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Abstract: Colloidal silica is a nanoparticulate material that could have a transformative effect on environmental risk management at nuclear legacy sites through their use in in-situ installation of injectable hydraulic barriers. In order to utilize such nanoparticulate material as a barrier, we require detailed understanding of its impact on the geochemistry of radionuclides in the environment (e.g. fission products such as Sr and Cs). Here we show, through combining leaching experiments with XAS analyses, that colloidal silica induces several competing effects on the mobility of Sr and Cs. First, cations within the colloidal silica gel compete with Sr and Cs for surface complexation sites. Second, an increased number of surface complexation sites is provided by the silica nanoparticles and finally, the elevated pH within the colloidal silica increases the surface complexation to clay minerals and the silica nanoparticles. XAS analyses show that Sr and Cs complex predominantly with the clay mineral phases in the soil through inner-sphere surface complexes (Sr) and through complexation on the clay basal surfaces at Si vacancy sites (Cs). For binary soil – colloidal silica gel systems, a fraction of the Sr and Cs complexes with the amorphous silica-like surfaces through the formation of outer-sphere surface complexes. Importantly, the net effect of nanoparticulate colloidal silica gel is to increase the retention of Sr and Cs, when compared to untreated soil and waste materials. Our research opens the door to applications of colloidal silica gel to form barriers within risk management strategies at legacy nuclear sites.

Open Access

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Abstract: MutT homologue 1 (MTH1) removes oxidized nucleotides from the nucleotide pool and thereby prevents their incorporation into the genome and thereby reduces genotoxicity. We previously reported that MTH1 is an efficient catalyst of O6-methyl-dGTP hydrolysis suggesting that MTH1 may also sanitize the nucleotide pool from other methylated nucleotides. We here show that MTH1 efficiently catalyzes the hydrolysis of N6-methyl-dATP to N6-methyl-dAMP and further report that N6-methylation of dATP drastically increases the MTH1 activity. We also observed MTH1 activity with N6-methyl-ATP, albeit at a lower level. We show that N6-methyl-dATP is incorporated into DNA in vivo, as indicated by increased N6-methyl-dA DNA levels in embryos developed from MTH1 knock-out zebrafish eggs microinjected with N6-methyl-dATP compared with noninjected embryos. N6-methyl-dATP activity is present in MTH1 homologues from distantly related vertebrates, suggesting evolutionary conservation and indicating that this activity is important. Of note, N6-methyl-dATP activity is unique to MTH1 among related NUDIX hydrolases. Moreover, we present the structure of N6-methyl-dAMP-bound human MTH1, revealing that the N6-methyl group is accommodated within a hydrophobic active-site sub-pocket explaining why N6-methyl-dATP is a good MTH1 substrate. N6-methylation of DNA and RNA has been reported to have epigenetic roles and to affect mRNA metabolism. We propose that MTH1 acts in concert with adenosine deaminase-like protein isoform 1 (ADAL1) to prevent incorporation of N6-methyl-(d)ATP into DNA and RNA. This would hinder potential dysregulation of epigenetic control and RNA metabolism via conversion of N6-methyl-(d)ATP to N6-methyl-(d)AMP, followed by ADAL1 catalyzed deamination producing (d)IMP that can enter the nucleotide salvage pathway.

Open Access

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Abstract: We present an experimental study of the high-pressure, high-temperature behaviour of cerium up to $\sim$22 GPa and 820 K using angle-dispersive x-ray diffraction and external resistive heating. Studies above 820 K were prevented by chemical reactions between the samples and the diamond anvils of the pressure cells. We unambiguously measure the stability region of the orthorhombic \textit{oC}4 phase and find it reaches its apex at 7.1 GPa and 650 K. We locate the $\alpha$-\textit{cF}4 -- \textit{oC}4 -- \textit{tI}2 triple point at 6.1 GPa and 640 K, 1 GPa below the location of the apex of the \textit{oC}4 phase, and 1-2 GPa lower than previously reported. We find the $\alpha$-\textit{cF}4 $\rightarrow$ \textit{tI}2 phase boundary to have a positive gradient of 280 K/GPa, less steep than the 670 K/GPa reported previously, and find the \textit{oC}4 $\rightarrow$ \textit{tI}2 phase boundary to lie at higher temperatures than previously found. We also find variations as large as 2-3 GPa in the transition pressures at which the \textit{oC}4 $\rightarrow$ \textit{tI}2 transition takes place at a given temperature, the reasons for which remain unclear. Finally, we find no evidence that the $\alpha$-\textit{cF}4 $\rightarrow$ \textit{tI}2 is not second order at all temperatures up to 820 K.

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Abstract: The broad-spectrum antibiotic D-cycloserine (DCS) is a key component of regimens used to treat multi- and extensively drug-resistant tuberculosis. DCS, a structural analog of D-alanine, binds to and inactivates two essential enzymes involved in peptidoglycan biosynthesis, alanine racemase (Alr) and D-Ala:D-Ala ligase. Inactivation of Alr is thought to proceed via a mechanism-based irreversible route, forming an adduct with the pyridoxal 5′-phosphate cofactor, leading to bacterial death. Inconsistent with this hypothesis, Mycobacterium tuberculosis Alr activity can be detected after exposure to clinically relevant DCS concentrations. To address this paradox, we investigated the chemical mechanism of Alr inhibition by DCS. Inhibition of M. tuberculosis Alr and other Alrs is reversible, mechanistically revealed by a previously unidentified DCS-adduct hydrolysis. Dissociation and subsequent rearrangement to a stable substituted oxime explains Alr reactivation in the cellular milieu. This knowledge provides a novel route for discovery of improved Alr inhibitors against M. tuberculosis and other bacteria.

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Abstract: Advances in the production of two-dimensional (2D) materials such as graphene and MoS2 during the past two decades have spurred the search for other van der Waals materials with distinct functional properties. However, reducing the dimensionality of bulk van der Waals materials can lead to structural rearrangement and chemical degradation, especially in the presence of air. These challenges have slowed the progress of the discovery and analysis of chemically diverse 2D materials. Here, we provide a case study on the shear exfoliation of a class of wide band gap van der Waals materials termed II–VI layered hybrids (II–VI LHs) and show how reducing their dimension influences their structural and chemical stabilities. ZnSe(butylamine) and ZnSe(octylamine) are exfoliated, yielding shear-thinned material whose resistance toward degradation via oxidation is studied in depth by a variety of macro- and microscopic characterization techniques. Mechanical energy input, solvent–ligand interaction, and exposure to ambient conditions all play important roles in the stability of these materials. Our findings suggest that moderately coordinating alkylamine layers stabilize 2D materials that would otherwise degrade during exfoliation and exposure to air.