on their nucleotide sequences. Therefore, because PCR fidelity mainly depends on template integrity, new technical issues could arise in the interpretation of the results obtained from the degraded samples. In this work, a set of DNA samples degraded in vitro was used to investigate whether PCR-MPS could generate “isometric drop-ins” (IDIs; i.e., molecular products having the same length as the original allele but with a different nucleotide sequence within the repeated units). The Precision ID GlobalFiler NGS STR panel kit was used to analyze 0.5 and 1 ng of mock samples in duplicate tests (for a total of 16 PCR-MPS analyses). As expected, several well-known PCR artifacts (such as allelic dropout, stutters above the threshold) were scored; 95 IDIs with an average occurrence of 5.9 IDIs per test (min: 1, max: 11) were scored as well. In total, IDIs represented one of the most frequent artifacts. The coverage of these IDIs reached up to 981 reads (median: 239 reads), and the ratios with the coverage of the original allele ranged from 0.069 to 7.285 (median: 0.221). In addition, approximately 5.2% of the IDIs showed coverage higher than that of the original allele. Molecular analysis of these artifacts showed that they were generated in 96.8% of cases through a single nucleotide change event, with the C > T transition being the most frequent (85.7%). Thus, in a forensic evaluation of evidence, IDIs may represent an actual issue, particularly when DNA mixtures need to be interpreted because they could mislead the operator regarding the number of contributors. Overall, the molecular features of the IDIs described in this work, as well as the performance of duplicate tests, may be useful tools for managing this new class of artifacts otherwise not detected by capillary electrophoresis technology.     

Dicobalt hexacarbonyl complexes of alkynyl imines in a sequential Staudinger/Pauson-Khand process. A route to new fused tricyclic beta-lactams

Dicobalt hexacarbonyl complexes of alkynyl imines were allowed to react with ketenes via Staudinger reaction. Sequential [2 + 2] cycloaddition/Pauson-Khand reaction led to structurally new fused-tricyclic beta-lactams and fused-azabicyclic cyclopentenones. Chemoselectivity, scope, and limitation of the process were investigated.     

Photoinduced magnetization in copper octacyanomolybdate

This article describes the studies of a photomagnetic cyanide-bridged Cu-Mo bimetallic assembly, Cu(II)(2)[Mo(IV)(CN)(8)].8H(2)O (Cu(II), S = (1)/(2); Mo(IV), S = 0) (1), which has an intervalence transfer (IT) band from Mo(IV)-CN-Cu(II) to Mo(V)-CN-Cu(I) around 480 nm. Wide-angle X-ray scattering and X-ray spectroscopic studies provide precise information about the 3D connectivity and the local environment of the transition metal ions. Irradiating with blue light causes solid 1 to exhibit a spontaneous magnetization (Curie temperature = 25 K). The thermal reversibility is carefully studied and shows the long-time stability of the photoinduced state up to 100 K. Photoreversibility is also observed; i.e., the magnetization is induced by irradiation with light below 520 nm, while the magnetization is reduced by irradiation with light above 520 nm. The UV-vis absorption spectrum after irradiation shows a decrease of the IT band and the appearance of the reverse-IT band in the region of 600-900 nm (lambda(max) = 710 nm). This UV-vis absorption spectrum is recovered to the original spectrum by irradiation with 658-, 785-, and 840-nm light. In this photomagnetic effect, the excitation of the IT band causes an electron transfer from Mo(IV) to Cu(II), producing a ferromagnetic mixed-valence isomer of Cu(I)Cu(II)[Mo(V)(CN)(8)].8H(2)O (Cu(I), S = 0; Cu(II), S = (1)/(2); Mo(V), S = (1)/(2)) (1'). 1' returns to 1 by irradiation of the reverse-IT band, which obeys the scheme for the potential energy surface in mixed-valence class II compounds.     

Heat Capacity of a Synthetic Distillation Cut+n-Hexane System under Pressure

Isobaric heat capacities of synthetic mixtures were determined up to 40 MPa with a modified C-80 Setaram calorimeter equipped with cells designed for high pressures. The system investigated was a pseudo-binary hexane+synthetic cut, the latter consisting of compounds of the three chemical families that occur most frequently in natural effluents (paraffins, naphthenes and aromatics). The additional knowledge of density vs. pressure and temperature affords the specific heat γ ratio.     

Electrochemical behaviour of the LiF-(CaF2)-La2O3 system

The electrochemical behaviour of the LiF-La₂O₃ and LiF-CaF₂-La₂O₃ systems was investigated by means of cyclic voltammetry. Several types of working electrodes (spectrographic pure graphite, W, Mo, Ni, Cu) were used. It was found that chemical reactions take place in the system during the dissolution of lanthanum oxide. The reduction of lithium cations occurred at the most positive potential from the species formed in the melt on ‘inert’ cathodes (W, Mo). The reactive cathodes (Cu, Ni) allowed the lanthanum deposition with depolarisation.     

One-electron reduction of superoxide radical-anions by 3-alkylpolyhydroxyflavones in micelles. Effect of antioxidant alkyl chain length on micellar structure and reactivity

In micellar solutions, one-electron reduction of (*)O 2 (-) radical-anions by 3-alkylpolyhydroxyflavones (FnH) with alkyl chains of n = 1, 4, 6, 10 carbons produces phenoxyl radicals ( (*)Fn) identical to those obtained by one-electron oxidation by (*)Br 2 (-) radical-anions or by repair of tryptophan radicals. In cetyltrimethylammonium bromide (CTAB), F1H localizes in the Stern layer, and alkyl chains of other FnH solubilize in the hydrophobic interior, interacting with cetyl tails. This interaction produces more compact micelles with lower intramicellar fluidity, as suggested by the increase in the pseudo-first-order rate constant of (*)Fn formation ( k 1) from approximately 390 s (-1) for n = 1 to 610 s (-1) for n = 10, leading to an intramicellar bimolecular rate constant of 1 x 10 (5) M (-1) s (-1). Additionally, (*)F1 and (*)F4 decay by intermicellar bimolecular reaction (2 k = 20 and 2 x 10 (5) M (-1) s (-1), respectively) whereas other (*)Fn radicals are stable over seconds due to increased localization with regards to the Stern layer. In contrast, the thick uncharged hydrophilic palisade layer and the compact hydrophobic core of Triton X100 micelles are responsible for a much higher microviscosity resulting in a decrease in k 1 from approximately 15.6 s (-1) for n = 1 to 9.6 s (-1) for n = 10.     

A selective synthesis of hydroxyborate anions as novel anchors for zirconocene catalysts

A new family of hydroxytris(pentafluorophenyl)borate anions [B(C6F5)3OH](-) associated with organic and aprotic cations c+ (imidazolium, pyrrolidinium and phosphonium) has been prepared by a general one-pot synthesis that implies the chloride borate analogues [B(C6F5)3Cl](-)[c]+. The [c]+[B(C6F5)3OH](-) salts have been isolated and fully characterized. The borate anion [B(C6F5)3OH](-) has been shown to protonate the Zr-Me bond in the Cp2ZrMe2 complex forming CH4 and the first published example of anionic [Cp2Zr(Me)OB(C6F5)3](-) species. Standard spectroscopic methods demonstrate the covalent character of the Zr metal center and the anionic character of the boron atom. This protonolysis methodology using [B(C6F5)3OH](-) anion affords a new route for the incorporation of a covalently bonded anionic functionality on organometallic complexes. This provides a new way to immobilize transition metal complexes in ionic liquids.     

Stepwise hydration of protonated proline

Using an ab initio strategy accounting for the basis set superposition error and electron-correlation effects, we have investigated the stepwise hydration of the proline cation. Structures with 0-3 surrounding water molecules have been obtained, and major differences with respect to protonated glycine are highlighted. Several structures with similar energies actually coexist at each step, and we give indications that should help removing experimental doubts. The theoretical enthalpies and entropies meet the experimental observations, though the computed entropic changes when adding the third water molecule are overestimated.     

Square versus tetrahedral iron clusters with polyoxometalate ligands

Two new insoluble transition metal substituted phosphotungstates, (C2N2H10)11[{(B-alpha-PW9O34)Fe3(OH)3}4(PO4)4Fe].38H2O(1) and K4(C2N2H10)12[(alpha-PW10Fe2O39)4].30H2O(2), have been isolated by the hydrothermal reaction of [A-alpha-PW9O34]9-, Fe(III) ions and ethylenediamine. Compound 1 has a tetrahedral symmetry and contains a Fe13 core built from the assembly of four Fe(III) trisubstituted [B-alpha-PW9O34]9- anions around a central disordered iron ion via four phosphato ligands. The anion in 2 can be described as a square of disubstituted [PW10O37]9- anions linked by Fe(III)-O-Fe(III) bridges. Magnetic measurements performed on 1 and 2 have shown the occurrence of antiferromagnetic interactions between the iron ions and have allowed the coupling constants between the magnetic centers to be determined.     

Infrared characterization of hydroxyl groups on MgO: a periodic and cluster density functional theory study

The infrared OH stretching frequencies of the various types of hydroxyl groups on MgO surfaces have been calculated by periodic (VASP) and cluster (Gaussian) DFT simulations. Surface irregularities (mono and diatomic steps, corners, step divacancies, and kinks) have been considered to model the IR spectra of hydroxylated MgO powders. A good correspondence between calculated and experimental frequencies is obtained with the B3LYP functional. Hydrogen-bonding is the parameter which influences most the IR frequency of OH groups, followed by location of OH groups in concave or convex areas of the surface and then oxygen coordination. The evolution of experimental IR spectra upon evacuation at increasing temperature can be rationalized on the basis of calculated thermal stabilities of each kind of OH groups. A new model is finally proposed to help assign the experimental bands, in terms of hydrogen-bonding, local topology of the hydroxylated sites, and coordination of oxygen.