Sequence-Tunable Phase Behavior and Intrinsic Fluorescence in Dynamically Interacting Peptides

A conceptual framework towards understanding biological condensed phases is emerging, derived from biological, biomimetic, and synthetic sequences. However, de novo peptide condensate design remains a challenge due to an incomplete understanding of the structural and interactive complexity. We designed peptide modules based on a simple repeat motif composed of tripeptide spacers (GSG, SGS, GLG) interspersed with adhesive amino acids (R/H and Y). We show, using sequence editing and a combination of computation and experiment, that n→π* interactions in GLG backbones are a dominant factor in providing sufficient backbone structure, which in turn regulates the water interface, collectively promoting liquid droplet formation. Moreover, these R(GLG)Y and H(GLG)Y condensates unexpectedly display sequence-dependent emission that is a consequence of their non-covalent network interactions, and readily observable by confocal microscopy.     

Comparative study of machine-learning and chemometric tools for analysis of in-vivo high-throughput screening data

High-throughput screening (HTS) has become a central tool of many pharmaceutical and crop-protection discovery operations. If HTS screening is carried out at the level of the intact organism, as is commonly done in crop protection, this strategy has the potential of uncovering a completely new mechanism of actions. The challenge in running a cost-effective HTS operation is to identify ways in which to improve the overall success rate in discovering new biologically active compounds. To this end, we describe our efforts directed at making full use of the data stream arising from HTS. This paper describes a comparative study in which several machine learning and chemometric methodologies were used to develop classifiers on the same data sets derived from in vivo HTS campaigns and their predictive performances compared in terms of false negative and false positive error profiles.     

Sonolysis of Escherichia coli and Pichia pastoris in microfluidics

We report on an efficient ultrasound based technique for lysing Escherichia coli and Pichia pastoris with oscillating cavitation bubbles in an integrated microfluidic system. The system consists of a meandering microfluidic channel and four piezoelectric transducers mounted on a glass substrate, with the ultrasound exposure and gas pressure regulated by an automatic control system. Controlled lysis of bacterial and yeast cells expressing green fluorescence protein (GFP) is studied with high-speed photography and fluorescence microscopy, and quantified with real-time polymerase chain reaction (qRT-PCR) and fluorescence intensity. The effectiveness of cell lysis correlates with the duration of ultrasound exposure. Complete lysis can be achieved within one second of ultrasound exposure with a temperature increase of less than 3.3 °C. The rod-shaped E. coli bacteria are disrupted into small fragments in less than 0.4 seconds, while the more robust elliptical P. pastoris yeast cells require around 1.0 second for complete lysis. Fluorescence intensity measurements and qRT-PCR analysis show that functionality of GFP and genomic DNA for downstream analytical assays is maintained.     

The roaming atom pathway in formaldehyde decomposition

We present a detailed experimental and theoretical investigation of formaldehyde photodissociation to H(2) and CO following excitation to the 2(1)4(1) and 2(1)4(3) transitions in S(1). The CO velocity distributions were obtained using dc slice imaging of single CO rotational states (v=0, j(CO)=5-45). These high-resolution measurements reveal the correlated internal state distribution in the H(2) cofragments. The results show that rotationally hot CO (j(CO) approximately 45) is produced in conjunction with vibrationally "cold" H(2) fragments (v=0-5): these products are formed through the well-known skewed transition state and described in detail in the accompanying paper. After excitation of formaldehyde above the threshold for the radical channel (H(2)CO-->H+HCO) we also find formation of rotationally cold CO (j(CO)=5-28) correlated to highly vibrationally excited H(2) (v=6-8). These products are formed through a novel mechanism that involves near dissociation followed by intramolecular H abstraction [D. Townsend et al., Science 306, 1158 (2004)], and that avoids the region of the transition state entirely. The dynamics of this "roaming" mechanism are the focus of this paper. The correlations between the vibrational states of H(2) and rotational states of CO formed following excitation on the 2(1)4(3) transition allow us to determine the relative contribution to molecular products from the roaming atom channel versus the conventional molecular channel.     

1B2(1Sigma(u)+) excited state decay dynamics in CS2

The authors report time resolved photoelectron spectra of the (1)B(2)((1)Sigma(u) (+)) state of CS(2) at pump wavelengths in the region of 200 nm. In contrast to previous studies, the authors find that the predissociation dynamics is not well described by a single exponential decay. Biexponential modeling of the authors' data reveals a rapid decay pathway (tau<50 fs), in addition to a longer lived channel (tau approximately 350-650 fs) that displays a marked change in apparent lifetime when the polarization of the pump laser is rotated with respect to that of the probe. Since the initially populated (1)B(2)((1)Sigma(u) (+)) state may decay to form either S((1)D) or S((3)P) products (the latter produced via a spin-orbit induced crossing from a singlet to a triplet electronic surface), this lifetime observation may be rationalized in terms of changes in the relative ionization cross section of these singlet and triplet states of CS(2) as a function of laser polarization geometry. The experimentally observed lifetime of the longer lived channel is therefore a superposition of these two pathways, both of which decay on very similar time scales.     

Common brain activations for painful and non-painful aversive stimuli

Background

Identification of potentially harmful stimuli is necessary for the well-being and self-preservation of all organisms. However, the neural substrates involved in the processing of aversive stimuli are not well understood. For instance, painful and non-painful aversive stimuli are largely thought to activate different neural networks. However, it is presently unclear whether there is a common aversion-related network of brain regions responsible for the basic processing of aversive stimuli. To help clarify this issue, this report used a cross-species translational approach in humans (i.e. meta-analysis) and rodents (i.e. systematic review of functional neuroanatomy).

Results

Animal and human data combined to show a core aversion-related network, consisting of similar cortical (i.e. MCC, PCC, AI, DMPFC, RTG, SMA, VLOFC; see results section or abbreviation section for full names) and subcortical (i.e. Amyg, BNST, DS, Hab, Hipp/Parahipp, Hyp, NAc, NTS, PAG, PBN, raphe, septal nuclei, Thal, LC, midbrain) regions. In addition, a number of regions appeared to be more involved in pain-related (e.g. sensory cortex) or non-pain-related (e.g. amygdala) aversive processing.

Conclusions

This investigation suggests that aversive processing, at the most basic level, relies on similar neural substrates, and that differential responses may be due, in part, to the recruitment of additional structures as well as the spatio-temporal dynamic activity of the network. This network perspective may provide a clearer understanding of why components of this circuit appear dysfunctional in some psychiatric and pain-related disorders.     

f-block MOFs: A Pathway to Heterometallic Transuranics

A novel series of heterometallic f-block-frameworks including the first examples of transuranic heterometallic ²³⁸U/²³⁹Pu-metal–organic frameworks (MOFs) and a novel monometallic ²³⁹Pu-analog are reported. In combination with theoretical calculations, we probed the kinetics and thermodynamics of heterometallic actinide(An)-MOF formation and reported the first value of a U-to-Th transmetallation rate. We concluded that formation of uranyl species could be a driving force for solid-state metathesis. Density of states near the Fermi edge, enthalpy of formation, band gap, proton affinity, and thermal/chemical stability were probed as a function of metal ratios. Furthermore, we achieved 97 % of the theoretical maximum capacity for An-integration. These studies shed light on fundamental aspects of actinide chemistry and also foreshadow avenues for the development of emerging classes of An-containing materials, including radioisotope thermoelectric generators or metalloradiopharmaceuticals.     

Fabrication procedures and process sensitivities for CdS/CdTe solar cells

This paper details the laboratory processes used to fabricate CdS/CdTe solar cells at the National Renewable Energy Laboratory. The basic fabrication technique includes low‐pressure chemical vapor deposited SnO₂ , chemical‐bath deposited CdS, close‐spaced sublimated CdTe, solution‐CdCl₂ treatment, and an acid‐contact etch, followed by application of a doped‐graphite paste. This paper also describes the results of a reproducibility study in which cells were produced by multiple operators with an average AM1·5 efficiency of 12·6%. And finally, this paper discusses process sensitivities and alternative cell fabrication procedures and reports the fabrication of a cell with an AM1·5 efficiency of 15·4%. Copyright © 1999 John Wiley & Sons, Ltd.     

Heteroatoms and substituent effects: The importance of heteroatom hyperconjugation

We have found that the specific rate of α‐sulfonyl carbanion formation in a β‐substituted sulfone shows a sizable dependence on the H C_α C_β X torsion angle. Defining k_N = (k_exch)_X/(k_exch)_model (where the model has X = H or an alkyl group) we observed for a collection of β‐alkoxy sulfones (X = OR) acceptable agreement with the expression log k_N = a + b cos² θ (where a = 1.70 and b = 2.62). Extension to other β‐substituents (X = RS, R₂N, and R₃N⁺) yields the same pattern, with the last showing very large dependence of k_N on the torsion angle (b = 6.3). These observations are ascribed to the presence (in addition to the inductive and field effects) of negative hyperconjugation responsible for accelerations of 1000‐fold and more, deriving from donation of the incipient negative charge on carbon into the σ*_{C X} orbital in the transition state. These observations reflect, and at the same time underline, the importance of the low‐lying antibonding orbitals present in heteroatomic molecules. © 2002 Wiley Periodicals, Inc. Heteroatom Chem 13:397–405, 2002; Published online in Wiley Interscience (www.interscience.wiley.com). DOI 10.1002/hc.10067     

High and low-energy proton radiation damage in p/n InP MOCVD solar cells

Indium phosphide p⁺/n/n⁺ solar cells, fabricated by metal organic chemical vapor deposition, were irradiated with 0.2-MeV and 10-MeV protons to a fluence of 10¹³ cm⁻². The power output degradation, 1-V behavior, carrier concentration and defect concentration were observed at intermediate points throughout the irradiations. The 0.2-MeV proton-irradiated solar cells suffered much greater and more rapid degradation in power output than those irradiated wit h 10 MeV protons. The efficiency losses were accompanied by larger increases in the recombination currents in the 0.2-MeV proton-irradiated solar cells. The low-energy proton irradiations also had a larger impact on the series resistance of the solar cell s. Despite the radiation-induced damage, the carrier concentration in the base of the solar cells showed no reduction after 10-MeV or 0.2-MeV proton irradiations and even increased during irradiation with 0.2-MeV protons. In a deep-level transient spectro scopy study of the irradiated samples, the minority carrier defects H4 and H5 at E_v + 0.33 and E_v + 0.52 eV and the majority carrier defects E7 and E10 at E_c − 0.39 and E_c − 0.74 eV were observed. Th e defect introduction rates for the 0.2-MeV proton irradiations were about 20 times higher than for the 10-MeV proton irradiations. The defect E10, observed here after irradiation, has been shown to act as a donor in irradiated n-type InP and may be responsible for obscuring carrier removal. The results of this study are consistent with the much greater damage produced by low-energy protons whose limited range causes them to stop in the active region of the solar cell. © This article is a US Government work and, as such, is in the public domain in the United States of America