An Analysis of the Conservation Importance of Amazon Borderlands Using Geographic Information Systems

At 6,000,000 km2, the Amazon basin is a critical hotspot of global biodiversity. The Amazon lowland is often incorrectly portrayed as a single homogenous unit, a vast and unpopulated region (Eva & Huber 2005). In actuality, nine countries comprise the Amazon, creating a mosaic of ecological, cultural and political boundaries (Manne 2003, Maffi 2005). Our aim is to test whether these Amazonian borderlands have greater conservation significance than the Amazonian interior. The political geography has profound effects on conservation as each country designates and maintains area differently (Eva & Huber 2005). Depending on management type, protected areas shelter ecosystems from an array of environmental disruption including: resource extraction, hunting, large-scale agriculture and urban encroachment (Rodrigues et al. 2004). Due to these protections, we assume that regions with higher percent of protected area are more biodiverse than similar unprotected areas (Bruner et al. 2001). Therefore, we use national protected areas as a proxy for biological diversity.https://scholarship.richmond.edu/geography-posters/1006/thumbnail.jp

Embedded polarizing filters to separate diffuse and specular reflection

Polarizing filters provide a powerful way to separate diffuse and specular reflection; however, traditional methods rely on several captures and require proper alignment of the filters. Recently, camera manufacturers have proposed to embed polarizing micro-filters in front of the sensor, creating a mosaic of pixels with different polarizations. In this paper, we investigate the advantages of such camera designs. In particular, we consider different design patterns for the filter arrays and propose an algorithm to demosaic an image generated by such cameras. This essentially allows us to separate the diffuse and specular components using a single image. The performance of our algorithm is compared with a color-based method using synthetic and real data. Finally, we demonstrate how we can recover the normals of a scene using the diffuse images estimated by our method.Comment: ACCV 201

The per-protocol effect of immediate versus deferred antiretroviral therapy initiation

OBJECTIVE: The START trial found a lower risk of a composite clinical outcome in HIV-positive individuals assigned to immediate initiation of antiretroviral therapy (ART) compared with those assigned to deferred initiation. However, 30% of those assigned to deferred initiation started ART earlier than the protocol specified. To supplement the published intention-to-treat effect estimates, here we estimate the per-protocol effect of immediate versus deferred ART initiation in START. DESIGN: The START trial randomized 4685 HIV-positive participants with CD4 counts > 500 /mm to start ART immediately after randomization (immediate initiation group) or to wait until the CD4 count dropped below 350 cells/mm or an AIDS diagnosis (deferred initiation group). METHODS: We used the parametric g-formula to estimate and compare the cumulative 5-year risk of the composite clinical outcome in the immediate and deferred initiation groups had all the trial participants adhered to the protocol. RESULTS: We estimated that the 5-year risk of the composite outcome would have been 3.2% under immediate ART initiation and 7.0% under deferred initiation. The difference of 3.8% (95% confidence interval 1.5,6.5) was larger than the intention-to-treat effect estimate of 3.1%, corresponding to a difference in effect estimates of 0.72% (-0.35,2.35). CONCLUSIONS: The intention-to-treat effect estimate may underestimate the benefit of immediate ART initiation by 23%. This estimate can be used by patients and policy makers who need to understand the full extent of the benefit of changes in ART initiation policies

Intercomparison of the northern hemisphere winter mid-latitude atmospheric variability of the IPCC models

We compare, for the overlapping time frame 1962-2000, the estimate of the northern hemisphere (NH) mid-latitude winter atmospheric variability within the XX century simulations of 17 global climate models (GCMs) included in the IPCC-4AR with the NCEP and ECMWF reanalyses. We compute the Hayashi spectra of the 500hPa geopotential height fields and introduce an integral measure of the variability observed in the NH on different spectral sub-domains. Only two high-resolution GCMs have a good agreement with reanalyses. Large biases, in most cases larger than 20%, are found between the wave climatologies of most GCMs and the reanalyses, with a relative span of around 50%. The travelling baroclinic waves are usually overestimated, while the planetary waves are usually underestimated, in agreement with previous studies performed on global weather forecasting models. When comparing the results of various versions of similar GCMs, it is clear that in some cases the vertical resolution of the atmosphere and, somewhat unexpectedly, of the adopted ocean model seem to be critical in determining the agreement with the reanalyses. The GCMs ensemble is biased with respect to the reanalyses but is comparable to the best 5 GCMs. This study suggests serious caveats with respect to the ability of most of the presently available GCMs in representing the statistics of the global scale atmospheric dynamics of the present climate and, a fortiori, in the perspective of modelling climate change.Comment: 39 pages, 8 figures, 2 table

System design study of a VLEO satellite platform using the IRS RF helicon-based plasma thruster

To achieve a feasible lifetime of several years, most satellites are deployed in orbits higher than 400 km. Drag of residual atmosphere causes a slow orbit decay, resulting in the deorbit of the spacecraft. However, e.g. optical instruments or communication devices would significantly benefit from lower altitudes in the range of 150–250 km. A solution to achieve this could be the application of atmosphere-breathing electric propulsion (ABEP), where the residual atmosphere is used to generate continuous thrust that compensates the drag.Within the EU-funded DISCOVERER project, the Institute of Space Systems (IRS) developed an electrode-less RF Helicon-based Plasma Thruster (IPT) suitable for such applications. Ignition and preliminary discharge characterizations of the IPT have been carried out at IRS facilities, using argon, nitrogen and oxygen. To further characterize the plasma plume, a torsional pendulum has been designed to determine the (local) momentum flux in the plasma jet, as well as a three-axis magnetic B-dot probe to carry out time-varying magnetic field measurements. Various intake designs were investigated, opening the possibility to conduct studies on potential satellite platforms within the frame of the ESA-funded project RAM-CLEP.A design study for an Earth Observation and Telecommunication satellite operating at 150–250 km with an extended mission lifetime is currently being carried out. The first system assessment focused on the comparison of different spacecraft configurations (“slender body” and “flat body”) and intake designs (specular or diffuse) with regard to overall drag and ABEP performance requirements.In this contribution, the design approaches for the current thruster and the diagnostic methods are depicted. Moreover, the current status of the system assessment is presented. Upcoming experimental studies of the ABEP system e.g. within the ESA-project RAM-CLEP and additional activities planned on system assessment are outlined.<br/

Superization of Homogeneous Spin Manifolds and Geometry of Homogeneous Supermanifolds

Let M_0=G_0/H be a (pseudo)-Riemannian homogeneous spin manifold, with reductive decomposition g_0=h+m and let S(M_0) be the spin bundle defined by the spin representation Ad:H->\GL_R(S) of the stabilizer H. This article studies the superizations of M_0, i.e. its extensions to a homogeneous supermanifold M=G/H whose sheaf of superfunctions is isomorphic to Lambda(S^*(M_0)). Here G is the Lie supergroup associated with a certain extension of the Lie algebra of symmetry g_0 to an algebra of supersymmetry g=g_0+g_1=g_0+S via the Kostant-Koszul construction. Each algebra of supersymmetry naturally determines a flat connection nabla^{S} in the spin bundle S(M_0). Killing vectors together with generalized Killing spinors (i.e. nabla^{S}-parallel spinors) are interpreted as the values of appropriate geometric symmetries of M, namely even and odd Killing fields. An explicit formula for the Killing representation of the algebra of supersymmetry is obtained, generalizing some results of Koszul. The generalized spin connection nabla^{S} defines a superconnection on M, via the super-version of a theorem of Wang.Comment: 50 page

Hepatitis C virus (HCV) RNA profiles among chronic HIV/HCV-coinfected individuals in ESPRIT; spontaneous HCV RNA clearance observed in nine individuals.

OBJECTIVES: Studies have shown that hepatitis C virus (HCV) RNA levels remain stable over time in HIV/HCV-coinfected individuals taking combination antiretroviral therapy (cART), while spontaneous clearance of HCV RNA during the persistent infection phase has been documented only rarely among those with the CC interleukin (IL)-28B genotype. This study describes HCV RNA profiles and factors associated with changes over time in HCV RNA levels in the ESPRIT study. METHODS: HIV/HCV-coinfected individuals positive for HCV RNA were included in the study. Follow-up was counted from the first HCV RNA positive test and censored at the initiation of interferon-based treatment. HCV RNA and IL-28B measurements were performed in the same reference laboratory. Random effects mixed models were used to analyse changes over time in HCV RNA. RESULTS: A total of 312 ESPRIT patients were included in the study (151 in the arm receiving subcutaneous recombinant IL-2 and 161 in the control arm). Most of the patients were white (89%) and male (76%), and they had a median of 5 HCV RNA measurements per person [interquartile range (IQR) 3-6; range 1-9]. Median follow-up was 5 years (IQR: 2-6 years). At baseline, 96% of patients were taking cART and 93% had undetectable HIV RNA. Mean HCV RNA levels decreased by 13% per year over the study period [95% confidence interval (CI) 8-18%; P < 0.0001]. Baseline HCV RNA levels and the change over time in HCV RNA did not differ by randomization arm (P = 0.16 and P = 0.56, respectively). Nine individuals spontaneously cleared HCV RNA during follow-up [IL-28B genotypes: CC, five patients (56%); CT, four patients (44%)]. CONCLUSIONS: HCV RNA levels decreased over time in this population with well-controlled HIV infection. Spontaneous clearance of HCV RNA was documented in five individuals with IL-28B genotype CC and four with the CT genotype

Natural and cryptic peptides dominate the immunopeptidome of atypical teratoid rhabdoid tumors

BACKGROUND: Atypical teratoid/rhabdoid tumors (AT/RT) are highly aggressive CNS tumors of infancy and early childhood. Hallmark is the surprisingly simple genome with inactivating mutations or deletions in the SMARCB1 gene as the oncogenic driver. Nevertheless, AT/RTs are infiltrated by immune cells and even clonally expanded T cells. However, it is unclear which epitopes T cells might recognize on AT/RT cells. METHODS: Here, we report a comprehensive mass spectrometry (MS)-based analysis of naturally presented human leukocyte antigen (HLA) class I and class II ligands on 23 AT/RTs. MS data were validated by matching with a human proteome dataset and exclusion of peptides that are part of the human benignome. Cryptic peptide ligands were identified using Peptide-PRISM. RESULTS: Comparative HLA ligandome analysis of the HLA ligandome revealed 55 class I and 139 class II tumor-exclusive peptides. No peptide originated from the SMARCB1 region. In addition, 61 HLA class I tumor-exclusive peptide sequences derived from non-canonically translated proteins. Combination of peptides from natural and cryptic class I and class II origin gave optimal representation of tumor cell compartments. Substantial overlap existed with the cryptic immunopeptidome of glioblastomas, but no concordance was found with extracranial tumors. More than 80% of AT/RT exclusive peptides were able to successfully prime CD8(+) T cells, whereas naturally occurring memory responses in AT/RT patients could only be detected for class II epitopes. Interestingly, >50% of AT/RT exclusive class II ligands were also recognized by T cells from glioblastoma patients but not from healthy donors. CONCLUSIONS: These findings highlight that AT/RTs, potentially paradigmatic for other pediatric tumors with a low mutational load, present a variety of highly immunogenic HLA class I and class II peptides from canonical as well as non-canonical protein sources. Inclusion of such cryptic peptides into therapeutic vaccines would enable an optimized mapping of the tumor cell surface, thereby reducing the likelihood of immune evasion