Computing A Glimpse of Randomness

A Chaitin Omega number is the halting probability of a universal Chaitin (self-delimiting Turing) machine. Every Omega number is both computably enumerable (the limit of a computable, increasing, converging sequence of rationals) and random (its binary expansion is an algorithmic random sequence). In particular, every Omega number is strongly non-computable. The aim of this paper is to describe a procedure, which combines Java programming and mathematical proofs, for computing the exact values of the first 64 bits of a Chaitin Omega: 0000001000000100000110001000011010001111110010111011101000010000. Full description of programs and proofs will be given elsewhere.Comment: 16 pages; Experimental Mathematics (accepted

Electroweak Beautygenesis: From b {\to} s CP-violation to the Cosmic Baryon Asymmetry

We address the possibility that CP-violation in $B_s-\bar B_s$ mixing may help explain the origin of the cosmic baryon asymmetry. We propose a new baryogenesis mechanism - "Electroweak Beautygenesis" - explicitly showing that these two CP-violating phenomena can be sourced by a common CP-phase. As an illustration, we work in the Two-Higgs-Doublet model. Because the relevant CP-phase is flavor off-diagonal, this mechanism is less severely constrained by null results of electric dipole moment searches than other scenarios. We show how measurements of flavor observables by the D0, CDF, and LHCb collaborations test this scenario.Comment: 4 pages, 1 figure, 1 tabl

Expression of transmembrane carbonic anhydrases, CAIX and CAXII, in human development

Background: Transmembrane CAIX and CAXII are members of the alpha carbonic anhydrase (CA) family. They play a crucial role in differentiation, proliferation, and pH regulation. Expression of CAIX and CAXII proteins in tumor tissues is primarily induced by hypoxia and this is particularly true for CAIX, which is regulated by the transcription factor, hypoxia inducible factor-1 (HIF-1). Their distributions in normal adult human tissues are restricted to highly specialized cells that are not always hypoxic. The human fetus exists in a relatively hypoxic environment. We examined expression of CAIX, CAXII and HIF-1 alpha in the developing human fetus and postnatal tissues to determine whether expression of CAIX and CAXII is exclusively regulated by HIF-1. Results: The co-localization of CAIX and HIF-1 alpha was limited to certain cell types in embryonic and early fetal tissues. Those cells comprised the primitive mesenchyma or involved chondrogenesis and skin development. Transient CAIX expression was limited to immature tissues of mesodermal origin and the skin and ependymal cells. The only tissues that persistently expressed CAIX protein were coelomic epithelium (mesothelium) and its remnants, the epithelium of the stomach and biliary tree, glands and crypt cells of duodenum and small intestine, and the cells located at those sites previously identified as harboring adult stem cells in, for example, the skin and large intestine. In many instances co-localization of CAIX and HIF-1 alpha was not evident. CAXII expression is restricted to cells involved in secretion and water absorption such as parietal cells of the stomach, acinar cells of the salivary glands and pancreas, epithelium of the large intestine, and renal tubules. Co-localization of CAXII with CAIX or HIF-1 alpha was not observed. Conclusion: The study has showed that: 1) HIF-1 alpha and CAIX expression co-localized in many, but not all, of the embryonic and early fetal tissues; 2) There is no evidence of co-localization of CAIX and CAXII; 3) CAIX and CAXII expression is closely related to cell origin and secretory activity involving proton transport, respectively. The intriguing finding of rare CAIX-expressing cells in those sites corresponding to stem cell niches requires further investigation

Positive allosteric modulation as a potential therapeutic strategy in anti-NMDA receptor encephalitis

N-methyl-d-aspartate receptors (NMDARs) are ionotropic glutamate receptors important for synaptic plasticity, memory, and neuropsychiatric health. NMDAR hypofunction contributes to multiple disorders, including anti-NMDAR encephalitis (NMDARE), an autoimmune disease of the CNS associated with GluN1 antibody-mediated NMDAR internalization. Here we characterize the functional/pharmacological consequences of exposure to CSF from female human NMDARE patients on NMDAR function, and we characterize the effects of intervention with recently described positive allosteric modulators (PAMs) of NMDARs. Incubation (48 h) of rat hippocampal neurons of both sexes in confirmed NMDARE patient CSF, but not control CSF, attenuated NMDA-induced current. Residual NMDAR function was characterized by lack of change in channel open probability, indiscriminate loss of synaptic and extrasynaptic NMDARs, and indiscriminate loss of GluN2B-containing and GluN2B-lacking NMDARs. NMDARs tagged with N-terminal pHluorin fluorescence demonstrated loss of surface receptors. Thus, function of residual NMDARs following CSF exposure was indistinguishable from baseline, and deficits appear wholly accounted for by receptor loss. Coapplication of CSF and PAMs of NMDARs (SGE-301 or SGE-550, oxysterol-mimetic) for 24 h restored NMDAR function following 24 h incubation in patient CSF. Curiously, restoration of NMDAR function was observed despite washout of PAMs before electrophysiological recordings. Subsequent experiments suggested that residual allosteric potentiation of NMDAR function explained the persistent rescue. Further studies of the pathogenesis of NMDARE and intervention with PAMs may inform new treatments for NMDARE and other disorders associated with NMDAR hypofunction.SIGNIFICANCE STATEMENTAnti-N-methyl-d-aspartate receptor encephalitis (NMDARE) is increasingly recognized as an important cause of sudden-onset psychosis and other neuropsychiatric symptoms. Current treatment leaves unmet medical need. Here we demonstrate cellular evidence that newly identified positive allosteric modulators of NMDAR function may be a viable therapeutic strategy.</jats:p

Kinetics of the thermal decomposition of cellulose in sealed vessels at elevated pressures : Effects of the presence of water on the reaction mechanism

The thermal decomposition of Avicel cellulose was studied by non-isothermal differential scanning calorimetry in hermetically sealed sample holders. The experimental results, which were published earlier, showed a marked catalytic effect of the water on the cellulose decomposition. Here we propose a reaction scheme containing two rate determining reactions to describe the result. The corresponding model resulted in a good fit between the experimental and the calculated data. The results indicate that the reaction starts with cellulose hydrolysis which may be followed immediately by decomposition reactions to intermediate products. The intermediates undergo further water catalyzed decomposition reactions giving char, water and gases. The results may help to understand biomass pyrolysis under experimental or industrial conditions where the thickness of the layer, the size of particles or the enclosure of the reactor keeps part of the water vapors formed during the reaction in the pores or between the particles of the decomposing material

Magnetic Interactions in Pre-main-sequence Binaries

Young stars typically have strong magnetic fields, so that the magnetospheres of newly formed close binaries can interact, dissipate energy, and produce synchrotron radiation. The V773 Tau A binary system, a pair of T Tauri stars with a 51 day orbit, displays such a signature, with peak emission taking place near periastron. This paper proposes that the observed emission arises from the change in energy stored in the composite magnetic field of the system. We model the fields using the leading order (dipole) components and show that this picture is consistent with current observations. In this model, the observed radiation accounts for a fraction of the available energy of interaction between the magnetic fields from the two stars. Assuming antisymmetry, we compute the interaction energy E int as a function of the stellar radii, the stellar magnetic field strengths, the binary semimajor axis, and orbital eccentricity, all of which can be measured independently of the synchrotron radiation. The variability in time and energetics of the synchrotron radiation depend on the details of the annihilation of magnetic fields through reconnection events, which generate electric fields that accelerate charged particles, and how those charged particles, especially fast electrons, are removed from the interaction region. However, the major qualitative features are well described by the background changes in the global magnetic configuration driven by the orbital motion. The theory can be tested by observing a collection of pre-main-sequence binary systems.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/90771/1/0004-637X_743_2_175.pd

Co-evolution of two GTPases enables efficient protein targeting in an RNA-less chloroplast Signal Recognition Particle pathway

The signal recognition particle (SRP) is an essential ribonucleoprotein particle that mediates the co-translational targeting of newly synthesized proteins to cellular membranes. The SRP RNA is a universally conserved component of SRP that mediates key interactions between two GTPases in SRP and its receptor, thus enabling rapid delivery of cargo to the target membrane. Notably, this essential RNA is bypassed in the chloroplast (cp) SRP of green plants. Previously, we showed that the cpSRP and cpSRP receptor GTPases (cpSRP54 and cpFtsY, respectively) interact efficiently by themselves without the SRP RNA. Here, we explore the molecular mechanism by which this is accomplished. Fluorescence analyses showed that, in the absence of SRP RNA, the M-domain of cpSRP54 both accelerates and stabilizes complex assembly between cpSRP54 and cpFtsY. Cross-linking coupled with mass spectrometry and mutational analyses identified a new interaction between complementarily charged residues on the cpFtsY G-domain and the vicinity of the cpSRP54 M-domain. These residues are specifically conserved in plastids, and their evolution coincides with the loss of SRP RNA in green plants. These results provide an example of how proteins replace the functions of RNA during evolution

Comparative mitogenomics of Braconidae (Insecta: Hymenoptera) and the phylogenetic utility of mitochondrial genomes with special reference to Holometabolous insects

<p>Abstract</p> <p>Background</p> <p>Animal mitochondrial genomes are potential models for molecular evolution and markers for phylogenetic and population studies. Previous research has shown interesting features in hymenopteran mitochondrial genomes. Here, we conducted a comparative study of mitochondrial genomes of the family Braconidae, one of the largest families of Hymenoptera, and assessed the utility of mitochondrial genomic data for phylogenetic inference at three different hierarchical levels, i.e., Braconidae, Hymenoptera, and Holometabola.</p> <p>Results</p> <p>Seven mitochondrial genomes from seven subfamilies of Braconidae were sequenced. Three of the four sequenced A+T-rich regions are shown to be inverted. Furthermore, all species showed reversal of strand asymmetry, suggesting that inversion of the A+T-rich region might be a synapomorphy of the Braconidae. Gene rearrangement events occurred in all braconid species, but gene rearrangement rates were not taxonomically correlated. Most rearranged genes were tRNAs, except those of <it>Cotesia vestalis</it>, in which 13 protein-coding genes and 14 tRNA genes changed positions or/and directions through three kinds of gene rearrangement events. Remote inversion is posited to be the result of two independent recombination events. Evolutionary rates were lower in species of the cyclostome group than those of noncyclostomes. Phylogenetic analyses based on complete mitochondrial genomes and secondary structure of <it>rrnS </it>supported a sister-group relationship between Aphidiinae and cyclostomes. Many well accepted relationships within Hymenoptera, such as paraphyly of Symphyta and Evaniomorpha, a sister-group relationship between Orussoidea and Apocrita, and monophyly of Proctotrupomorpha, Ichneumonoidea and Aculeata were robustly confirmed. New hypotheses, such as a sister-group relationship between Evanioidea and Aculeata, were generated. Among holometabolous insects, Hymenoptera was shown to be the sister to all other orders. Mecoptera was recovered as the sister-group of Diptera. Neuropterida (Neuroptera + Megaloptera), and a sister-group relationship with (Diptera + Mecoptera) were supported across all analyses.</p> <p>Conclusions</p> <p>Our comparative studies indicate that mitochondrial genomes are a useful phylogenetic tool at the ordinal level within Holometabola, at the superfamily within Hymenoptera and at the subfamily level within Braconidae. Variation at all of these hierarchical levels suggests that the utility of mitochondrial genomes is likely to be a valuable tool for systematics in other groups of arthropods.</p