Handling Qualities and Trajectory Requirements for Terminal Lunar Landing, as Determined from Analog Simulation

Trajectory requirements for terminal lunar landing from analog simulation of spacecraf

GRO J1744-28: an intermediate B-field pulsar in a low mass X-ray binary

The bursting pulsar, GRO J1744-28, went again in outburst after $\sim$18 years of quiescence in mid-January 2014. We studied the broad-band, persistent, X-ray spectrum using X-ray data from a XMM-Newton observation, performed almost at the peak of the outburst, and from a close INTEGRAL observation, performed 3 days later, thus covering the 1.3-70.0 keV band. The spectrum shows a complex continuum shape that cannot be modelled with standard high-mass X-ray pulsar models, nor by two-components models. We observe broadband and peaked residuals from 4 to 15 keV, and we propose a self-consistent interpretation of these residuals, assuming they are produced by cyclotron absorption features and by a moderately smeared, highly ionized, reflection component. We identify the cyclotron fundamental at $\sim$ 4.7 keV, with hints for two possible harmonics at 10.4 keV and 15.8 keV. The position of the cyclotron fundamental allows an estimate for the pulsar magnetic field of (5.27 $\pm$ 0.06) $\times$ 10$^{11}$ G, if the feature is produced at its surface. From the dynamical and relativistic smearing of the disk reflected component, we obtain a lower limit estimate for the truncated accretion disk inner radius, ($\gtrsim$ 100 R$_g$), and for the inclination angle (18$^{\circ}$-48$^{\circ}$). We also detect the presence of a softer thermal component, that we associate with the emission from an accretion disk truncated at a distance from the pulsar of 50-115 R$_g$. From these estimates, we derive the magneto-spheric radius for disk accretion to be $\sim$ 0.2 times the classical Alfv\'en radius for radial accretion.Comment: Accepted for publication in MNRA

The Coronal Structure of AB Doradus

We perform a numerical simulation of the corona of the young, rapidly rotating K0 dwarf AB Doradus using a global MHD model. The model is driven by a surface map of the radial magnetic field constructed using Zeeman-Doppler Imaging. We find that the global structure of the stellar corona is dominated by strong azimuthal tangling of the magnetic field due to the rapid rotation. The MHD solution enables us to calculate realistic Alfv\'en surfaces and we can therefore estimate the stellar mass loss rate and angular momentum loss rate without making undue theoretical simplifications. We consider three cases, parametrized by the base density of the corona, that span the range of possible solutions for the system. We find that overall, the mass and angular-momentum loss rates are higher than in the solar case; the mass loss rates are 10 to 500 times higher, and the angular momentum loss rate can be up to $3\times{10}^4$ higher than present day solar values. Our simulations show that this model can be use to constrain the wide parameter space of stellar systems. It also shows that an MHD approach can provide more information about the physical system over the commonly used potential field extrapolation.Comment: 13 pages, 7 figure

GROJ1744−28: an intermediate B-field pulsar in a low-mass X-ray binary

The bursting pulsar, GROJ1744−28, went again in outburst after ∼18yr of quiescence in 2014 mid-January. We studied the broad-band, persistent, X-ray spectrum using X-ray data from a XMM-Newton observation, performed almost at the peak of the outburst, and from a close INTEGRAL observation, performed 3d later, thus covering the 1.3-70.0keV band. The spectrum shows a complex continuum shape that cannot be modelled with standard high-mass X-ray pulsar models, nor by two-components models. We observe broad-band and peaked residuals from 4 to 15keV, and we propose a self-consistent interpretation of these residuals, assuming they are produced by cyclotron absorption features and by a moderately smeared, highly ionized, reflection component. We identify the cyclotron fundamental at ∼4.7keV, with hints for two possible harmonics at ∼10.4 and ∼15.8keV. The position of the cyclotron fundamental allows an estimate for the pulsar magnetic field of (5.27±0.06)×1011G, if the feature is produced at its surface. From the dynamical and relativistic smearing of the disc reflected component, we obtain a lower limit estimate for the truncated accretion disc inner radius (≳100Rg) and for the inclination angle (18°-48°). We also detect the presence of a softer thermal component that we associate with the emission from an accretion disc truncated at a distance from the pulsar of 50-115Rg. From these estimates, we derive the magnetospheric radius for disc accretion to be ∼0.2times the classical Alfvén radius for radial accretio

Defensome against Toxic Diatom Aldehydes in the Sea Urchin Paracentrotus lividus

Many diatom species produce polyunsaturated aldehydes, such as decadienal, which compromise embryonic and larval development in benthic organisms. Here newly fertilized Paracentrotus lividus sea urchins were exposed to low concentration of decadienal and the expression levels of sixteen genes, implicated in a broad range of functional responses, were followed by Real Time qPCR in order to identify potential decadienal targets. We show that at low decadienal concentrations the sea urchin Paracentrotus lividus places in motion different classes of genes to defend itself against this toxic aldehyde, activating hsp60 and two proteases, hat and BP10, at the blastula stage and hsp56 and several other genes (14-3-3ε, p38 MAPK, MTase, and GS) at the prism stage. At this latter stage all genes involved in skeletogenesis (Nec, uni, SM50 and SM30) were also down-expressed, following developmental abnormalities that mainly affected skeleton morphogenesis. Moreover, sea urchin embryos treated with increasing concentrations of decadienal revealed a dose-dependent response of activated target genes. Finally, we suggest that this orchestrated defense system against decadienal represents part of the chemical defensome of P. lividus affording protection from environmental toxicants

siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect

<p>Abstract</p> <p>Background</p> <p>RNA interference (RNAi), mediated by 21-nucleotide (nt)-length small interfering RNAs (siRNAs), is a powerful tool not only for studying gene function but also for therapeutic applications. RNAi, requiring perfect complementarity between the siRNA guide strand and the target mRNA, was believed to be extremely specific. However, a recent growing body of evidence has suggested that siRNA could down-regulate unintended genes whose transcripts possess complementarity to the 7-nt siRNA seed region. This off-target gene silencing may often provide incongruous results obtained from knockdown experiments, leading to misinterpretation. Thus, an efficient algorithm for designing functional siRNAs with minimal off-target effect based on the mechanistic features is considered of value.</p> <p>Results</p> <p>We present siDirect 2.0, an update of our web-based software siDirect, which provides functional and off-target minimized siRNA design for mammalian RNAi. The previous version of our software designed functional siRNAs by considering the relationship between siRNA sequence and RNAi activity, and provided them along with the enumeration of potential off-target gene candidates by using a fast and sensitive homology search algorithm. In the new version, the siRNA design algorithm is extensively updated to eliminate off-target effects by reflecting our recent finding that the capability of siRNA to induce off-target effect is highly correlated to the thermodynamic stability, or the melting temperature (Tm), of the seed-target duplex, which is formed between the nucleotides positioned at 2-8 from the 5' end of the siRNA guide strand and its target mRNA. Selection of siRNAs with lower seed-target duplex stabilities (benchmark Tm < 21.5°C) followed by the elimination of unrelated transcripts with nearly perfect match should minimize the off-target effects.</p> <p>Conclusion</p> <p>siDirect 2.0 provides functional, target-specific siRNA design with the updated algorithm which significantly reduces off-target silencing. When the candidate functional siRNAs could form seed-target duplexes with Tm values below 21.5°C, and their 19-nt regions spanning positions 2-20 of both strands have at least two mismatches to any other non-targeted transcripts, siDirect 2.0 can design at least one qualified siRNA for >94% of human mRNA sequences in RefSeq. siDirect 2.0 is available at <url>http://siDirect2.RNAi.jp/</url>.</p

The Role of Dicer Protein Partners in the Processing of MicroRNA Precursors

One of the cellular functions of the ribonuclease Dicer is to process microRNA precursors (pre-miRNAs) into mature microRNAs (miRNAs). Human Dicer performs this function in cooperation with its protein partners, AGO2, PACT and TRBP. The exact role of these accessory proteins in Dicer activity is still poorly understood. In this study, we used the northern blotting technique to investigate pre-miRNA cleavage efficiency and specificity after depletion of AGO2, PACT and TRBP by RNAi. The results showed that the inhibition of either Dicer protein partner substantially affected not only miRNA levels but also pre-miRNA levels, and it had a rather minor effect on the specificity of Dicer cleavage. The analysis of the Dicer cleavage products generated in vitro revealed the presence of a cleavage intermediate when pre-miRNA was processed by recombinant Dicer alone. This intermediate was not observed during pre-miRNA cleavage by endogenous Dicer. We demonstrate that AGO2, PACT and TRBP were required for the efficient functioning of Dicer in cells, and we suggest that one of the roles of these proteins is to assure better synchronization of cleavages triggered by two RNase III domains of Dicer

X-Ray Spectroscopy of Stars

(abridged) Non-degenerate stars of essentially all spectral classes are soft X-ray sources. Low-mass stars on the cooler part of the main sequence and their pre-main sequence predecessors define the dominant stellar population in the galaxy by number. Their X-ray spectra are reminiscent, in the broadest sense, of X-ray spectra from the solar corona. X-ray emission from cool stars is indeed ascribed to magnetically trapped hot gas analogous to the solar coronal plasma. Coronal structure, its thermal stratification and geometric extent can be interpreted based on various spectral diagnostics. New features have been identified in pre-main sequence stars; some of these may be related to accretion shocks on the stellar surface, fluorescence on circumstellar disks due to X-ray irradiation, or shock heating in stellar outflows. Massive, hot stars clearly dominate the interaction with the galactic interstellar medium: they are the main sources of ionizing radiation, mechanical energy and chemical enrichment in galaxies. High-energy emission permits to probe some of the most important processes at work in these stars, and put constraints on their most peculiar feature: the stellar wind. Here, we review recent advances in our understanding of cool and hot stars through the study of X-ray spectra, in particular high-resolution spectra now available from XMM-Newton and Chandra. We address issues related to coronal structure, flares, the composition of coronal plasma, X-ray production in accretion streams and outflows, X-rays from single OB-type stars, massive binaries, magnetic hot objects and evolved WR stars.Comment: accepted for Astron. Astrophys. Rev., 98 journal pages, 30 figures (partly multiple); some corrections made after proof stag

Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak

In its largest outbreak, Ebola virus disease is spreading through Guinea, Liberia, Sierra Leone, and Nigeria. We sequenced 99 Ebola virus genomes from 78 patients in Sierra Leone to ~2000× coverage. We observed a rapid accumulation of interhost and intrahost genetic variation, allowing us to characterize patterns of viral transmission over the initial weeks of the epidemic. This West African variant likely diverged from central African lineages around 2004, crossed from Guinea to Sierra Leone in May 2014, and has exhibited sustained human-to-human transmission subsequently, with no evidence of additional zoonotic sources. Because many of the mutations alter protein sequences and other biologically meaningful targets, they should be monitored for impact on diagnostics, vaccines, and therapies critical to outbreak response.Organismic and Evolutionary Biolog

Both Strands of siRNA Have Potential to Guide Posttranscriptional Gene Silencing in Mammalian Cells

Despite the widespread application of RNA interference (RNAi) as a research tool for diverse purposes, the key step of strand selection of siRNAs during the formation of RNA-induced silencing complex (RISC) remains poorly understood. Here, using siRNAs targeted to the complementary region of Survivin and the effector protease receptor 1 (EPR-1), we show that both strands of the siRNA duplex can find their target mRNA and are equally eligible for assembly into Argonaute 2 (Ago2) of RISC in HEK293 cells. Transfection of the synthetic siRNA duplexes with different thermodynamic profiles or short hairpin RNA (shRNA) vectors that generate double-stranded RNAs (dsRNAs), permitting processing specifically from either the 5′ or 3′ end of the incipient siRNA, results in the degradation of the respective target mRNAs of either strand of the siRNA duplex with comparable efficiencies. Thus, while most RNAi reactions may follow the thermodynamic asymmetry rule in strand selection, our study suggests an exceptional mode for certain siRNAs in which both strands of the duplex are competent in sponsoring RNAi, and implies additional factors that might dictate the RNAi targets