Hubble Parameter in Void Universe

We investigate the distance-redshift relation in the simple void model. As discussed by Moffat and Tatarski, if the observer stays at the center of the void, the observed Hubble parameter is not so different from the background Hubble parameter. However, if the position of observer is off center of the void, we must consider the peculiar velocity correction which is measured by the observed dipole anisotropy of cosmic microwave background. This peculiar velocity correction for the redshift is crucial to determine the Hubble parameter and we shall discuss this effect. Further the results of Turner et al by the N-body simulation will be also considered.Comment: 5 pages, uuencode compressed latex with 2 EPS figures

Data Integration and Analysis System (DIAS) as a Platform for Data and Model Integration: Cases in the Field of Water Resources Management and Disaster Risk Reduction

The development of data and model integration platforms has furthered scientific inquiry and helped to solve pressing social and environmental problems. While several e-infrastructure platforms have been developed, the concept of data and model integration remains obscure, and these platforms have produced few firm results. This article investigates data and model integration on the Data Integration and Analysis System (DIAS) platform, using three case projects from water-related fields. We provide concrete examples of data and model integration by analyzing the data transfer and analysis process, and demonstrate what platform functions are needed to promote the advantages of data and model integration. In addition, we introduce the Digital Object Identifier (DOI), a valuable tool for promoting data and model integration and open science. Our investigation reveals that DIAS advances data and model integration in five main ways: it is a “sophisticated and robust integration platform”; has “rich APIs, including a metadata management system, for high-quality data archive and utilization”; functions as a “core hydrological model”; and promotes a “collaborative R&D community” and “open science and data repositories”. This article will appeal especially to researchers interested in new methods of analysis, and information technology experts responsible for developing e-infrastructure systems to support environmental and scientific research

Data Integration and Analysis System (DIAS) as a platform for data and model integration: Cases in the field of water resources management and disaster risk reduction

The development of data and model integration platforms has furthered scientific inquiry and helped to solve pressing social and environmental problems. While several e-infrastructure platforms have been developed, the concept of data and model integration remains obscure, and these platforms have produced few firm results. This article investigates data and model integration on the Data Integration and Analysis System (DIAS) platform, using three case projects from water-related fields. We provide concrete examples of data and model integration by analyzing the data transfer and analysis process, and demonstrate what platform functions are needed to promote the advantages of data and model integration. In addition, we introduce the Digital Object Identifier (DOI), a valuable tool for promoting data and model integration and open science. Our investigation reveals that DIAS advances data and model integration in five main ways: it is a "sophisticated and robust integration platform"; has "rich APIs, including a metadata management system, for high-quality data archive and utilization"; functions as a "core hydrological model"; and promotes a "collaborative R&D community" and "open science and data repositories". This article will appeal especially to researchers interested in new methods of analysis, and information technology experts responsible for developing e-infrastructure systems to support environmental and scientific research

A novel three-unit tRNA splicing endonuclease found in ultrasmall Archaea possesses broad substrate specificity

tRNA splicing endonucleases, essential enzymes found in Archaea and Eukaryotes, are involved in the processing of pre-tRNA molecules. In Archaea, three types of splicing endonuclease [homotetrameric: α4, homodimeric: α2, and heterotetrameric: (αβ)2] have been identified, each representing different substrate specificity during the tRNA intron cleavage. Here, we discovered a fourth type of archaeal tRNA splicing endonuclease (ε2) in the genome of the acidophilic archaeon Candidatus Micrarchaeum acidiphilum, referred to as ARMAN-2 and its closely related species, ARMAN-1. The enzyme consists of two duplicated catalytic units and one structural unit encoded on a single gene, representing a novel three-unit architecture. Homodimeric formation was confirmed by cross-linking assay, and site-directed mutagenesis determined that the conserved L10-pocket interaction between catalytic and structural unit is necessary for the assembly. A tRNA splicing assay reveal that ε2 endonuclease cleaves both canonical and non-canonical bulge–helix–bulge motifs, similar to that of (αβ)2 endonuclease. Unlike other ARMAN and Euryarchaeota, tRNAs found in ARMAN-2 are highly disrupted by introns at various positions, which again resemble the properties of archaeal species with (αβ)2 endonuclease. Thus, the discovery of ε2 endonuclease in an archaeon deeply branched within Euryarchaeota represents a new example of the coevolution of tRNA and their processing enzymes

Essential roles of class E Vps proteins for sorting into multivesicular bodies in Schizosaccharomyces pombe

The multivesicular body (MVB) sorting pathway is required for a number of biological processes, including downregulation of cell-surface proteins and protein sorting into the vacuolar lumen. The function of this pathway requires endosomal sorting complexes required for transport (ESCRT) composed of class E vacuolar protein sorting (Vps) proteins in Saccharomyces cerevisiae, many of which are conserved in Schizosaccharomyces pombe. Of these, sst4/vps27 (homologous to VPS27) and sst6 (similar to VPS23) have been identified as suppressors of sterility in ste12Δ (sst), although their functions have not been uncovered to date. In this report, these two sst genes are shown to be required for vacuolar sorting of carboxypeptidase Y (CPY) and an MVB marker, the ubiquitin–GFP–carboxypeptidase S (Ub–GFP–CPS) fusion protein, despite the lack of the ubiquitin E2 variant domain in Sst6p. Disruption mutants of a variety of other class E vps homologues also had defects in sorting of CPY and Ub–GFP–CPS. Sch. pombe has a mammalian AMSH homologue, sst2. Phenotypic analyses suggested that Sst2p is a class E Vps protein. Taken together, these results suggest that sorting into multivesicular bodies is dependent on class E Vps proteins, including Sst2p, in Sch. pombe

Changes in rapid plasma reagin titers in patients with syphilis before and after treatment: A retrospective cohort study in an HIV/AIDS referral hospital in Tokyo.

IntroductionAlthough the rapid plasma reagin (RPR) test is used to determine treatment efficacy for syphilis, animal studies show that it decreases gradually after an initial increase even without treatment. Pre-treatment changes in RPR titer in humans and its relationship with post-treatment changes in RPR titer are not well known.MethodsWe retrospectively analyzed the clinical records of syphilitic patients who underwent automated RPR (Mediace) testing twice before treatment (i.e., at diagnosis and treatment initiation) within 1-3 months at an HIV/AIDS referral hospital in Japan between 2006 and 2018. The RPR values were expressed as the ratio to the value at treatment initiation. The mean monthly relative change in the RPR after treatment was calculated on the log2 scale for each patient and analyzed by multivariable linear regression.ResultsSixty-eight patients were identified. The median age was 45 (interquartile range [IQR], 38-50), 98.5% (67/68) were men, and 97.1% (66/68) had HIV. The median RPR titer ratio at treatment initiation/diagnosis was 0.87 (IQR, 0.48-1.30). The RPR titer decreased more than twofold in 26.5% (18/68) and more than fourfold in 10.3% (7/68) before treatment. In the multivariable analysis, higher age (predicted monthly RPR relative change on the log2 scale 0.23/10 years [95% confidence interval [CI], 0.090-0.37]), history of syphilis (0.36 [95% CI, 0.07-0.65]), and a lower ratio of RPR at treatment initiation/diagnosis (-0.52/every 10-fold increase [95% CI, -0.81 to -0.22]) were associated with a slower RPR decrease after treatment.ConclusionsIn a mostly HIV patient population, RPR titer can show more than four-fold spontaneous increase or decrease within 1-3 months. Pre-treatment spontaneous decrease of RPR titer was associated with a slower decrease in post-treatment RPR titer