This tutorial review focuses on aqueous slurries of dispersed engineered nanoparticles (ENPs) used in chemical mechanical planarization (CMP) for polishing wafers during manufacturing of semiconductors.

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Cardiolipin is an anionic lipid found in the mitochondrial membranes of eukaryotes ranging from unicellular microorganisms to metazoans. This unique lipid contributes to various mitochondrial functions, including metabolism, mitochondrial membrane fusion and/or fission dynamics, and apoptosis. However, differences in cardiolipin content between the two mitochondrial membranes, as well as dynamic fluctuations in cardiolipin content in response to stimuli and cellular signaling events, raise questions about how cardiolipin concentration affects mitochondrial membrane structure and dynamics. Although cardiolipin's structural and dynamic roles have been extensively studied in binary mixtures with other phospholipids, the biophysical properties of cardiolipin in higher number lipid mixtures are still not well resolved. Here, we used molecular dynamics simulations to investigate the cardiolipin-dependent properties of ternary lipid bilayer systems that mimic the major components of mitochondrial membranes. We found that changes to cardiolipin concentration only resulted in minor changes to bilayer structural features but that the lipid diffusion was significantly affected by those alterations. We also found that cardiolipin position along the bilayer surfaces correlated to negative curvature deflections, consistent with the induction of negative curvature stress in the membrane monolayers. This work contributes to a foundational understanding of the role of cardiolipin in altering the properties in ternary lipid mixtures composed of the major mitochondrial phospholipids, providing much-needed insights to help understand how cardiolipin concentration modulates the biophysical properties of mitochondrial membranes. SIGNIFICANCE Cardiolipin is an intrinsic component of the lipid milieu that makes up the membranes of eukaryotic mitochondria, and the distinctive lipid plays roles in both mitochondrial structure and function. Despite the many studies that establish that cardiolipin has unique properties in membranes, there are still questions about how much cardiolipin directly contributes to structural differences between the inner and outer mitochondrial membranes, as well as questions about how natural fluctuations in cardiolipin concentration alter the structure and dynamics of mitochondrial membranes. This study provides quantitative predictions for cardiolipin-dependent properties of lipid bilayer systems that mimic the major components of mitochondrial membranes. As such, it provides further insights into cardiolipin's role in modulating the biophysical properties of mitochondrial membranes.

In this Article, we show that the surface of the bacteriophage Qβ is equipped with natural ligands for the synthesis of small gold nanoparticles (AuNPs). By exploiting disulfides in the protein secondary structure and the geometry formed from the capsid quaternary structure, we find that we can produce regularly arrayed patterns of ∼6 nm AuNPs across the surface of the virus-like particle. Experimental and computational analyses provide insight into the formation and stability of this composite. We further show that the entrapped genetic material can hold upward of 500 molecules of the anticancer drug Doxorubicin without leaking and without interfering with the synthesis of the AuNPs. This direct nucleation of nanoparticles on the capsid allows for exceptional conduction of photothermal energy upon nanosecond laser irradiation. As a proof of principle, we demonstrate that this energy is capable of rapidly releasing the drug from the capsid without heating the bulk solution, allowing for highly targeted cell killing in vitro.

Neuropeptides are abundant signaling molecules in the central nervous system. Yet remarkably little is known about their spatiotemporal spread and biological activity. Here, we developed an integrated optical approach using Plasmonic nAnovesicles and cellbased neurotransmitter fluorescent engineered reporter (CNiFER), or PACE, to probe neuropeptide signaling in the mouse neocortex. Small volumes (fL to pL) of exogenously supplied somatostatin-14 (SST) can be rapidly released under near-infrared light stimulation from nanovesicles implanted in the brain and detected by SST2 CNiFERs with nM sensitivity. Our measurements reveal reduced but synchronized SST transmission within 130 μm, and markedly smaller and delayed transmission at longer distances. These measurements enabled a quantitative estimation of the SST loss rate due to peptide degradation and binding. PACE offers a new tool for determining the spatiotemporal scales of neuropeptide volume transmission and signaling in the brain.

Mathematical models of biomolecular networks are commonly used to study mechanisms of cellular processes, but their usefulness is often questioned due to parameter uncertainty. Here, we employ Bayesian parameter inference and dynamic network analysis to study dominant reaction fluxes in models of extrinsic apoptosis. Although a simplified model yields thousands of parameter vectors with equally good fits to data, execution modes based on reaction fluxes clusters to three dominant execution modes. A larger model with increased parameter uncertainty shows that signal flow is constrained to eleven execution modes that use 53 out of 2067 possible signal subnetworks. Each execution mode exhibits different behaviors to in silico perturbations, due to different signal execution mechanisms. Machine learning identifies informative parameters to guide experimental validation. Our work introduces a probability-based paradigm of signaling mechanisms, highlights systems-level interactions that modulate signal flow, and provides a methodology to understand mechanistic model predictions with uncertain parameters.

We calculated the second-order hyperpolarizability (b) of a series of triarylamine (TAA) based donorbridge-acceptor (D-p-A) push-pull type nonlinear optical (NLO) chromophores with different electron donor moieties and the same thiophene p-bridge and dicyanovinyl electron acceptor using a timedependent Hartree-Fock (TDHF) approach within the software package MOPAC 2012. NLO chromophores with various quantities and positions of methoxy groups in the TAA donor moiety were investigated. The relationship between NLO properties and the electronic or geometric structures of the TAA donor subunit is discussed through the calculation results. Both substituent and conformational effects affect the delocalization of the nitrogen lone pair into the aryl rings, leading to a dramatic influence on the nonlinear optical properties. Introduction of methoxy groups at the ortho positions of the TAA moiety has a larger influence on the molecular hyperpolarizability and dipole moment than the introduction of methoxy group at the para or meta positions. Our calculation results demonstrate how to improve the NLO properties of TAA based chromophores while meeting practical device requirements. ; Fax: +1 972 883 2925; Tel: +1 972 883 5323 † Electronic supplementary information (ESI) available: All input les of model chromophores and all calculation results. See

Nested Sampling (NS) is a powerful athermal statistical mechanical sampling technique that directly calculates the partition function, and hence gives access to all thermodynamic quantities in absolute terms, including absolute free energies and absolute entropies. NS has been used predominately to compute the canonical (NVT) partition function. Although NS has recently been used to obtain the isothermal-isobaric (NPT) partition function of the hard sphere model, a general approach to the computation of the NPT partition function has yet to be developed. Here, we describe an isobaric NS (IBNS) method which allows for the computation of the NPT partition function of any atomic system. We demonstrate IBNS on two finite Lennard-Jones systems and confirm the results through comparison to parallel tempering Monte Carlo. Temperature-entropy plots are constructed as well as a simple pressure-temperature phase diagram for each system. We further demonstrate IBNS by computing part of the pressure-temperature phase diagram of a Lennard-Jones system under periodic boundary conditions.