Biomimetic synthesis of struvite with biogenic morphology and implication for pathological biomineralization

published_or_final_versio

P-wave Quarkonium Decays to Meson Pairs

The processes of P-wave Quarkonium exclusive decays to two mesons are investigated, in which the final state vector mesons with various polarizations are considered separately. In the calculation, the initial heavy quarkonia are treated in the framework of non-relativistic quantum chromodynamics, whereas for light mesons, the light cone distribution amplitudes up to twist-3 are employed. It turns out that the higher twist contribution is significant and provides a possible explanation for the observation of the hadron helicity selection rule violated processes $\chi_{c1}\rightarrow \phi\phi,\omega\omega$ by the BESIII collaboration in recently. We also evaluate the $\chi_{b1}\to J/\psi J/\psi$ process and find that its branching ratio is big enough to be measured at the B-factories.Comment: more results and discussions adde

Biomineralization mediated by anaerobic methane-consuming cell consortia

published_or_final_versio

Deformation of the Fermi surface in the extended Hubbard model

The deformation of the Fermi surface induced by Coulomb interactions is investigated in the t-t'-Hubbard model. The interplay of the local U and extended V interactions is analyzed. It is found that exchange interactions V enhance small anisotropies producing deformations of the Fermi surface which break the point group symmetry of the square lattice at the Van Hove filling. This Pomeranchuck instability competes with ferromagnetism and is suppressed at a critical value of U(V). The interaction V renormalizes the t' parameter to smaller values what favours nesting. It also induces changes on the topology of the Fermi surface which can go from hole to electron-like what may explain recent ARPES experiments.Comment: 5 pages, 4 ps figure

Protein interactions in Xenopus germ plasm RNP particles

Hermes is an RNA-binding protein that we have previously reported to be found in the ribonucleoprotein (RNP) particles of Xenopus germ plasm, where it is associated with various RNAs, including that encoding the germ line determinant Nanos1. To further define the composition of these RNPs, we performed a screen for Hermes-binding partners using the yeast two-hybrid system. We have identified and validated four proteins that interact with Hermes in germ plasm: two isoforms of Xvelo1 (a homologue of zebrafish Bucky ball) and Rbm24b and Rbm42b, both RNA-binding proteins containing the RRM motif. GFP-Xvelo fusion proteins and their endogenous counterparts, identified with antisera, were found to localize with Hermes in the germ plasm particles of large oocytes and eggs. Only the larger Xvelo isoform was naturally found in the Balbiani body of previtellogenic oocytes. Bimolecular fluorescence complementation (BiFC) experiments confirmed that Hermes and the Xvelo variants interact in germ plasm, as do Rbm24b and 42b. Depletion of the shorter Xvelo variant with antisense oligonucleotides caused a decrease in the size of germ plasm aggregates and loosening of associated mitochondria from these structures. This suggests that the short Xvelo variant, or less likely its RNA, has a role in organizing and maintaining the integrity of germ plasm in Xenopus oocytes. While GFP fusion proteins for Rbm24b and 42b did not localize into germ plasm as specifically as Hermes or Xvelo, BiFC analysis indicated that both interact with Hermes in germ plasm RNPs. They are very stable in the face of RNA depletion, but additive effects of combinations of antisense oligos suggest they may have a role in germ plasm structure and may influence the ability of Hermes protein to effectively enter RNP particles

Minimizing Acquisition Maximizing Inference -- A demonstration on print error detection

Is it possible to detect a feature in an image without ever looking at it? Images are known to have sparser representation in Wavelets and other similar transforms. Compressed Sensing is a technique which proposes simultaneous acquisition and compression of any signal by taking very few random linear measurements (M). The quality of reconstruction directly relates with M, which should be above a certain threshold for a reliable recovery. Since these measurements can non-adaptively reconstruct the signal to a faithful extent using purely analytical methods like Basis Pursuit, Matching Pursuit, Iterative thresholding, etc., we can be assured that these compressed samples contain enough information about any relevant macro-level feature contained in the (image) signal. Thus if we choose to deliberately acquire an even lower number of measurements - in order to thwart the possibility of a comprehensible reconstruction, but high enough to infer whether a relevant feature exists in an image - we can achieve accurate image classification while preserving its privacy. Through the print error detection problem, it is demonstrated that such a novel system can be implemented in practise

Influenza nucleoprotein delivered with aluminium salts protects mice from an influenza virus that expresses an altered nucleoprotein sequence

Influenza virus poses a difficult challenge for protective immunity. This virus is adept at altering its surface proteins, the proteins that are the targets of neutralizing antibody. Consequently, each year a new vaccine must be developed to combat the current recirculating strains. A universal influenza vaccine that primes specific memory cells that recognise conserved parts of the virus could prove to be effective against both annual influenza variants and newly emergent potentially pandemic strains. Such a vaccine will have to contain a safe and effective adjuvant that can be used in individuals of all ages. We examine protection from viral challenge in mice vaccinated with the nucleoprotein from the PR8 strain of influenza A, a protein that is highly conserved across viral subtypes. Vaccination with nucleoprotein delivered with a universally used and safe adjuvant, composed of insoluble aluminium salts, provides protection against viruses that either express the same or an altered version of nucleoprotein. This protection correlated with the presence of nucleoprotein specific CD8 T cells in the lungs of infected animals at early time points after infection. In contrast, immunization with NP delivered with alum and the detoxified LPS adjuvant, monophosphoryl lipid A, provided some protection to the homologous viral strain but no protection against infection by influenza expressing a variant nucleoprotein. Together, these data point towards a vaccine solution for all influenza A subtypes

Thermal width and gluo-dissociation of quarkonium in pNRQCD

The thermal width of heavy-quarkonium bound states in a quark-gluon plasma has been recently derived in an effective field theory approach. Two phenomena contribute to the width: the Landau damping phenomenon and the break-up of a colour-singlet bound state into a colour-octet heavy quark-antiquark pair by absorption of a thermal gluon. In the paper, we investigate the relation between the singlet-to-octet thermal break-up and the so-called gluo-dissociation, a mechanism for quarkonium dissociation widely used in phenomenological approaches. The gluo-dissociation thermal width is obtained by convoluting the gluon thermal distribution with the cross section of a gluon and a 1S quarkonium state to a colour octet quark-antiquark state in vacuum, a cross section that at leading order, but neglecting colour-octet effects, was computed long ago by Bhanot and Peskin. We will, first, show that the effective field theory framework provides a natural derivation of the gluo-dissociation factorization formula at leading order, which is, indeed, the singlet-to-octet thermal break-up expression. Second, the singlet-to-octet thermal break-up expression will allow us to improve the Bhanot--Peskin cross section by including the contribution of the octet potential, which amounts to include final-state interactions between the heavy quark and antiquark. Finally, we will quantify the effects due to final-state interactions on the gluo-dissociation cross section and on the quarkonium thermal width.Comment: 17 pages, 6 figure

Structural basis for CRISPR RNA-guided DNA recognition by Cascade

The CRISPR (clustered regularly interspaced short palindromic repeats) immune system in prokaryotes uses small guide RNAs to neutralize invading viruses and plasmids. In Escherichia coli, immunity depends on a ribonucleoprotein complex called Cascade. Here we present the composition and low-resolution structure of Cascade and show how it recognizes double-stranded DNA (dsDNA) targets in a sequence-specific manner. Cascade is a 405-kDa complex comprising five functionally essential CRISPR-associated (Cas) proteins (CasA1B2C6D1E1) and a 61-nucleotide CRISPR RNA (crRNA) with 5′-hydroxyl and 2′,3′-cyclic phosphate termini. The crRNA guides Cascade to dsDNA target sequences by forming base pairs with the complementary DNA strand while displacing the noncomplementary strand to form an R-loop. Cascade recognizes target DNA without consuming ATP, which suggests that continuous invader DNA surveillance takes place without energy investment. The structure of Cascade shows an unusual seahorse shape that undergoes conformational changes when it binds target DNA.

Gauge gravity duality for d-wave superconductors: prospects and challenges

We write down an action for a charged, massive spin two field in a fixed Einstein background. Despite some technical problems, we argue that in an effective field theory framework and in the context of the AdS/CFT correspondence, this action can be used to study the properties of a superfluid phase transition with a d-wave order parameter in a dual strongly interacting field theory. We investigate the phase diagram and the charge conductivity of the superfluid phase. We also explain how possible couplings between the spin two field and bulk fermions affect the fermion spectral function.Comment: 42 pages, 6 figure