Transcriptomic, Functional, and Network Analyses Reveal Novel Genes Involved in the Interaction between \u3ci\u3eCaenorhabditis elegans\u3c/i\u3e and \u3ci\u3eStenotrophomonas maltophilia\u3c/i\u3e

The bacterivorous nematode Caenorhabditis elegans is an excellent model for the study of innate immune responses to a variety of bacterial pathogens, including the emerging nosocomial bacterial pathogen Stenotrophomonas maltophilia. The study of this interaction has ecological and medical relevance as S. maltophilia is found in association with C. elegans and other nematodes in the wild and is an emerging opportunistic bacterial pathogen. We identified 393 genes that were differentially expressed when exposed to virulent and avirulent strains of S.maltophilia and an avirulent strain of E. coli. We then used a probabilistic functional gene network model (WormNet) to determine that 118 of the 393 differentially expressed genes formed an interacting network and identified a set of highly connected genes with eight or more predicted interactions.We hypothesized that these highly connected genes might play an important role in the defense against S. maltophila and found that mutations of six of seven highly connected genes have a significant effect on nematode survival in response to these bacteria. Of these genes, C48B4.1, mpk-2, cpr-4, clec-67, and lys-6 are needed for combating the virulent S. maltophilia JCMS strain, while dod-22 was solely involved in response to the avirulent S. maltophilia K279a strain. We further found that dod-22 and clec-67 were up regulated in response to JCMS vs. K279a, while C48B4.1, mpk-2, cpr-4, and lys-6 were down regulated. Only dod-22 had a documented role in innate immunity, which demonstrates the merit of our approach in the identification of novel genes that are involved in combating S. maltophilia infection

N-Methylmesoporphyrin IX Fluorescence As A Reporter Of Strand Orientation In Guanine Quadruplexes

Guanine quadruplexes (GQ) are four-stranded DNA structures formed by guanine-rich DNA sequences. The formation of GQs inhibits cancer cell growth, although the detection of GQs invivo has proven difficult, in part because of their structural diversity. The development of GQ-selective fluorescent reporters would enhance our ability to quantify the number and location of GQs, ultimately advancing biological studies of quadruplex relevance and function. N-methylmesoporphyrin IX (NMM) interacts selectively with parallel-stranded GQs; in addition, its fluorescence is sensitive to the presence of DNA, making this ligand a possible candidate for a quadruplex probe. In the present study, we investigated the effect of DNA secondary structure on NMM fluorescence. We found that NMM fluorescence increases by about 60-fold in the presence of parallel-stranded GQs and by about 40-fold in the presence of hybrid GQs. Antiparallel GQs lead to lower than 10-fold increases in NMM fluorescence. Single-stranded DNA, duplex, or i-motif, induce no change in NMM fluorescence. We conclude that NMM shows promise as a turn-on\u27 fluorescent probe for detecting quadruplex structures, as well as for differentiating them on the basis of strand orientation

Transcriptomic, Functional, and Network Analyses Reveal Novel Genes Involved in the Interaction Between Caenorhabditis elegans and Stenotrophomonas maltophilia

The bacterivorous nematode Caenorhabditis elegans is an excellent model for the study of innate immune responses to a variety of bacterial pathogens, including the emerging nosocomial bacterial pathogen Stenotrophomonas maltophilia. The study of this interaction has ecological and medical relevance as S. maltophilia is found in association with C. elegans and other nematodes in the wild and is an emerging opportunistic bacterial pathogen. We identified 393 genes that were differentially expressed when exposed to virulent and avirulent strains of S. maltophilia and an avirulent strain of E. coli. We then used a probabilistic functional gene network model (WormNet) to determine that 118 of the 393 differentially expressed genes formed an interacting network and identified a set of highly connected genes with eight or more predicted interactions. We hypothesized that these highly connected genes might play an important role in the defense against S. maltophila and found that mutations of six of seven highly connected genes have a significant effect on nematode survival in response to these bacteria. Of these genes, C48B4.1, mpk-2, cpr-4, clec-67, and lys-6 are needed for combating the virulent S. maltophilia JCMS strain, while dod-22 was solely involved in response to the avirulent S. maltophilia K279a strain. We further found that dod-22 and clec-67 were up regulated in response to JCMS vs. K279a, while C48B4.1, mpk-2, cpr-4, and lys-6 were down regulated. Only dod-22 had a documented role in innate immunity, which demonstrates the merit of our approach in the identification of novel genes that are involved in combating S. maltophilia infection

FXR1 Is an IL-19-Responsive RNA-Binding Protein that Destabilizes Pro-inflammatory Transcripts in Vascular Smooth Muscle Cells

This work identifies the fragile-X-related protein (FXR1) as a reciprocal regulator of HuR target transcripts in vascular smooth muscle cells (VSMCs). FXR1 was identified as an HuR-interacting protein by liquid chromatography-tandem mass spectrometry (LC-MS/MS). The HuR-FXR1 interaction is abrogated in RNase-treated extracts, indicating that their association is tethered by mRNAs. FXR1 expression is induced in diseased but not normal arteries. siRNA knockdown of FXR1 increases the abundance and stability of inflammatory mRNAs, while overexpression of FXR1 reduces their abundance and stability. Conditioned media from FXR1 siRNA-treated VSMCs enhance activation of naive VSMCs. RNA EMSA and RIP demonstrate that FXR1 interacts with an ARE and an element in the 3′ UTR of TNFα. FXR1 expression is increased in VSMCs challenged with the anti-inflammatory cytokine IL-19, and FXR1 is required for IL-19 reduction of HuR. This suggests that FXR1 is an anti-inflammation responsive, HuR counter-regulatory protein that reduces abundance of pro-inflammatory transcripts

Advanced Colloids Experiment (Temperature Controlled) ACE-T5

The attached will be presented at the JSC Science Symposium as a preview of the ACE-T5 flight experiment. The Principal Investigator (PI) for this experiment is Professor Ali Mohraz at the University of California - Irvine.Bijels (bicontinuous interfacially jammed emulsion gels) were discovered in 2007 at the University of Edinburgh. These materials feature a tubular, bicontinuous arrangement of two fluid phases separated by a monolayer of jammed colloidal particles at the interface.Because of their unique morphological characteristics, bijels hold significant promise as next-generation materials for energy and biotechnology applications. But in order to fully realize their potential, their physics and mechanical properties must be better understood. The mechanical properties and stability of bijels is mediated by an interplay between interfacial forces that impart elasticity to the system, and external stresses. Unfortunately, the interfacial forces are inherently coupled with density differences and cannot be studied systematically in the presence of gravity

The Zel'dovich effect and evolution of atomic Rydberg spectra along the Periodic Table

In 1959 Ya. B. Zel'dovich predicted that the bound-state spectrum of the non-relativistic Coulomb problem distorted at small distances by a short-range potential undergoes a peculiar reconstruction whenever this potential alone supports a low-energy scattering resonance. However documented experimental evidence of this effect has been lacking. Previous theoretical studies of this phenomenon were confined to the regime where the range of the short-ranged potential is much smaller than Bohr's radius of the Coulomb field. We go beyond this limitation by restricting ourselves to highly-excited s states. This allows us to demonstrate that along the Periodic Table of elements the Zel'dovich effect manifests itself as systematic periodic variation of the Rydberg spectra with a period proportional to the cubic root of the atomic number. This dependence, which is supported by analysis of experimental and numerical data, has its origin in the binding properties of the ionic core of the atom.Comment: 17 pages, 12 figure

Site 503: Eastern Equatorial Pacific

Our primary objective at Site 503 (Fig. 1) was to re- cover a complete, undisturbed Neogene and Quaternary section in the eastern equatorial Pacific. Site 503 is located near Site 83 in an area that contains an almost continuous pelagic record of the past 10 m.y. (Hays et al., 1972). Unfortunately, Site 83 was only spot-cored, and the recovered sediment is so badly disturbed by rotary drilling that most of the detailed record is lost. The section has an average sedimentation rate of 2.0 to 2.5 cm/k.y. with good-to-moderate preservation of all the major microfossil groups. We returned to Site 83 to core the same section, using the Hydraulic Piston Corer (HPC) to obtain an undisturbed, continuous section for high-resolution stratigraphic studies

Site 502: Colombia Basin, Western Caribbean

Our specific objective at Site 502 was to recover an undisturbed, complete section that could be used as a Neogene and Quaternary reference section. A complete record such as this would allow intercorrelations between (1) paleomagnetic stratigraphy, (2) calcareous biostratigraphy, (3) cyclic accumulation of sediment, (4) paleoceanographic changes, (5) oxygen and carbon isotope stratigraphies, (6) the chronology of Central American volcanism, (7) the timing and effects of the emergence of the Isthmus of Panama, and (8) the timing and effects of the initiation of Northern Hemisphere glaciation

Progress in Micro Joule-Thomson Cooling at Twente University

At the University of Twente, research on the development of a sorption-based micro cooler is in progress. Because of the absence of moving parts, such a cooler is virtually vibration free and highly durable, which potentially results in a long lifetime. A miniature cryogenic cooler with these properties would be appealing in a wide variety of applications including the cooling of vibration-sensitive detectors in space missions, low-noise amplifiers and semi- and superconducting circuitry. The objective of the present project is to scale down a Joule-Thomson (JT) cold stage to a total volume of a few hundredths of a cm3. This size reduction introduces many problems. The proposed cold stage volume results in a restriction cross-sectional area of about a thousandth of a mm2 which may cause clogging problems. Flow channels with a cross-sectional area of a few hundredths of a mm2 will produce high pressure drops influencing the JT cycle. Furthermore, the micro channels must be capable of withstanding high pressures and maintaining a large temperature gradient over a relatively short length. The project aim is to develop a reliable micro JT cold stage that is fabricated out of one material with a relatively simple and reproducible fabrication method. The length of the cold stage is calculated at about 20 mm with a width of 1.7 mm and height of about 0.3 mm. The mass flow is in the order of one mg per second to create a net cooling power of 10 mW at 96 K. The final objective of the project is to integrate the cold stage, vacuum chamber and device into one compact design. This paper discusses possible solutions to the problems mentioned and presents a concept design of such a miniature JT cold stage

Intelligence within BAOR and NATO's Northern Army Group

During the Cold War the UK's principal military role was its commitment to the North Atlantic Treaty Organisation (NATO) through the British Army of the Rhine (BAOR), together with wartime command of NATO's Northern Army Group. The possibility of a surprise attack by the numerically superior Warsaw Pact forces ensured that great importance was attached to intelligence, warning and rapid mobilisation. As yet we know very little about the intelligence dimension of BAOR and its interface with NATO allies. This article attempts to address these neglected issues, ending with the impact of the 1973 Yom Kippur War upon NATO thinking about warning and surprise in the mid-1970s. It concludes that the arrangements made by Whitehall for support to BAOR from national assets during crisis or transition to war were - at best - improbable. Accordingly, over the years, BAOR developed its own unique assets in the realm of both intelligence collection and special operations in order to prepare for the possible outbreak of conflict