Acceptability, feasibility and cost of point of care testing for sexually transmitted infections among South African adolescents where syndromic management is standard of care.

BACKGROUND: Young people (YP) in southern Africa are at substantial risk of HIV and sexually transmitted infections (STIs). Despite the epidemiological and biological link between STIs and HIV transmission and acquisition, infections such as Chlamydia trachomatis (CT) and Neisseria gonorrhoeae (NG) remain widely undiagnosed. Syndromic STI management is the standard of care in low- and middle-income countries (LMICs) despite a high prevalence of asymptomatic infections. We conducted an observational study to explore the acceptability, feasibility, and cost of a STI test-and-treat service for YP in Cape Town. METHODS: YP attending a mobile clinic (MC) and a youth centre clinic (YC) were offered STI screening. Urine testing for CT and NG using a 90-min molecular point-of-care (POC) test on the GeneXpert platform was conducted and treatment provided. Data were collated on demographics, sexual behaviour, presence of symptoms, uptake of same-day treatment, prevalence of CT/NG, and service acceptability. RESULTS: Three hundred sixty six participants were enrolled (median age 20, 83% female).57% (209/366) of participants tested positive for either CT (126/366, 34%) or NG (57/366, 16%) or co-infection (26/366, 7%). Clinical symptoms were a poor predictor of GeneXpert diagnosed CT or NG, with a sensitivity of 46.8% and 54.0% for CT and NG respectively. Although half of participants initially chose to receive same day results and treatment, only a third waited for results on the day. The majority of participants (91%) rated the service highly via a post-visit acceptability questionnaire. CONCLUSION: Curable STIs are highly prevalent in this population. STI screening using POC testing was feasible and acceptability was high. The study provides further impetus for moving policy beyond syndromic management of STIs in South Africa.

Design and expression of polytopic construct of cathepsin-L1, SAP-2 and FhTP16.5 proteins of Fasciola hepatica.

The enzyme-linked immunosorbent assay (ELISA) technique can play an important role in the early detection of fascioliasis. However, they have some diagnostic limitations, including cross-reaction with other helminths. It seems that the combination of recombinant parasite proteins as antigen can reduce these problems. Hence, the present study was aimed to design and confirm the antigenic recombinant multi-epitope (rMEP) construct of three protein epitopes (linear and conformational B-cell epitopes) of the parasite using immunoinformatic tools. For this purpose, the tertiary structures of Fasciola hepatica cathepsin-L1, saposin-like protein 2 and 16.5-kDa tegument-associated protein were predicted using the I-TASSER server. Validation of the modelled structures was performed by Ramachandran plots. The antigenic epitopes of the proteins were achieved by analysing the features of the IEDB server. The synthesized gene was cloned into the pET-22b (+) expression vector and transformed into the Escherichia coli BL21. Sodium dodecyl sulfate polyacrylamide gel electrophoresis was used to verify and analyse the expression of the rMEP protein. Western blotting was utilized to confirm rMEP protein immunogenicity in two forms, one using an anti-His tag antibody and the other with human pooled sera samples (fascioliasis, non-fascioliasis and negative control sera). Our results demonstrated that the rMEP designed for the three proteins of F. hepatica was highly antigenic, and immune-detection techniques confirmed the antigen specificity. In conclusion, the presented antigenic multi-epitope may be very helpful to develop serodiagnostic kits such as indirect ELISA to evaluate the proper diagnosis of fascioliasis in humans and ruminants.

Effective, appropriate and simple culture, egg hatching and cryopreserving of the nematode Cheilospirura hamulosa.

1. Successful invasion by nematode parasites is associated with several factors including egg hatching at the right time in their hosts. To determine a simple and appropriate medium for culture and egg hatching of the highly pathogenic species of the Acuariidae family, Cheilospirura hamulosa were cultured in three different media. In addition the viability of C. hamulosa eggs was determined after storage in frozen infected gizzards. 2. Eggs removed from the uteri of the female worms in infected gizzards were pooled and washed in distilled water and screened under a stereo dissecting microscope. Eggs were counted and cultured in three different media, nutrient agar, normal saline 0.9% and Bearman, at room temperature. Additionally, 10 infected gizzards were kept at -20°C for 2 and 8 months. 3. After 4-5 d there had been no growth in the nutrient agar medium, whereas 11% of the cultured eggs in the Bearman medium contained larvae 2-3 d after culturing. In 0.9% normal saline medium the two polar knobs appeared on the two poles of the eggs at 2 d post cultivation, and 74% of the eggs contained a larva on the third day. Mature larvae gradually exited from the eggs. 4. Eggs collected from female worms in gizzards frozen at -20°C were cultured in the same three culture media at room temperature. Larvae were visible in the eggs after 2-3 d in the Bearman and 0.9% normal saline media and hatched thereafter. 5. The 0.9% normal saline medium is recommended for egg hatching and cultivation of C. hamulosa due for simplicity, efficacy and cost effectiveness. Moreover, freezing of the infected gizzards at -20°C is proposed for long-term storage of the eggs.

Loop-erased random walk on a percolation cluster: crossover from Euclidean to fractal geometry.

We study loop-erased random walk (LERW) on the percolation cluster, with occupation probability p ≥ p_{c}, in two and three dimensions. We find that the fractal dimensions of LERW_{p} are close to normal LERW in a Euclidean lattice, for all p>p_{c}. However, our results reveal that LERW on critical incipient percolation clusters is fractal with d_{f}=1.217 ± 0.002 for d=2 and 1.43 ± 0.02 for d=3, independent of the coordination number of the lattice. These values are consistent with the known values for optimal path exponents in strongly disordered media. We investigate how the behavior of the LERW_{p} crosses over from Euclidean to fractal geometry by gradually decreasing the value of the parameter p from 1 to p_{c}. For finite systems, two crossover exponents and a scaling relation can be derived. This work opens up a theoretical window regarding the diffusion process on fractal and random landscapes.

Molecular detection and conventional identification of leishmania species in reservoir hosts of zoonotic cutaneous leishmaniasis in fars province, South of iran.

BACKGROUND: The objectives of our research were to search for Leishmania species in rodents in Fars province, south of Iran, and to compare molecular with conventional methods for detecting these parasites. METHODS: Rodents were captured using live traps and screened for Leishmania species using molecular and conventional methods, including the taking of smears from each ear. Nested PCR was employed to detect Leishmania in rodents by amplifying a region of the ribosomal RNA amplicon of Leishmania (ITS1-5.8S rRNA-ITS2) that is species-specific by DNA sequence. RESULTS: Totally, 122 rodents were captured. Leishmania parasites were detected using the nested PCR and three conventional methods (direct smear, NNN culture and Balb/C inoculation. 41 (33.6%) out of 122 rodents had Leishmania infections (34 Meriones lybicus and 7 M. persicus). All PCR products of the ITS-rDNA gene were sequenced. Sequence analysis revealed that 28 out of 41 positive samples were Leishmania major. Thirteen sequences were unreadable and therefore not identified. CONCLUSION: At least two gerbil species common in Fars ZCL foci, M. lybicus and M. persicus, are acquiring infections of L. major and may be reservoir hosts of one predominant parasite haplotype. Most infections were detected molecularly not by conventional methods, because most rodents died in the traps.

Watersheds are Schramm-Loewner evolution curves.

We show that in the continuum limit watersheds dividing drainage basins are Schramm-Loewner evolution (SLE) curves, being described by one single parameter κ. Several numerical evaluations are applied to ascertain this. All calculations are consistent with SLE(κ), with κ = 1.734 ± 0.005, being the only known physical example of an SLE with κ<2. This lies outside the well-known duality conjecture, bringing up new questions regarding the existence and reversibility of dual models. Furthermore, it constitutes a strong indication for conformal invariance in random landscapes and suggests that watersheds likely correspond to a logarithmic conformal field theory with a central charge c ≈ -7/2.

Avalanche frontiers in the dissipative Abelian sandpile model and off-critical Schramm-Loewner evolution.

Avalanche frontiers in Abelian sandpile model (ASM) are random simple curves whose continuum limit is known to be a Schramm-Loewner evolution with diffusivity parameter κ=2. In this paper we consider the dissipative ASM and study the statistics of the avalanche and wave frontiers for various rates of dissipation. We examine the scaling behavior of a number of functions, such as the correlation length, the exponent of distribution function of loop lengths, and the gyration radius defined for waves and avalanches. We find that they do scale with the rate of dissipation. Two significant length scales are observed. For length scales much smaller than the correlation length, these curves show properties close to the critical curves, and the corresponding diffusivity parameter is nearly the same as the critical limit. We interpret this as the ultraviolet limit where κ=2 corresponding to c=-2. For length scales much larger than the correlation length, we find that the avalanche frontiers tend to self-avoiding walk, and the corresponding driving function is proportional to the Brownian motion with the diffusivity parameter κ=8/3 corresponding to a field theory with c=0. We interpret this to be the infrared limit of the theory or at least a crossover.

Isolation and detection of Leishmania species among naturally infected Rhombomis opimus, a reservoir host of zoonotic cutaneous leishmaniasis in Turkemen Sahara, North East of Iran.

In Iran, three species of Leishmania have been incriminated as the causative agents of human leishmaniasis, Leishmania (L.) major, Leishmania tropica, and Leishmania infantum.Rhombomis opimus have been incriminated as a principal reservoirs of the parasitic protozoan Leishmania major, the causative agent of rural zoonotic cutaneous leishmaniasis (ZCL) in Iran. Rodents captured and examined to find Leishmania species using conventional methods including direct impression smear and microscopic observation inoculation samples to Balb/c and culture in NNN medium. Also molecular method was employed to detect Leishmania in rodents by amplifying a region of the ribosomal RNA amplicon of Leishmania (ITS1-5.8S rRNA-ITS2) using Nested PCR. Leshmania species were specified by DNA sequences. 36 (38.3%) of R. opimus were Leishmania positive using at least one conventional methods. Many more ITS-rDNA fragments were amplified from R. opimus but only 65 out of 74 PCR products contained enough DNA for direct sequencing or readable sequences. The PCR assays detected in Iranian R. opimus not only Leishmania major in 59 (79.7%) rodents but also Leishmania turanica in 6 (8.1%) rodents, another parasite of the great gerbil. These parasites were found in Turkemen Sahara, North East of Iran, in a focus of rural (ZCL). L. major and L. turanica in R. opimus firmly identified from Turkemen Sahara. Nine rodents with Leishmania infections unidentified which some were unreadable sequences, these could be mixed infections of L. major, L. turanica, Leishmania gerbillisensu lato and Leishmania close to L. gerbilli or a related species reported in sandflies previously from this location. The haplotypes of L. major and L. turanica were found to be identical to that of isolates of L. major and L. turanica from Iran and in GenBank elsewhere. R. opimus is probably the key reservoir in this ZCL focus because of its abundance and its infection rates with both L. major and L. turanica.

First-passage-time processes and subordinated Schramm-Loewner evolution.

We study the first-passage-time processes of the anomalous diffusion on the self-similar curves in two dimensions. The scaling properties of the mean-square displacement and mean first passage time of the fractional Brownian motion and subordinated walk on the different fractal curves (loop-erased random walk, harmonic explorer, and percolation front) are derived. We also define natural parametrized subordinated Schramm-Loewner evolution (NS-SLE) as a mathematical tool that can model diffusion on fractal curves. The scaling properties of the mean-square displacement and mean first passage time for NS-SLE are obtained by numerical means.

Classification of (2+1) -dimensional growing surfaces using Schramm-Loewner evolution.

Statistical behavior and scaling properties of isoheight lines in three different saturated two-dimensional grown surfaces with controversial universality classes are investigated using ideas from Schramm-Loewner evolution (SLE_{κ}). We present some evidence that the isoheight lines in the ballistic deposition (BD), Eden and restricted solid-on-solid (RSOS) models have conformally invariant properties all in the same universality class as the self-avoiding random walk (SAW), equivalently SLE_{8/3}. This leads to the conclusion that all these discrete growth models fall into the same universality class as the Kardar-Parisi-Zhang (KPZ) equation in two dimensions.

Chloramphenicol residues in chicken liver, kidney and muscle: a comparison among the antibacterial residues monitoring methods of Four Plate Test, ELISA and HPLC.

There are many concerns about safety of food contaminated with antibacterial residues. This study was designed to investigate the occurrence of chloramphenicol (CAP) residue in broiler chickens tissues, namely liver, kidney and muscle. One hundred and sixty broiler chickens carcasses were collected from three provinces of Iran. Four Plate Test (FTP), ELISA and HPLC were used to qualify and quantify the contamination of the samples with CAP. The results of FPT revealed that up to 17.5% of the samples were contaminated with the antibiotic. The ELISA assay showed that out of 28 positive samples in FPT, 22 liver, 21 kidney and 14 muscle samples were positive for CAP. ELISA analyses demonstrated that the minimum and maximum levels of 0.54 and 155.2 ng/g were detected in the kidney and liver, respectively. HPLC analyses confirmed the ELISA findings although the level of contamination was lower than that of ELISA. These data showed that despite the prohibition of CAP application in food animals including poultry, the CAP residue was detectable indicating an illegal use of this antibiotic. Our findings also demonstrated the application of sensitive and more specific analytical assays in screening and quantitation of CAP residues in food products.

Direct evidence for conformal invariance of avalanche frontiers in sandpile models.

Appreciation of stochastic Loewner evolution (SLE_{kappa}) , as a powerful tool to check for conformal invariant properties of geometrical features of critical systems has been rising. In this paper we use this method to check conformal invariance in sandpile models. Avalanche frontiers in Abelian sandpile model are numerically shown to be conformally invariant and can be described by SLE with diffusivity kappa=2 . This value is the same as value obtained for loop-erased random walks. The fractal dimension and Schramm's formula for left passage probability also suggest the same result. We also check the same properties for Zhang's sandpile model.

Scaling of clusters and winding-angle statistics of isoheight lines in two-dimensional Kardar-Parisi-Zhang surfaces.

We investigate the statistics of isoheight lines of (2+1) -dimensional Kardar-Parisi-Zhang model at different level sets around the mean height in the saturation regime. We find that the exponent describing the distribution of the height-cluster size behaves differently for level cuts above and below the mean height, while the fractal dimensions of the height-clusters and their perimeters remain unchanged. The statistics of the winding angle confirms the previous observation that these contour lines are in the same universality class as self-avoiding random walks.

Scaling and multiscaling behavior of the perimeter of a diffusion-limited aggregation generated by the Hastings-Levitov method.

In this paper, we analyze the scaling behavior of a diffusion-limited aggregation (DLA) simulated by the Hastings-Levitov method. We obtain the fractal dimension of the clusters by direct analysis of the geometrical patterns, in good agreement with one obtained from an analytical approach. We compute the two-point density correlation function and we show that, in the large-size limit, it agrees with the obtained fractal dimension. These support the statistical agreement between the patterns and DLA clusters. We also investigate the scaling properties of various length scales and their fluctuations, related to the boundary of the cluster. We find that all of the length scales do not have a simple scaling with the same correction to scaling exponent. The fractal dimension of the perimeter is obtained equal to that of the cluster. The growth exponent is computed from the evolution of the interface width equal to ß = 0.557(2). We also show that the perimeter of the DLA cluster has an asymptotic multiscaling behavior.

Effects of salinity on survival, growth, reproductive and life span characteristics of Artemia populations from Urmia Lake and neighboring lagoons.

This study deals with effects of different salinities on the survival, growth, reproductive and lifespan characteristics of three Artemia populations from Urmia Lake and small lagoons at the vicinity of the lake under laboratory conditions. Experimental salinities ranged from 75 to 175 g L(-1). Salinity was proved to have significant impact on the majority of the characters studied in this survey. Growth and survival in bisexual A. urmiana and parthenogenetic Artemia from Lake Urmia were significantly higher with respect to the parthenogenetic Artemia from lagoons at most of the salinities tested. Reproductive characteristics such as total number of broods, total offspring number of offspring in each brood and number of offspring at each day of reproductive period reduced with increasing salinity. Moreover higher salinity prolonged the prereproductive period but shortened the total reproductive period. Higher salinities also affected the percentage of encystment and post-reproductive period, showing significantly higher values in parthenogenetic populations in comparison to bisexual A. urmiana.

Conformal invariance of isoheight lines in a two-dimensional Kardar-Parisi-Zhang surface.

The statistics of isoheight lines in the (2+1) -dimensional Kardar-Parisi-Zhang (KPZ) model is shown to be conformally invariant and equivalent to those of self-avoiding random walks. This leads to a rich variety of exact analytical results for the KPZ dynamics. We present direct evidence that the isoheight lines can be described by the family of conformally invariant curves called Schramm-Loewner evolution (or SLE_{kappa} ) with diffusivity kappa=8/3 . It is shown that the absence of the nonlinear term in the KPZ equation will change the diffusivity kappa from 8/3 to 4, indicating that the isoheight lines of the Edwards-Wilkinson surface are also conformally invariant and belong to the universality class of domain walls in the O(2) spin model.

Conformal curves on the WO3 surface.

We have studied the isoheight lines on the WO3 surface as a physical candidate for conformally invariant curves. We have shown that these lines are conformally invariant with the same statistics of domain walls in the critical Ising model. They belong to the family of conformal invariant curves called Schramm-Loewner evolution (or SLE(kappa)), with diffusivity of kappa approximately 3. This can be regarded as the first experimental observation of SLE curves. We have also argued that Ballistic Deposition (BD) can serve as a growth model giving rise to contours with similar statistics at large scales.

2-Amino-1-methyl-6-phenylimidazo[4,5-b]pyridine (PhIP) modulates lactogenic hormone-mediated differentiation and gene expression in HC11 mouse mammary epithelial cells.

2-Amino-1-methyl-6-phenylimidazo[4,5-b]pyridine (PhIP) is a mammary gland carcinogen in cooked meat. Using the HC11 mouse mammary epithelial cell line, a well-characterized model for hormone-mediated differentiation, we examined whether PhIP altered the expression of genes regulated by lactogenic hormones dexamethasone, insulin, and prolactin (DIP). When HC11-Lux cells (stably transfected with a beta-casein promoter luciferase construct) were cultured in DIP-containing medium, PhIP (100 microM) enhanced luciferase activity 11-fold over that observed in DIP medium alone. The effect of PhIP on augmenting luciferase activity was observed only when lactogenic hormones were included in the medium. Expression of the endogenous beta-casein gene was also higher in HC11 cells treated with PhIP in hormone-enriched medium. With the increased expression of beta-casein gene, the level of phospho-signal transducer and activator of transcription 5A (phospho-STAT5A), the transcription factor regulating beta-casein gene expression, was elevated in PhIP-exposed HC11 cells. AG490, a Janus kinase 2 (JAK2)-specific inhibitor, blocked the effect of PhIP on beta-casein gene expression. PhIP-treated cells also showed higher expression of Bcl-2 and lower expression of Bax, consistent with a possible antiapoptotic action of PhIP. The findings indicate that PhIP modulates lactogenic hormone-mediated gene expression in mammary epithelial cells, apparently via enhanced phosphorylation of STAT5A. The findings have implications for a novel mechanism of action of the mammary gland carcinogen PhIP.

Cobalt(II)-selective membrane electrode based on a recently synthesized benzo-substituted macrocyclic diamide.

A PVC-membrane electrode based on a recently synthesized 18-membered macrocyclic diamide is presented. The electrode reveals a Nernstian potentiometric response for Co2+ over a wide concentration range (2.0 x 10(-6)-1.0 x 10(-2) M). The electrode has a response time of about 10 s and can be used for at least 2 months without any divergence. The proposed sensor revealed very good selectivities for Co2+ over a wide variety of other metal ions, and could be used over a wide pH range (3.0-8.0). The detection limit of the sensor is 6.0 x 10(-7) M. It was successfully applied to the direct determination and potentiometric titration of cobalt ion.

Structure of an early intermediate in the M-state phase of the bacteriorhodopsin photocycle.

The structure of an early M-intermediate of the wild-type bacteriorhodopsin photocycle formed by actinic illumination at 230 K has been determined by x-ray crystallography to a resolution of 2.0 A. Three-dimensional crystals were trapped by illuminating with actinic light at 230 K, followed by quenching in liquid nitrogen. Amide I, amide II, and other infrared absorption bands, recorded from single bacteriorhodopsin crystals, confirm that the M-substate formed represents a structure that occurs early after deprotonation of the Schiff base. Rotation about the retinal C13-C14 double bond appears to be complete, but a relatively large torsion angle of 26 degrees is still seen for the C14-C15 bond. The intramolecular stress associated with the isomerization of retinal and the subsequent deprotonation of the Schiff base generates numerous small but experimentally measurable structural changes within the protein. Many of the residues that are displaced during the formation of the late M (M(N)) substate formed by three-dimensional crystals of the D96N mutant (Luecke et al., 1999b) are positioned, in early M, between their resting-state locations and the ones which they will adopt at the end of the M phase. The relatively small magnitude of atomic displacements observed in this intermediate, and the well-defined positions adopted by nearly all of the atoms in the structure, may make the formation of this structure favorable to model (simulate) by molecular dynamics.