A transcription frame-based analysis of the genomic DNA sequence of a hyper-thermophilic archaeon for the identification of genes, pseudo-genes and operon structures

AbstractAn algorithm for identifying transcription units, independently regulated genes and operons, and pseudo-genes that are not expected to be expressed, has been developed by combining a system for predicting transcription and translation signals, and a system for scoring the triplet periodicity in ORF candidates. By using the algorithm, the 1.09 Mb sequence that covers approximately 60% of the genome of Pyrococcus sp. OT3 has been analyzed. The identified ORFs show the expected biological and physical characteristics, while the rejected ORF candidates do not. Frequent use of operon structures for transcription, and gene duplication followed by mutation or termination of the duplicated genes, are discussed

A Case of Pill-Induced Esophagitis With Mucosal Dissection

With the advance of gastrointestinal endoscopy, pill-induced esophagitis has been detected more frequently, but the association of mucosal dissection is rare. We reported a case of pill-induced esophagitis associated with mucosal dissection

Experimental demonstration of quantum teleportation of a squeezed state

Quantum teleportation of a squeezed state is demonstrated experimentally. Due to some inevitable losses in experiments, a squeezed vacuum necessarily becomes a mixed state which is no longer a minimum uncertainty state. We establish an operational method of evaluation for quantum teleportation of such a state using fidelity, and discuss the classical limit for the state. The measured fidelity for the input state is 0.85$\pm$ 0.05 which is higher than the classical case of 0.73$\pm$0.04. We also verify that the teleportation process operates properly for the nonclassical state input and its squeezed variance is certainly transferred through the process. We observe the smaller variance of the teleported squeezed state than that for the vacuum state input.Comment: 7 pages, 1 new figure, comments adde

Constraint-aware Policy for Compliant Manipulation

Robot manipulation in a physically-constrained environment requires compliant manipulation. Compliant manipulation is a manipulation skill to adjust hand motion based on the force imposed by the environment. Recently, reinforcement learning (RL) has been applied to solve household operations involving compliant manipulation. However, previous RL methods have primarily focused on designing a policy for a specific operation that limits their applicability and requires separate training for every new operation. We propose a constraint-aware policy that is applicable to various unseen manipulations by grouping several manipulations together based on the type of physical constraint involved. The type of physical constraint determines the characteristic of the imposed force direction; thus, a generalized policy is trained in the environment and reward designed on the basis of this characteristic. This paper focuses on two types of physical constraints: prismatic and revolute joints. Experiments demonstrated that the same policy could successfully execute various compliant-manipulation operations, both in the simulation and reality. We believe this study is the first step toward realizing a generalized household-robot

Ultrafiltration attenuates cardiopulmonary bypass–induced acute lung injury in a canine model of single-lung transplantation

ObjectiveThe purpose of this study was to investigate the effects of cardiopulmonary bypass and ultrafiltration on graft function in a canine single-lung transplantation model.MethodsFifteen left single-lung transplantations were done in weight-mismatched canine pairs. The animals were divided into 3 groups: group 1, in which transplantation was done without cardiopulmonary bypass; group 2, in which transplantation was done with cardiopulmonary bypass and in which the cardiopulmonary bypass flow was decreased slowly with controlled pulmonary artery pressure; and group 3, in which transplantation was done with cardiopulmonary bypass and ultrafiltration. Hemodynamic parameters and lung function were monitored for 6 hours after reperfusion. The grafts were harvested for histologic studies, myeloperoxidase assay, and real-time quantitive reverse transcription–polymerase chain reaction of mRNA encoding interleukin 6.ResultsThe hemodynamic parameters were similar among the 3 groups. In group 1 Pao2 and alveolar to arterial gradient for O2 levels were excellent throughout the 6-hour observation period, but in group 2 they progressively deteriorated. However, ultrafiltration significantly (P = .02) improved the Pao2 level in group 3. On histology, interstitial edema and polynuclear cell infiltration were most marked in group 2 and significantly worse than in groups 1 and 3. Myeloperoxidase assay and real-time quantitative reverse transcription–polymerase chain reaction showed increased myeloperoxidase activity and interleukin 6 gene expression in group 2 grafts compared with group 1 grafts. Myeloperoxidase activity and interleukin 6 gene expression were suppressed with ultrafiltration.ConclusionsCardiopulmonary bypass had negative effects on the graft, but ultrafiltration attenuated acute lung dysfunction by reducing the inflammatory response

ω-Carboxyl variants of 7-ketocholesteryl esters are ligands for β2-glycoprotein I and mediate antibody-dependent uptake of oxidized LDL by macrophages

beta(2)-Glycoprotein I (beta(2)-GPI) is a major antigen for anticardiolipin antibodies (aCL, Abs) present in patients with antiphospholipid syndrome. We recently reported that beta(2)-GPI specifically binds to oxidized LDL (oxLDL) and that the beta(2)-GPI's major ligand, oxLig-1 is 7-ketocholesteryl-9-carboxynonanoate (Kobayashi, K, E. Matsuura, Q. P. Liu, J. Furukawa, K. Kaihara, J. Inagaki, T. Atsumi, N. Sakairi, T. Yasuda, D. R. Welker, and T. Koike. 2001. A specific ligand for beta(2)-glycoprotein I mediates autoantibody-dependent uptake of oxidized low density lipoprotein by macrophages. J Lipid Res. 42: 697-709). In the present study, we demonstrate that omega-carboxylated 7-ketocholesteryl esters are critical for beta(2)-GPI binding. A positive ion mass spectrum of a novel ligand, designated oxLig-2, showed fragmented ions at m/z 383 and 441 in the presence of acetone, which share features of oxLig-1 and 7-ketocholesterol. In the negative ion mode, ions at m/z 627, 625, and 243 were observed. oxLig-2 was most likely 7-ketocholesteryl-12-carboxy (keto) dodecanoate. These ligands were recognized by beta(2)-GPI. Liposome binding to macrophages was significantly increased depending on the ligand's concentration, in the presence of beta(2)-GPI and an anti-beta(2)-GPI Ab. Synthesized variant, 7-ketocholesteryl-13-carboxytxidecanoate (13-COOH-7KC), also showed a significant interaction with beta(2)-GPI and a similar binding profile with macrophages. Methylation of the carboxyl function diminished all of the specific ligand interactions with beta(2)-GPI. Thus, omega-carboxyl variants of 7-ketocholesteryl esters can mediate anti-beta(2)-GPI Ab-dependent uptake of oxLDL by macrophages, and autoimmune atherogenesis linked to beta(2)-GPI interaction with oxLDL

Downscaling GLDAS Soil Moisture Data in East Asia through Fusion of Multi-Sensors by Optimizing Modified Regression Trees

Soilmoisture is a key part of Earth's climate systems, including agricultural and hydrological cycles. Soil moisture data from satellite and numerical models is typically provided at a global scale with coarse spatial resolution, which is not enough for local and regional applications. In this study, a soil moisture downscaling model was developed using satellite-derived variables targeting Global Land Data Assimilation System (GLDAS) soil moisture as a reference dataset in East Asia based on the optimization of a modified regression tree. A total of six variables, Advanced Microwave Scanning Radiometer 2 (AMSR2) and Advanced SCATterometer (ASCAT) soil moisture products, Shuttle Radar Topography Mission (SRTM) Digital Elevation Model (DEM), and MODerate resolution Imaging Spectroradiometer (MODIS) products, including Land Surface Temperature, Normalized Difference Vegetation Index, and land cover, were used as input variables. The optimization was conducted through a pruning approach for operational use, and finally 59 rules were extracted based on root mean square errors (RMSEs) and correlation coefficients (r). The developed downscaling model showed a good modeling performance (r = 0.79, RMSE = 0.056 m(3)center dot m(3), and slope = 0.74). The 1 km downscaled soil moisture showed similar time series patterns with both GLDAS and ground soil moisture and good correlation with ground soil moisture (average r = 0.47, average RMSD = 0.038 m(3)center dot m(3)) at 14 ground stations. The spatial distribution of 1 km downscaled soil moisture reflected seasonal and regional characteristics well, although the model did not result in good performance over a few areas such as Southern China due to very high cloud cover rates. The results of this study are expected to be helpful in operational use to monitor soil moisture throughout East Asia since the downscaling model produces daily high resolution (1 km) real time soil moisture with a low computational demand. This study yielded a promising result to operationally produce daily high resolution soil moisture data from multiple satellite sources, although there are yet several limitations. In future research, more variables including Global Precipitation Measurement (GPM) precipitation, Soil Moisture Active Passive (SMAP) soil moisture, and other vegetation indices will be integrated to improve the performance of the proposed soil moisture downscaling model.ope

Radiological characteristics and diagnostic impact of duplicated right adrenal veins on adrenal venous sampling in primary aldosteronism

PURPOSEWe aimed to analyze the prevalence and radiological characteristics of duplicated right adrenal veins (DRAVs) and evaluate the diagnostic impact of adrenal venous sampling (AVS) in primary aldosteronism.METHODSDRAVs were retrospectively identified among patients who underwent segmental AVS between April 2017 and March 2020. DRAVs were defined as main or accessory according to the drainage area. The diameter, position, hormone levels, and treatment plan based on AVS were compared between main and accessory RAVs, using the Wilcoxon rank-sum test.RESULTSFourteen of 432 patients (3.2%) were diagnosed with DRAVs. On venography, the mean diameters of the main and accessory side were 3±0.63 mm and 2.1±0.41 mm, respectively, and were significantly different (p < 0.001). The mean relative position in craniocaudal direction of main and accessory veins from the adrenal caudal edge on computed tomography was 65.5%±16.0%, and 48.1%±16.8%, respectively, which was significantly different (p = 0.007). The left–right positions and hormone levels were not significantly different. Based on conventional AVS, the treatment plan between DRAVs was not changed in six of eight patients, but changed from surgery to medication in two patients with right aldosterone-producing adenoma (APA)/microadenoma based on segmental AVS findings.CONCLUSIONDRAVs, in which the main RAV was thicker and more cranially located than the accessory RAV were rare. Depending on blood sampled from either of DRAVs, the diagnosis made through conventional AVS might change treatment approach from surgery to medication, especially with right APA. Hence, their identification is important to make an accurate subtyping by AVS