Investigating hookworm genomes by comparative analysis of two Ancylostoma species

Background Hookworms, infecting over one billion people, are the mostly closely related major human parasites to the model nematode Caenorhabditis elegans. Applying genomics techniques to these species, we analyzed 3,840 and 3,149 genes from Ancylostoma caninum and A. ceylanicum. Results Transcripts originated from libraries representing infective L3 larva, stimulated L3, arrested L3, and adults. Most genes are represented in single stages including abundant transcripts like hsp-20 in infective L3 and vit-3 in adults. Over 80% of the genes have homologs in C. elegans, and nearly 30% of these were with observable RNA interference phenotypes. Homologies were identified to nematode-specific and clade V specific gene families. To study the evolution of hookworm genes, 574 A. caninum / A. ceylanicum orthologs were identified, all of which were found to be under purifying selection with distribution ratios of nonsynonymous to synonymous amino acid substitutions similar to that reported for C. elegans / C. briggsae orthologs. The phylogenetic distance between A. caninum and A. ceylanicum is almost identical to that for C. elegans / C. briggsae. Conclusion The genes discovered should substantially accelerate research toward better understanding of the parasites' basic biology as well as new therapies including vaccines and novel anthelmintics

1D vs. 2D shape selectivity in the crystallization-driven self-assembly of polylactide block copolymers

yes2D materials such as graphene, LAPONITE® clays or molybdenum disulfide nanosheets are of extremely high interest to the materials community as a result of their high surface area and controllable surface properties. While several methods to access 2D inorganic materials are known, the investigation of 2D organic nanomaterials is less well developed on account of the lack of ready synthetic accessibility. Crystallization-driven self-assembly (CDSA) has become a powerful method to access a wide range of complex but precisely-defined nanostructures. The preparation of 2D structures, however, particularly those aimed towards biomedical applications, is limited, with few offering biocompatible and biodegradable characteristics as well as control over self-assembly in two dimensions. Herein, in contrast to conventional self-assembly rules, we show that the solubility of polylactide (PLLA)-based amphiphiles in alcohols results in unprecedented shape selectivity based on unimer solubility. We use log Poct analysis to drive solvent selection for the formation of large uniform 2D diamond-shaped platelets, up to several microns in size, using long, soluble coronal blocks. By contrast, less soluble PLLA-containing block copolymers yield cylindrical micelles and mixed morphologies. The methods developed in this work provide a simple and consistently reproducible protocol for the preparation of well-defined 2D organic nanomaterials, whose size and morphology are expected to facilitate potential applications in drug delivery, tissue engineering and in nanocomposites.University of Warwick, Materials GRP, EPSRC, The Royal Society, ER

Cut Vertices and Semi-Inclusive Deep Inelastic Processes

Cut vertices, a generalization of matrix elements of local operators, are revisited, and an expansion in terms of minimally subtracted cut vertices is formulated. An extension of the formalism to deal with semi-inclusive deep inelastic processes in the target fragmentation region is explicitly constructed. The problem of factorization is discussed in detail.Comment: LaTex2e, 24 pages including 17 postscript figure

Ecological speciation in sympatric palms: 2. Pre- and post-zygotic isolation

We evaluated reproductive isolation in two species of palms (Howea) that have evolved sympatrically on Lord Howe Island (LHI, Australia). We estimated the strength of some pre- and post-zygotic mechanisms in maintaining current species boundaries. We found that flowering time displacement between species is consistent across in and ex situ common gardens and is thus partly genetically determined. On LHI, pre-zygotic isolation due solely to flowering displacement was 97% for Howea belmoreana and 80% for H. forsteriana; this asymmetry results from H. forsteriana flowering earlier than H. belmoreana and being protandrous. As expected, only a few hybrids (here confirmed by genotyping) at both juvenile and adult stages could be detected in two sites on LHI, in which the two species grow intermingled (the Far Flats) or adjacently (Transit Hill). Yet, the distribution of hybrids was different between sites. At Transit Hill, we found no hybrid adult trees, but 13.5% of younger palms examined there were of late hybrid classes. In contrast, we found four hybrid adult trees, mostly of late hybrid classes, and only one juvenile F1 hybrid in the Far Flats. This pattern indicates that selection acts against hybrids between the juvenile and adult stages. An in situ reciprocal seed transplant between volcanic and calcareous soils also shows that early fitness components (up to 36 months) were affected by species and soil. These results are indicative of divergent selection in reproductive isolation, although it does not solely explain the current distribution of the two species on LHI

The incorporation of matter into characteristic numerical relativity

A code that implements Einstein equations in the characteristic formulation in 3D has been developed and thoroughly tested for the vacuum case. Here, we describe how to incorporate matter, in the form of a perfect fluid, into the code. The extended code has been written and validated in a number of cases. It is stable and capable of contributing towards an understanding of a number of problems in black hole astrophysics.Comment: 15 pages + 4 (eps) figure

Infinite temperature limit of meson spectral functions calculated on the lattice

We analyze the cut-off dependence of mesonic spectral functions calculated at finite temperature on Euclidean lattices with finite temporal extent. In the infinite temperature limit we present analytic results for lattice spectral functions calculated with standard Wilson fermions as well as a truncated perfect action. We explicitly determine the influence of `Wilson doublers' on the high momentum structure of the mesonic spectral functions and show that this cut-off effect is strongly suppressed when using an improved fermion action.Comment: 25 pages, 8 figure

Nuclear Flow Excitation Function

We consider the dependence of collective flow on the nuclear surface thickness in a Boltzmann--Uehling--Uhlenbeck transport model of heavy ion collisions. Well defined surfaces are introduced by giving test particles a Gaussian density profile of constant width. Zeros of the flow excitation function are as much influenced by the surface thickness as the nuclear equation of state, and the dependence of this effect is understood in terms of a simple potential scattering model. Realistic calculations must also take into account medium effects for the nucleon--nucleon cross section, and impact parameter averaging. We find that balance energy scales with the mass number as $A^{-y}$, where $y$ has a numerical value between 0.35 and 0.5, depending on the assumptions about the in-medium nucleon-nucleon cross section.Comment: 11 pages (LaTeX), 7 figures (not included), MSUCL-884, WSU-NP-93-

Estimates for parameters and characteristics of the confining SU(3)-gluonic field in neutral kaons and chiral limit for pseudoscalar nonet

First part of the paper is devoted to applying the confinement mechanism proposed earlier by the author to estimate the possible parameters of the confining SU(3)-gluonic field in neutral kaons. The estimates obtained are consistent with the widths of the electromagnetic decays $K^0,\bar{K}^0\to2\gamma$ too. The corresponding estimates of the gluon concentrations, electric and magnetic colour field strengths are also adduced for the mentioned field at the scales of the mesons under consideration. The second part of the paper takes into account the results obtained previously by the author to estimate the purely gluonic contribution to the masses of all the mesons of pseudoscalar nonet and also to consider a possible relation with a phenomenological string-like picture of confinement. Finally, the problem of masses in particle physics is shortly discussed within the framework of approach to the chiral symmetry breaking in quantum chromodynamics (QCD) proposed recently by the author.Comment: LaTeX, 16 pages, 2 figure

Nonperturbative Description of Deep Inelastic Structure Functions in Light-Front QCD

We explore the deep inelastic structure functions of hadrons nonperturbatively in an inverse power expansion of the light-front energy of the probe in the framework of light-front QCD. We arrive at the general expressions for various structure functions as the Fourier transform of matrix elements of different components of bilocal vector and axial vector currents on the light-front in a straightforward manner. The complexities of the structure functions are mainly carried by the multi-parton wave functions of the hadrons, while, the bilocal currents have a dynamically dependent yet simple structure on the light-front in this description. We also present a novel analysis of the power corrections based on light-front power counting which resolves some ambiguities of the conventional twist analysis in deep inelastic processes. Further, the factorization theorem and the scale evolution of the structure functions are presented in this formalism by using old-fashioned light-front time-ordered perturbation theory with multi-parton wave functions. Nonperturbative QCD dynamics underlying the structure functions can be explored in the same framework. Once the nonperturbative multi-parton wave functions are known from low-energy light-front QCD, a complete description of deep inelastic structure functions can be realized.Comment: Revtex, 30 pages and no figur

Towards a collaborative, global infrastructure for biodiversity assessment

Biodiversity data are rapidly becoming available over the Internet in common formats that promote sharing and exchange. Currently, these data are somewhat problematic, primarily with regard to geographic and taxonomic accuracy, for use in ecological research, natural resources management and conservation decision-making. However, web-based georeferencing tools that utilize best practices and gazetteer databases can be employed to improve geographic data. Taxonomic data quality can be improved through web-enabled valid taxon names databases and services, as well as more efficient mechanisms to return systematic research results and taxonomic misidentification rates back to the biodiversity community. Both of these are under construction. A separate but related challenge will be developing web-based visualization and analysis tools for tracking biodiversity change. Our aim was to discuss how such tools, combined with data of enhanced quality, will help transform today's portals to raw biodiversity data into nexuses of collaborative creation and sharing of biodiversity knowledge