Identification and Characterization of a Welwitindolinone Alkaloid Biosynthetic Gene Cluster in the Stigonematalean Cyanobacterium Hapalosiphon welwitschii

The identification of a 36 kb welwitindolinone (wel) biosynthetic gene cluster in Hapalosiphon welwitschii UTEX B1830 is reported. Characterization of the enzymes responsible for assembling the early biosynthetic intermediates geranyl pyrophosphate and 3‐((Z)‐2′‐isocyanoethenyl)indole as well as a dedicated N‐methyltransferase in the maturation of N‐methylwelwitindolinone C isothiocyanate solidified the link between the wel pathway and welwitindolinone biosynthesis. Comparative analysis of the ambiguine and welwitindolinone biosynthetic pathways in two different organisms provided insights into the origins of diverse structures within hapalindole‐type molecules.     

Photobleaching Reveals Heterogeneous Stoichiometry for Equinatoxin II Oligomers

Equinatoxin II (EqtII), a sea anemone cytolysin, is known to oligomerize to form pores that spontaneously insert into membranes. Crystallographic and cryo‐EM studies of structurally similar cytolysins offer contradictory evidence for pore stoichiometry. Here we used single‐molecule photobleaching of fluorescently labeled EqtII to determine the stoichiometry of EqtII oligomers in supported lipid bilayers. A frequency analysis of photobleaching steps revealed a log‐normal distribution of stoichiometries with a mean of 3.4±2.3 standard deviations. Comparison of our experimental data with simulations of fixed stoichiometries supports our observation of a heterogeneous distribution of EqtII oligomerization. These data are consistent with a model of EqtII stoichiometry where pores are on average tetrameric, but with large variation in the number of subunits in individual pores.     

Catalytic Molecular Logic Devices by DNAzyme Displacement

Chemical reactions catalyzed by DNAzymes offer a route to programmable modification of biomolecules for therapeutic purposes. To this end, we have developed a new type of catalytic DNA‐based logic gates in which DNAzyme catalysis is controlled via toehold‐mediated strand displacement reactions. We refer to these as DNAzyme displacement gates. The use of toeholds to guide input binding provides a favorable pathway for input recognition, and the innate catalytic activity of DNAzymes allows amplification of nanomolar input concentrations. We demonstrate detection of arbitrary input sequences by rational introduction of mismatched bases into inhibitor strands. Furthermore, we illustrate the applicability of DNAzyme displacement to compute logic functions involving multiple logic gates. This work will enable sophisticated logical control of a range of biochemical modifications, with applications in pathogen detection and autonomous theranostics.     

Development of Diaminoquinazoline Histone Lysine Methyltransferase Inhibitors as Potent Blood‐Stage Antimalarial Compounds

Modulating epigenetic mechanisms in malarial parasites is an emerging avenue for the discovery of novel antimalarial drugs. Previously we demonstrated the potent in vitro and in vivo antimalarial activity of (1‐benzyl‐4‐piperidyl)[6,7‐dimethoxy‐2‐(4‐methyl‐1,4‐diazepin‐1‐yl)‐4‐quinazolinyl]amine (BIX01294; 1 ), a known human G9a inhibitor, together with its dose‐dependent effects on histone methylation in the malarial parasite. This work describes our initial medicinal chemistry efforts to optimise the diaminoquinazoline chemotype for antimalarial activity. A variety of analogues were designed by substituting the 2 and 4 positions of the quinazoline core, and these molecules were tested against Plasmodium falciparum (3D7 strain). Several analogues with IC₅₀ values as low as 18.5 nM and with low mammalian cell toxicity (HepG2) were identified. Certain pharmacophoric features required for antimalarial activity were found to be analogous to the previously published SAR of these analogues for G9a inhibition, thereby suggesting potential similarities between the malarial and human HKMT targets of this chemotype. Physiochemical, in vitro activity, and in vitro metabolism studies were also performed for a select set of potent analogues to evaluate their potential as antimalarial leads.     

New carbon composite adsorbents for the removal of textile dyes from aqueous solutions: Kinetic,equilibrium, and thermodynamic studies

New carbon composite materials were prepared by pyrolysis of mixture of coffee wastes and red mud at 700 °C with the inorganic: organic ratios of 1.9 (CC-1.9) and 2.2 (CC-2.2). These adsorbents were used to remove reactive orange 16 (RO-16) and reactive red 120 (RR-120) textile dyes from aqueous solution. The CC-1.9 and CC-2.2 materials were characterized using Fourier transform infrared spectroscopy, Nitrogen adsorption/desorption curves, scanning electron Microscopy and X-ray diffraction. The kinetic of adsorption data was fitted by general order kinetic model. A three-parameter isotherm model, Liu isotherm model, gave the best fit of the equilibrium data (298 to 323 K). The maximum amounts of dyes removed at 323 K were 144.8 (CC-1.9) and 139.5 mg g^?1 (CC-2.2) for RO-16 dye and 95.76 (CC-1.9) and 93.80 mg g^?1 (CC-2.2) for RR-120 dye. Two simulated dyehouse effluents were used to investigate the application of the adsorbents for effluent treatment.     

Gentle STEM: ADF imaging and EELS at low primary energies

Aberration correction of the scanning transmission electron microscope (STEM) has made it possible to reach probe sizes close to 1 Å at 60 keV, an operating energy that avoids direct knock-on damage in materials consisting of light atoms such as B, C, N and O. Although greatly reduced, some radiation damage is still present at this energy, and this limits the maximum usable electron dose. Elemental analysis by electron energy loss spectroscopy (EELS) is then usefully supplemented by annular dark field (ADF) imaging, for which the signal is larger. Because of its strong Z dependence, ADF allows the chemical identification of individual atoms, both heavy and light, and it can also record the atomic motion of individual heavy atoms in considerable detail. We illustrate these points by ADF images and EELS of nanotubes containing nanopods filled with single atoms of Er, and by ADF images of graphene with impurity atoms.     

A new method for processing impact excited continuous-scan laser Doppler vibrometer measurements

A scanning laser Doppler vibrometer (LDV) can acquire non-contact vibration measurements from a structure with high spatial detail in an automated manner; one only need redirect the laser via computer-controlled mirrors to acquire measurements at additional points. However, since most LDV systems are only capable of measuring one point at a time, conventional scanning vibrometry cannot be effectively employed in some situations, for example when the time record is long at each measurement point or when the structure changes with time. Conventional scanning LDV systems are also difficult to employ with impact excitation because there is considerable variation in the impact location, angle and the character of the impacts, which leads to errors in the mode shapes that are extracted from the measurements. This paper presents a method by which one can determine the mode shapes, natural frequencies and damping ratios of a structure from as little as one response record by sweeping the laser continuously over the vibrating structure as the measurement is acquired. A novel resampling approach is presented that transforms the continuous-scan measurements into pseudo-frequency response functions, so they can be processed using standard identification routines to find the modal parameters of the structure. Specifically, this work employs a standard multi-input–multi-output identification routine and the complex mode indicator function to the continuous-scan laser Doppler vibrometry (CSLDV) measurements. The method makes no assumptions regarding the shape or properties of the surface and only requires that the laser scan periodically and that the structure vibrate freely. The method is demonstrated experimentally on a free–free beam, identifying the first nine mode shapes of the beam at hundreds of points from a few time histories. For this system, this represents a two-order of magnitude reduction in the time needed to acquire measurements with the LDV.     

A methodology for measuring in situ lattice strain of bulk polycrystalline material under cyclic load

The material response of polycrystalline materials under cyclic loading is not fully understood. Even during uniaxial loading, individual grains embedded within the polycrystalline material can experience complicated strain histories. By quantifying the deformation state at the crystal level, we can begin to understand the conditions that lead to fatigue failure. An in situ powder diffraction method was developed and employed at the Cornell High Energy Synchrotron Source to measure the aggregate crystal response at various points in a material's life using synchrotron x ray. A set of experiments was conducted using a load frame capable of exerting cyclic uniaxial loads on a specimen. A high speed x-ray shutter was developed to synchronize the x-ray beam and the loading cycle. Using the high speed shutter, the evolution of the lattice strains for the families of crystallographic planes was measured while the aggregate was under cyclic uniaxial loading, thus monitoring a live evolution of lattice strain in a cyclically loaded specimen. The methodology is demonstrated using uniaxial cyclic specimens machined from oxygen free conductivity (OFHC) copper sheet.     

Quantitative calcium resistivity based method for accurate and scalable water vapor transmission rate measurement

The development of flexible organic light emitting diode displays and flexible thin film photovoltaic devices is dependent on the use of flexible, low-cost, optically transparent and durable barriers to moisture and/or oxygen. It is estimated that this will require high moisture barriers with water vapor transmission rates (WVTR) between 10(-4) and 10(-6) g/m(2)/day. Thus there is a need to develop a relatively fast, low-cost, and quantitative method to evaluate such low permeation rates. Here, we demonstrate a method where the resistance changes of patterned Ca films, upon reaction with moisture, enable one to calculate a WVTR between 10 and 10(-6) g/m(2)/day or better. Samples are configured with variable aperture size such that the sensitivity and/or measurement time of the experiment can be controlled. The samples are connected to a data acquisition system by means of individual signal cables permitting samples to be tested under a variety of conditions in multiple environmental chambers. An edge card connector is used to connect samples to the measurement wires enabling easy switching of samples in and out of test. This measurement method can be conducted with as little as 1 h of labor time per sample. Furthermore, multiple samples can be measured in parallel, making this an inexpensive and high volume method for measuring high moisture barriers.     

Ultra-sensitive thermal conductance measurement of one-dimensional nanostructures enhanced by differential bridge

Thermal conductivity of one-dimensional nanostructures, such as nanowires, nanotubes, and polymer chains, is of significant interest for understanding nanoscale thermal transport phenomena as well as for practical applications in nanoelectronics, energy conversion, and thermal management. Various techniques have been developed during the past decade for measuring this fundamental quantity at the individual nanostructure level. However, the sensitivity of these techniques is generally limited to 1 × 10(-9) W∕K, which is inadequate for small diameter nanostructures that potentially possess thermal conductance ranging between 10(-11) and 10(-10) W∕K. In this paper, we demonstrate an experimental technique which is capable of measuring thermal conductance of ～10(-11) W∕K. The improved sensitivity is achieved by using an on-chip Wheatstone bridge circuit that overcomes several instrumentation issues. It provides a more effective method of characterizing the thermal properties of smaller and less conductive one-dimensional nanostructures. The best sensitivity experimentally achieved experienced a noise equivalent temperature below 0.5 mK and a minimum conductance measurement of 1 × 10(-11) W∕K. Measuring the temperature fluctuation of both the four-point and bridge measurements over a 4 h time period shows a reduction in measured temperature fluctuation from 100 mK to 0.6 mK. Measurement of a 15 nm Ge nanowire and background conductance signal with no wire present demonstrates the increased sensitivity of the bridge method over the traditional four-point I-V measurement. This ultra-sensitive measurement platform allows for thermal measurements of materials at new size scales and will improve our understanding of thermal transport in nanoscale structures.