A two-parameter family of double-power-law biorthonormal potential-density expansions

Biorthonormal basis function expansions are widely used in galactic dynamics, both to study problems in galactic stability and to provide numerical algorithms to evolve collisionless stellar systems. They also provide a compact and efficient description of the structure of numerical dark matter haloes in cosmological simulations. We present a two-parameter family of biorthonormal double-power-law potential-density expansions. Both the potential and density are given in closed analytic form and may be rapidly computed via recurrence relations. We show that this family encompasses all the known analytic biorthonormal expansions: the Zhao expansions (themselves generalizations of ones found earlier by Hernquist & Ostriker and by Clutton-Brock) and the recently discovered Lilley, Sanders, Evans & Erkal expansion. Our new two-parameter family includes expansions based around many familiar spherical density profiles as zeroth-order models, including the $\gamma$ models and the Jaffe model. It also contains a basis expansion that reproduces the famous Navarro-Frenk-White (NFW) profile at zeroth order. The new basis expansions have been found via a systematic methodology which has wide applications in finding further examples. In the process, we also uncovered a novel integral transform solution to Poisson's equation

The super-NFW model: An analytic dynamical model for cold dark matter haloes and elliptical galaxies

An analytic galaxy model with $\rho \sim r^{-1}$ at small radii and $\rho \sim r^{-3.5}$ at large radii is presented. The asymptotic density fall-off is slower than the Hernquist model, but faster than the Navarro-Frenk-White (NFW) profile for dark matter haloes, and so in accord with recent evidence from cosmological simulations. The model provides the zeroth-order term in a biorthornomal basis function expansion, meaning that axisymmetric, triaxial and lopsided distortions can easily be added (much like the Hernquist model itself which is the zeroth-order term of the Hernquist-Ostriker expansion). The properties of the spherical model, including analytic distribution functions which are either isotropic, radially anisotropic or tangentially anisotropic, are discussed in some detail. The analogue of the mass-concentration relation for cosmological haloes is provided.EJL and JLS acknowledge financial support from the Science and Technology Facilities Council

Galaxy halo expansions: a new biorthogonal family of potential-density pairs

Efficient expansions of the gravitational field of (dark) haloes have two main uses in the modelling of galaxies: first, they provide a compact representation of numerically-constructed (or real) cosmological haloes, incorporating the effects of triaxiality, lopsidedness or other distortion. Secondly, they provide the basis functions for self-consistent field expansion algorithms used in the evolution of $N$-body systems. We present a new family of biorthogonal potential-density pairs constructed using the Hankel transform of the Laguerre polynomials. The lowest-order density basis functions are double-power-law profiles cusped like $\rho \sim r^{-2 + 1/\alpha}$ at small radii with asymptotic density fall-off like $\rho \sim r^{-3 -1/(2\alpha)}$. Here, $\alpha$ is a parameter satisfying $\alpha \ge 1/2$. The family therefore spans the range of inner density cusps found in numerical simulations, but has much shallower -- and hence more realistic -- outer slopes than the corresponding members of the only previously-known family deduced by Zhao (1996) and exemplified by Hernquist & Ostriker (1992). When $\alpha =1$, the lowest-order density profile has an inner density cusp of $\rho \sim r^{-1}$ and an outer density slope of $\rho \sim r^{-3.5}$, similar to the famous Navarro, Frenk & White (1997) model. For this reason, we demonstrate that our new expansion provides a more accurate representation of flattened NFW haloes than the competing Hernquist-Ostriker expansion. We utilize our new expansion by analysing a suite of numerically-constructed haloes and providing the distributions of the expansion coefficients.JLS and EJL acknowledge the support of the STFC

Models of Distorted and Evolving Dark Matter Halos

We investigate the ability of basis function expansions to reproduce the evolution of a Milky Way-like dark matter halo, extracted from a cosmological zoom-in simulation. For each snapshot, the density of the halo is reduced to a basis function expansion, with interpolation used to recreate the evolution between snapshots. The angular variation of the halo density is described by spherical harmonics, and the radial variation either by biorthonormal basis functions adapted to handle truncated haloes or by splines. High fidelity orbit reconstructions are attainable using either method with similar computational expense. We quantify how the error in the reconstructed orbits varies with expansion order and snapshot spacing. Despite the many possible biorthonormal expansions, it is hard to beat a conventional Hernquist-Ostriker expansion with a moderate number of terms ($\gtrsim15$ radial and $\gtrsim6$ angular). As two applications of the developed machinery, we assess the impact of the time-dependence of the potential on (i) the orbits of Milky Way satellites, and (ii) planes of satellites as observed in the Milky Way and other nearby galaxies. Time evolution over the last 5 Gyr introduces an uncertainty in the Milky Way satellites' orbital parameters of $\sim 15$ per cent, comparable to that induced by the observational errors or the uncertainty in the present-day Milky Way potential. On average, planes of satellites grow at similar rates in evolving and time-independent potentials. There can be more, or less, growth in the plane's thickness, if the plane becomes less, or more, aligned with the major or minor axis of the evolving halo

Canine distemper virus neutralization activity is low in human serum and it is sensitive to an amino acid substitution in the hemagglutinin protein

© 2015 Elsevier Inc.Serum was analyzed from 146 healthy adult volunteers in eastern Africa to evaluate measles virus (MV) and canine distemper virus (CDV) neutralizing antibody (nAb) prevalence and potency. MV plaque reduction neutralization test (PRNT) results indicated that all sera were positive for MV nAbs. Furthermore, the 50% neutralizing dose (ND50) for the majority of sera corresponded to antibody titers induced by MV vaccination. CDV nAbs titers were low and generally were detected in sera with high MV nAb titers. A mutant CDV was generated that was less sensitive to neutralization by human serum. The mutant virus genome had 10 nucleotide substitutions, which coded for single amino acid substitutions in the fusion (F) and hemagglutinin (H) glycoproteins and two substitutions in the large polymerase (L) protein. The H substitution occurred in a conserved region involved in receptor interactions among morbilliviruses, implying that this region is a target for cross-reactive neutralizing antibodies

Host genetics and viral load in primary HIV-1 infection: clear evidence for gene by sex interactions

© 2014, The Author(s).Research in the past two decades has generated unequivocal evidence that host genetic variations substantially account for the heterogeneous outcomes following human immunodeficiency virus type 1 (HIV-1) infection. In particular, genes encoding human leukocyte antigens (HLA) have various alleles, haplotypes, or specific motifs that can dictate the set-point (a relatively steady state) of plasma viral load (VL), although rapid viral evolution driven by innate and acquired immune responses can obscure the long-term relationships between HLA genotypes and HIV-1-related outcomes. In our analyses of VL data from 521 recent HIV-1 seroconverters enrolled from eastern and southern Africa, HLA-A*03:01 was strongly and persistently associated with low VL in women (frequency = 11.3 %, P  0.50). In a reduced multivariable model, age, sex, geography (clinical sites), previously identified HLA factors (HLA-B*18, B*45, B*53, and B*57), and the interaction term for female sex and HLA-A*03:01 collectively explained 17.0 % of the overall variance in geometric mean VL over a 3-year follow-up period (P < 0.0001). Multiple sensitivity analyses of longitudinal and cross-sectional VL data yielded consistent results. These findings can serve as a proof of principle that the gap of “missing heritability” in quantitative genetics can be partially bridged by a systematic evaluation of sex-specific associations

Challenges of HIV diagnosis and management in the context of pre-exposure prophylaxis (PrEP), post-exposure prophylaxis (PEP), test and start and acute HIV infection: a scoping review

Introduction: Knowledge of HIV status relies on accurate HIV testing, and is the first step towards access to HIV treatment and prevention programmes. Globally, HIV-status unawareness represents a significant challenge for achieving zero new HIV infections and deaths. In order to enhance knowledge of HIV status, the World Health Organisation (WHO) recommends a testing strategy that includes the use of HIV-specific antibody point-of-care tests (POCT). These POCTs do not detect acute HIV infection, the stage of disease when viral load is highest but HIV antibodies are undetectable. Complicating things further, in the presence of antiretroviral therapy (ART) for pre-exposure prophylaxis (PrEP) or post-exposure prophylaxis (PEP), other currently available testing technologies, such as viral load detection for diagnosis of acute HIV infection, may yield false negative results. In this scoping review, we evaluate the evidence and discuss alternative HIV testing algorithms that may mitigate diagnostic dilemmas in the setting of increased utilisation of ART for immediate treatment and prevention of HIV infection. Discussion: Missed acute HIV infection prevents people living with HIV (PLWH) from accessing early treatment, increases likelihood of onward transmission, and allows for inappropriate initiation or continuation of PrEP, which may result in HIV drug resistance. Whilst immediate ART is recommended for all PLWH, studies have shown that starting ART in the setting of acute HIV infection may result in a delayed or complete absence of development of HIV-specific antibodies, posing a diagnostic challenge that is particularly pertinent to resource-limited, high HIV burden settings where HIV-antibody POCTs are standard of care. Similarly, ART used as PrEP or PEP may supress HIV RNA viral load, complicating current HIV testing algorithms in resource-wealthy settings where viral detection is included. As roll-out of PrEP continues, HIV testing algorithms may need to be modified. Conclusions: With increasing use of PrEP and ART in acute infection we anticipate diagnostic challenges using currently available HIV testing strategies. Research and surveillance is needed to determine the most appropriate assays and optimal testing algorithms that are accurate, affordable and sustainable

LIGHT AND ELECTRON MICROSCOPIC STUDY OF SURFACES OF TEST-SPECIMENS TESTED IN WEAR APPARATUSES

Objective: Symptoms of acute retroviral syndrome (ARS) may be used to identify patients with acute HIV-1 infection who seek care. ARS symptoms in African adults differ by region. We assessed whether reporting of ARS was associated with HIV-1 subtype in a multicentre African cohort study representing countries with predominant HIV-1 subtypes A, C, and D. Methods: ARS symptoms were assessed in adults enrolling within 6 weeks after the estimated date of infection in an acute and early HIV-1 infection cohort study. HIV-1 subtype was determined by POL genotyping. We used log-binomial regression to compare ARS symptom prevalence among those with subtype A vs. C or D, adjusting for sex, time since enrolment, and enrolment viral load. Results: Among 183 volunteers ascertained within 6 weeks after estimated date of infection, 77 (42.0%) had subtype A, 83 (45.4%) subtype C, and 23 (12.6%) subtype D infection. Individuals with subtype A were 1.40 (95% confidence interval: 1.17, 1.68) times as likely as individuals with subtypes C or D to report any ARS symptoms; each individual symptom other than rash was also more prevalent in subtype A than in subtype C or D, with prevalence ratios ranging from 1.94 (1.40, 2.70) for headache to 4.92 (2.24, 10.78) for lymphadenopathy. Conclusion: Individuals with subtype A were significantly more likely than individuals with subtypes C or D to report any ARS symptoms. HIV-1 subtypes may help explain differences in ARS that have been observed across regions in Africa, and may impact the yield of symptom-based screening strategies for acute HIV infection detection

From DNA sequence to application: possibilities and complications

The development of sophisticated genetic tools during the past 15 years have facilitated a tremendous increase of fundamental and application-oriented knowledge of lactic acid bacteria (LAB) and their bacteriophages. This knowledge relates both to the assignments of open reading frames (ORF’s) and the function of non-coding DNA sequences. Comparison of the complete nucleotide sequences of several LAB bacteriophages has revealed that their chromosomes have a fixed, modular structure, each module having a set of genes involved in a specific phase of the bacteriophage life cycle. LAB bacteriophage genes and DNA sequences have been used for the construction of temperature-inducible gene expression systems, gene-integration systems, and bacteriophage defence systems. The function of several LAB open reading frames and transcriptional units have been identified and characterized in detail. Many of these could find practical applications, such as induced lysis of LAB to enhance cheese ripening and re-routing of carbon fluxes for the production of a specific amino acid enantiomer. More knowledge has also become available concerning the function and structure of non-coding DNA positioned at or in the vicinity of promoters. In several cases the mRNA produced from this DNA contains a transcriptional terminator-antiterminator pair, in which the antiterminator can be stabilized either by uncharged tRNA or by interaction with a regulatory protein, thus preventing formation of the terminator so that mRNA elongation can proceed. Evidence has accumulated showing that also in LAB carbon catabolite repression in LAB is mediated by specific DNA elements in the vicinity of promoters governing the transcription of catabolic operons. Although some biological barriers have yet to be solved, the vast body of scientific information presently available allows the construction of tailor-made genetically modified LAB. Today, it appears that societal constraints rather than biological hurdles impede the use of genetically modified LAB.