The cuticle

The nematode cuticle is an extremely flexible and resilient exoskeleton that permits locomotion via attachment to muscle, confers environmental protection and allows growth by molting. It is synthesised five times, once in the embryo and subsequently at the end of each larval stage prior to molting. It is a highly structured extra-cellular matrix (ECM), composed predominantly of cross-linked collagens, additional insoluble proteins termed cuticlins, associated glycoproteins and lipids. The cuticle collagens are encoded by a large gene family that are subject to strict patterns of temporal regulation. Cuticle collagen biosynthesis involves numerous co- and post-translational modification, processing, secretion and cross-linking steps that in turn are catalysed by specific enzymes and chaperones. Mutations in individual collagen genes and their biosynthetic pathway components can result in a range of defects from abnormal morphology (dumpy and blister) to embryonic and larval death, confirming an essential role for this structure and highlighting its potential as an ECM experimental model system

Optimizing the Throughput of Particulate Streams Subject to Blocking

Filtration, flow in narrow channels and traffic flow are examples of processes subject to blocking when the channel conveying the particles becomes too crowded. If the blockage is temporary, which means that after a finite time the channel is flushed and reopened, one expects to observe a maximum throughput for a finite intensity of entering particles. We investigate this phenomenon by introducing a queueing theory inspired, circular Markov model. Particles enter a channel with intensity $\lambda$ and exit at a rate $\mu$. If $N$ particles are present at the same time in the channel, the system becomes blocked and no more particles can enter until the blockage is cleared after an exponentially distributed time with rate $\mu^*$. We obtain an exact expression for the steady state throughput (including the exiting blocked particles) for all values of $N$. For $N=2$ we show that the throughput assumes a maximum value for finite $\lambda$ if $\mu^*/\mu < 1/4$. The time-dependent throughput either monotonically approaches the steady state value, or reaches a maximum value at finite time. We demonstrate that, in the steady state, this model can be mapped to a previously introduced non-Markovian model with fixed transit and blockage times. We also examine an irreversible, non-Markovian blockage process with constant transit time exposed to an entering flux of fixed intensity for a finite time and we show that the first and second moments of the number of exiting particles are maximized for a finite intensity.Comment: 20 pages, 13 figure

The astacin metalloprotease moulting enzyme NAS-36 is required for normal cuticle ecdysis in free-living and parasitic nematodes

Nematodes represent one of the most abundant and species-rich groups of animals on the planet, with parasitic species causing chronic, debilitating infections in both livestock and humans worldwide. The prevalence and success of the nematodes is a direct consequence of the exceptionally protective properties of their cuticle. The synthesis of this cuticle is a complex multi-step process, which is repeated 4 times from hatchling to adult and has been investigated in detail in the free-living nematode, Caenorhabditis elegans. This process is known as moulting and involves numerous enzymes in the synthesis and degradation of the collagenous matrix. The nas-36 and nas-37 genes in C. elegans encode functionally conserved enzymes of the astacin metalloprotease family which, when mutated, result in a phenotype associated with the late-stage moulting defects, namely the inability to remove the preceding cuticle. Extensive genome searches in the gastrointestinal nematode of sheep, Haemonchus contortus, and in the filarial nematode of humans, Brugia malayi, identified NAS-36 but not NAS-37 homologues. Significantly, the nas-36 gene from B. malayi could successfully complement the moult defects associated with C. elegans nas-36, nas-37 and nas-36/nas-37 double mutants, suggesting a conserved function for NAS-36 between these diverse nematode species. This conservation between species was further indicated when the recombinant enzymes demonstrated a similar range of inhibitable metalloprotease activities

Superbursts from Strange Stars

Recent models of carbon ignition on accreting neutron stars predict superburst ignition depths that are an order of magnitude larger than observed. We explore a possible solution to this problem, that the compact stars in low mass X-ray binaries that have shown superbursts are in fact strange stars with a crust of normal matter. We calculate the properties of superbursts on strange stars, and the resulting constraints on the properties of strange quark matter. We show that the observed ignition conditions exclude fast neutrino emission in the quark core, for example by the direct Urca process, which implies that strange quark matter at stellar densities should be in a color superconducting state. For slow neutrino emission in the quark matter core, we find that reproducing superburst properties requires a definite relation between three poorly constrained properties of strange quark matter: its thermal conductivity, its slow neutrino emissivity and the energy released by converting a nucleon into strange quark matter.Comment: 4 pages, submitted to Ap. J. Let

Relativistic Effects on the Appearance of a Clothed Black Hole

For an accretion disk around a black hole, the strong relativistic effects affect every aspect of the radiation from the disk, including its spectrum, light-curve, and image. This work investigates in detail how the images of a thin disk around a black hole will be distorted, and what the observer will see from different viewing angles and in different energy bands.Comment: 4 pages, 5 figures. Based on the poster presented at the Sixth Pacific Rim Conference on Stellar Astrophysics (Xi'an, China, July 11-17, 2002). Color versions of figures are given separatel

An XMM-Newton observation of the Narrow Line Seyfert 1 Galaxy, Markarian 896

XMM-Newton observations of the NLS1 Markarian 896 are presented. Over the 2-10 keV band, an iron emission line, close to 6.4 keV, is seen. The line is just resolved and has an equivalent width of ~170 eV. The broad-band spectrum is well modelled by a power law slope of gamma ~ 2.03, together with two blackbody components to fit the soft X-ray excess. Using a more physical two-temperature Comptonisation model, a good fit is obtained for an input photon distribution of kT ~ 60eV and Comptonising electron temperatures of ~0.3 and 200 keV. The soft excess cannot be explained purely through the reprocessing of a hard X-ray continuum by an ionised disc reflector.Comment: 6 pages, 4 figures, accepted by MNRA

Resolving the large scale spectral variability of the luminous Seyfert 1 galaxy 1H 0419-577: Evidence for a new emission component and absorption by cold dense matter

An XMM-Newton observation of the luminous Seyfert 1 galaxy 1H 0419-577 in September 2002, when the source was in an extreme low-flux state, found a very hard X-ray spectrum at 1-10 keV with a strong soft excess below ~1 keV. Comparison with an earlier XMM-Newton observation when 1H 0419-577 was `X-ray bright' indicated the dominant spectral variability was due to a steep power law or cool Comptonised thermal emission. Four further XMM-Newton observations, with 1H 0419-577 in intermediate flux states, now support that conclusion, while we also find the variable emission component in intermediate state difference spectra to be strongly modified by absorption in low ionisation matter. The variable `soft excess' then appears to be an artefact of absorption of the underlying continuum while the `core' soft emission can be attributed to recombination in an extended region of more highly ionised gas. We note the wider implications of finding substantial cold dense matter overlying (or embedded in) the X-ray continuum source in a luminous Seyfert 1 galaxy.Comment: 34 pages, 15 figures, submitted to Ap

A search for thermal X-ray signatures in Gamma-Ray Bursts I: Swift bursts with optical supernovae

The X-ray spectra of Gamma-Ray Bursts can generally be described by an absorbed power law. The landmark discovery of thermal X-ray emission in addition to the power law in the unusual GRB 060218, followed by a similar discovery in GRB 100316D, showed that during the first thousand seconds after trigger the soft X-ray spectra can be complex. Both the origin and prevalence of such spectral components still evade understanding, particularly after the discovery of thermal X-ray emission in the classical GRB 090618. Possibly most importantly, these three objects are all associated with optical supernovae, begging the question of whether the thermal X-ray components could be a result of the GRB-SN connection, possibly in the shock breakout. We therefore performed a search for blackbody components in the early Swift X-ray spectra of 11 GRBs that have or may have associated optical supernovae, accurately recovering the thermal components reported in the literature for GRBs 060218, 090618 and 100316D. We present the discovery of a cooling blackbody in GRB 101219B/SN2010ma, and in four further GRB-SNe we find an improvement in the fit with a blackbody which we deem possible blackbody candidates due to case-specific caveats. All the possible new blackbody components we report lie at the high end of the luminosity and radius distribution. GRB 101219B appears to bridge the gap between the low-luminosity and the classical GRB-SNe with thermal emission, and following the blackbody evolution we derive an expansion velocity for this source of order 0.4c. We discuss potential origins for the thermal X-ray emission in our sample, including a cocoon model which we find can accommodate the more extreme physical parameters implied by many of our model fits.Comment: 16 pages, 6 figures, accepted for MNRA