Functionalization of Bacterial Microcompartment Shell Proteins With Covalently Attached Heme.

Heme is a versatile redox cofactor that has considerable potential for synthetic biology and bioelectronic applications. The capacity to functionalize non-heme-binding proteins with covalently bound heme moieties in vivo could expand the variety of bioelectronic materials, particularly if hemes could be attached at defined locations so as to facilitate position-sensitive processes like electron transfer. In this study, we utilized the cytochrome maturation system I to develop a simple approach that enables incorporation of hemes into the backbone of target proteins in vivo. We tested our methodology by targeting the self-assembling bacterial microcompartment shell proteins, and inserting functional hemes at multiple locations in the protein backbone. We found substitution of three amino acids on the target proteins promoted heme attachment with high occupancy. Spectroscopic measurements suggested these modified proteins covalently bind low-spin hemes, with relative low redox midpoint potentials (about -210 mV vs. SHE). Heme-modified shell proteins partially retained their self-assembly properties, including the capacity to hexamerize, and form inter-hexamer attachments. Heme-bound shell proteins demonstrated the capacity to integrate into higher-order shell assemblies, however, the structural features of these macromolecular complexes was sometimes altered. Altogether, we report a versatile strategy for generating electron-conductive cytochromes from structurally-defined proteins, and provide design considerations on how heme incorporation may interface with native assembly properties in engineered proteins

EST analysis of gene expression in early cleavage-stage sea urchin embryos

A set of 956 expressed sequence tags derived from 7-hour (mid-cleavage) sea urchin embryos was analyzed to assess biosynthetic functions and to illuminate the structure of the message population at this stage. About a quarter of the expressed sequence tags represented repetitive sequence transcripts typical of early embryos, or ribosomal and mitochondrial RNAs, while a majority of the remainder contained significant open reading frames. A total of 232 sequences, including 153 different proteins, produced significant matches when compared against GenBank. The majority of these identified sequences represented ‘housekeeping’ proteins, i.e., cytoskeletal proteins, metabolic enzymes, transporters and proteins involved in cell division. The most interesting finds were components of signaling systems and transcription factors not previously reported in early sea urchin embryos, including components of Notch and TGF signal transduction pathways. As expected from earlier kinetic analyses of the embryo mRNA populations, no very prevalent protein-coding species were encountered; the most highly represented such sequences were cDNAs encoding cyclins A and B. The frequency of occurrence of all sequences within the database was used to construct a sequence prevalence distribution. The result, confirming earlier mRNA population analyses, indicated that the poly(A) RNA of the early embryo consists mainly of a very complex set of low-copy-number transcripts

Generalized Pseudopotentials for Higher Partial Wave Scattering

We derive a generalized zero-range pseudopotential applicable to all partial wave solutions to the Schroedinger equation based on a delta-shell potential in the limit that the shell radius approaches zero. This properly models all higher order multipole moments not accounted for with a monopolar delta function at the origin, as used in the familiar Fermi pseudopotential for s-wave scattering. By making the strength of the potential energy dependent, we derive self-consistent solutions for the entire energy spectrum of the realistic potential. We apply this to study two particles in an isotropic harmonic trap, interacting through a central potential, and derive analytic expressions for the energy eigenstates and eigenvalues.Comment: RevTeX 4 pages, 1 figure, final published versio

Leveraging Social Capital to Obtain Top Management Support in Complex, Cross-Functional IT Projects

Research argues that a major reason for IT project failure is the lack of top management support. However, obtaining top management support is often considered outside the IT project team’s control. In this paper, we investigate how IT project teams can obtain such support. We find that creating and mobilizing social capital through repeated interaction with top managers and their confidants helps a project obtain top management support. Also, a failure to use social capital to engage top management can cause a decrease in their support. We demonstrate these points through a natural experiment of the support of three division heads and their corresponding divisions in the implementation of an enterprise system. We demonstrate how and why top management support may be obtained by (1) building social capital and (2) mobilizing existing social capital—directly with top management or indirectly with individuals with influence on top management

A Semantics-Based Measure of Emoji Similarity

Emoji have grown to become one of the most important forms of communication on the web. With its widespread use, measuring the similarity of emoji has become an important problem for contemporary text processing since it lies at the heart of sentiment analysis, search, and interface design tasks. This paper presents a comprehensive analysis of the semantic similarity of emoji through embedding models that are learned over machine-readable emoji meanings in the EmojiNet knowledge base. Using emoji descriptions, emoji sense labels and emoji sense definitions, and with different training corpora obtained from Twitter and Google News, we develop and test multiple embedding models to measure emoji similarity. To evaluate our work, we create a new dataset called EmoSim508, which assigns human-annotated semantic similarity scores to a set of 508 carefully selected emoji pairs. After validation with EmoSim508, we present a real-world use-case of our emoji embedding models using a sentiment analysis task and show that our models outperform the previous best-performing emoji embedding model on this task. The EmoSim508 dataset and our emoji embedding models are publicly released with this paper and can be downloaded from http://emojinet.knoesis.org/.Comment: This paper is accepted at Web Intelligence 2017 as a full paper, In 2017 IEEE/WIC/ACM International Conference on Web Intelligence (WI). Leipzig, Germany: ACM, 201

Direct grafting of tetraaniline via perfluorophenylazide photochemistry to create antifouling, low bio-adhesion surfaces.

Conjugated polyaniline has shown anticorrosive, hydrophilic, antibacterial, pH-responsive, and pseudocapacitive properties making it of interest in many fields. However, in situ grafting of polyaniline without harsh chemical treatments is challenging. In this study, we report a simple, fast, and non-destructive surface modification method for grafting tetraaniline (TANI), the smallest conjugated repeat unit of polyaniline, onto several materials via perfluorophenylazide photochemistry. The new materials are characterized by nuclear magnetic resonance (NMR) and electrospray ionization (ESI) mass spectroscopy. TANI is shown to be covalently bonded to important carbon materials including graphite, carbon nanotubes (CNTs), and reduced graphene oxide (rGO), as confirmed by transmission electron microscopy (TEM). Furthermore, large area modifications on polyethylene terephthalate (PET) films through dip-coating or spray-coating demonstrate the potential applicability in biomedical applications where high transparency, patternability, and low bio-adhesion are needed. Another important application is preventing biofouling in membranes for water purification. Here we report the first oligoaniline grafted water filtration membranes by modifying commercially available polyethersulfone (PES) ultrafiltration (UF) membranes. The modified membranes are hydrophilic as demonstrated by captive bubble experiments and exhibit extraordinarily low bovine serum albumin (BSA) and Escherichia coli adhesions. Superior membrane performance in terms of flux, BSA rejection and flux recovery after biofouling are demonstrated using a cross-flow system and dead-end cells, showing excellent fouling resistance produced by the in situ modification

The Drosophila caspase Ice is important for many apoptotic cell deaths and for spermatid individualization, a nonapoptotic process

Caspase family proteases play important roles in the regulation of apoptotic cell death. Initiator caspases are activated in response to death stimuli, and they transduce and amplify these signals by cleaving and thereby activating effector caspases. In Drosophila, the initiator caspase Nc (previously Dronc) cleaves and activates two short-prodomain caspases, Dcp-1 and Ice (previously Drice), suggesting these as candidate effectors of Nc killing activity. dcp-1-null mutants are healthy and possess few defects in normally occurring cell death. To explore roles for Ice in cell death, we generated and characterized an Ice null mutant. Animals lacking Ice show a number of defects in cell death, including those that occur during embryonic development, as well as during formation of adult eyes, arista and wings. Ice mutants exhibit subtle defects in the destruction of larval tissues, and do not prevent destruction of salivary glands during metamorphosis. Cells from Ice animals are also markedly resistant to several stresses, including X-irradiation and inhibition of protein synthesis. Mutations in Ice also suppress cell death that is induced by expression of Rpr, Wrinkled (previously Hid) and Grim. These observations demonstrate that Ice plays an important non-redundant role as a cell death effector. Finally, we demonstrate that Ice participates in, but is not absolutely required for, the non-apoptotic process of spermatid differentiation

A review of conventional and emerging process technologies for the recovery of helium from natural gas

Helium is a unique gas with a wide range of important medical, scientific and industrial applications based on helium's extremely low boiling temperature, inert and non-flammable nature and small molecular size. The only practical sources of helium are from certain natural gas (NG) fields. As world demand for helium rapidly increases, the value of NG fields that contain it even in very small amounts is likely to rise significantly if the helium can be recovered efficiently. However, recovering the helium from the NG using conventional cryogenic distillation processes is expensive and energy intensive. We review the scope for improving the efficiency of the conventional helium recovery and upgrade processes, and evaluate the potential of emerging technologies based on adsorption or membrane separations for helium upgrade and purification. Helium recovery and purification processes are comparable in many ways with systems designed for hydrogen purification and thus, many of recent technological advances for H-2 separation from CH4, N-2 and CO2 may be applicable to a helium recovery process. Furthermore, some recent patents and pilot plant studies indicate there exist several opportunities for the development of advanced materials, such as helium-selective adsorbents, and optimized process operations for the recovery of helium from NG

Spin coherent quantum transport of electrons between defects in diamond

The nitrogen-vacancy color center in diamond has rapidly emerged as an important solid-state system for quantum information processing. While individual spin registers have been used to implement small-scale diamond quantum computing, the realization of a large-scale device requires development of an on-chip quantum bus for transporting information between distant qubits. Here we propose a method for coherent quantum transport of an electron and its spin state between distant NV centers. Transport is achieved by the implementation of spatial stimulated adiabatic Raman passage through the optical control of the NV center charge states and the confined conduction states of a diamond nanostructure. Our models show that for two NV centers in a diamond nanowire, high fidelity transport can be achieved over distances of order hundreds of nanometres in timescales of order hundreds of nanoseconds. Spatial adiabatic passage is therefore a promising option for realizing an on-chip spin quantum bus