Miracle-dz/UniFAR-FTUs huggingface dataset:
First measurements of methyl tert-butyl ether (MTBE) in the ambient air in San Jose, Costa Rica

A great interest has arisen in establishing the impact of organic compounds on human health and air quality, especially those compounds emitted by automotive traffic. Knowledge of urban air pollutant concentrations is essential for the determination of exposure levels. With this information public health problems can be avoided and emissions sources can be identified. MTBE is one of such compound because of its effects both to the environment and to humans. In Costa Rica, as in many other parts of the world, MTBE has been added to gasoline up to 10% v/v. This study investigates ambient air concentration of MTBE in San Jose, Costa Rica. Samples were collected during October– December 2005 using Carbotrap ® cartridges and analyzed by thermal desorption combined with capillary gas chromatography. MTBE levels ranged from < 0.1 to 7.0 ppbv, with the highest concentrations observed in the wet season’s months (May to November). The highways and industrial areas were identified as MTBE’s point sources, both related with vehicle emissions. High levels of MTBE were also found in the vicinity of a gas station. These values represent the first measurements made in a Central American location, but are similar to those reported in other urban areas. The MTBE ambient air levels in San Jose, Costa Rica were not known until this study in 2005.
The monitoring of critical infrastructures using microwave radiometers

Microwaves in the range of 1-300 GHz are used in many respects for remote sensing applications. Besides radar sensors particularly passive measurement methods are used for two-dimensional imaging. The imaging of persons and critical infrastructures for security purposes is of increasing interest particularly for transportation services or public events. Personnel inspection with respect to weapons and explosives becomes an important mean concerning terrorist attacks. Microwaves can penetrate clothing and a multitude of other materials and allow the detection of hidden objects by monitoring dielectric anomalies. Passive microwave remote sensing allows a daytime independent non-destructive observation and examination of the objects of interest under nearly all weather conditions without artificial exposure of persons or areas. The performance of millimeter-wave radiometric imaging with respect to wide-area surveillance is investigated. Measurement results of some typical critical infrastructure scenarios are discussed. Requirements for future operational systems are outlined exploring a radiometric range equation.
Cortico-Cardio-Respiratory Network Interactions during Anesthesia

General anesthetics are used during medical and surgical procedures to reversibly induce a state of total unconsciousness in patients. Here, we investigate, from a dynamic network perspective, how the cortical and cardiovascular systems behave during anesthesia by applying nonparametric spectral techniques to cortical electroencephalography, electrocardiogram and respiratory signals recorded from anesthetized rats under two drugs, ketamine-xylazine (KX) and pentobarbital (PB). We find that the patterns of low-frequency cortico-cardio-respiratory network interactions may undergo significant changes in network activity strengths and in number of network links at different depths of anesthesia dependent upon anesthetics used.
Web-Based Aftercare for Women With Bulimia Nervosa Following Inpatient Treatment: Randomized Controlled Efficacy Trial

Background Relapse rates in bulimia nervosa (BN) are high even after successful treatment, but patients often hesitate to take up further treatment. An easily accessible program might help maintain treatment gains. Encouraged by the effects of Web-based eating disorder prevention programs, we developed a manualized, Web-based aftercare program (IN@) for women with BN following inpatient treatment. Objective The objective of this study was to determine the efficacy of the web-based guided, 9-month, cognitive-behavioral aftercare program IN@ for women with BN following inpatient treatment. Methods We conducted a randomized controlled efficacy trial in 253 women with DSM-IV (Diagnostic and Statistical Manual of Mental Disorders, fourth edition) BN and compared the results of IN@ with treatment as usual (TAU). Assessments were carried out at hospital admission (T0), hospital discharge/baseline (T1), postintervention (T2; 9 months after baseline), 9-month follow-up (T3; 18 months after baseline). The primary outcome, abstinence from binge eating and compensatory behaviors during the 2 months preceding T2, was analyzed by intention to treat, using logistic regression analyses. Frequencies of binge eating and vomiting episodes, and episodes of all compensatory behaviors were analyzed using mixed effects models. Results At T2, data from 167 women were available. There were no significant differences in abstinence rates between the TAU group (n=24, 18.9%) and the IN@ group (n=27, 21.4%; odds ratio, OR=1.29; P=.44). The frequency of vomiting episodes in the IN@ group was significantly (46%) lower than in the TAU group (P=.003). Moderator analyses revealed that both at T2 and T3, women of the intervention group who still reported binge eating and compensatory behaviors after inpatient treatment benefited from IN@, whereas women who were already abstinent after the inpatient treatment did not (P=.004; P=.002). Additional treatment utilization was high in both groups between baseline and follow-up. Conclusions Overall, data from this study suggest moderate effects of IN@. High rates of outpatient treatment utilization after inpatient treatment may have obscured potential intervention effects on abstinence. An aftercare intervention might be more beneficial as part of a stepped-care approach. Trial Registration International Standard Randomized Controlled Trial Number (ISRCTN): 08870215; http://www.isrctn. com/ISRCTN08870215 (Archived by WebCite at http://www.webcitation.org/6soA5bIit)
Water balance study and conjunctive water use planning in an irrigation canal command area: A remote sensing perspective

Water budgeting of the D-36 and D-36 A distributaries confined between Pedda Vagu, Korutla Vagu and Kakatiya main canal of the Sri RamSagar Project (SRSP) Command area was conducted using remote sensing derived crop areas, land cover information, irrigation tank inventory and source-wise distribution of irrigated areas, together with conventional meteorological, canal flows and well inventory data. A semi-empirical water balance model was developed and validated using remote sensing derived objective information of the command area and the validated model used for predicting the groundwater table under normal rainfall conditions. Recharge and water balance in the study area indicated that the net recharge to the aquifer is negative to the tune of 2.54 Mm3 resulting in a fall of the groundwater table by 0.79 m during 1992-93. However, normalized groundwater recharge and water balance estimates indicate an impending waterlogging problem with an annual groundwater table rise of 0.35 m. In view of existing water management practices, a conjunctive water use plan of rotational operation of aquifers and canals is suggested.
Cloud Simulations in Response to Turbulence Parameterizations in the GISS Model E GCM

AbstractThe response of cloud simulations to turbulence parameterizations is studied systematically using the GISS general circulation model (GCM) E2 employed in the Intergovernmental Panel on Climate Change’s (IPCC) Fifth Assessment Report (AR5). Without the turbulence parameterization, the relative humidity (RH) and the low cloud cover peak unrealistically close to the surface; with the dry convection or with only the local turbulence parameterization, these two quantities improve their vertical structures, but the vertical transport of water vapor is still weak in the planetary boundary layers (PBLs); with both local and nonlocal turbulence parameterizations, the RH and low cloud cover have better vertical structures in all latitudes due to more significant vertical transport of water vapor in the PBL. The study also compares the cloud and radiation climatologies obtained from an experiment using a newer version of turbulence parameterization being developed at GISS with those obtained from the AR5 ver.
Stratification and Between-Group Inequality: A New Approach to Measurement

Traditionally, the literature has seen stratification as linked closely to within-group inequality. More recently, some papers have focused on measuring the impact of stratification on betweengroup inequality. In this paper, we show that when two groups are involved, such an impact can be measured by a simple comparison of the two cumulative distribution functions. This approach allows an interpretation of stratification in terms of probabilities and paves the way for a neat and simple graphical illustration. We apply it to the analysis of between-continent inequality.
Modelling gross primary production in the Heihe river basin and uncertainty analysis

Accurate and timely monitoring of gross primary production (GPP) at regional and global scales is necessary for understanding the terrestrial biosphere carbon balance. In this article, 8-day composite GPP is estimated using the region production efficiency model (REG-PEM) in the Heihe river basin from 2006 to 2008. The result indicates that GPP meets the seasonal cycle well and varies with different land covers. Analysis of uncertainty and sensitivity of the REG-PEM model are implemented by the Monte Carlo method. GPP is simulated with a test data set; the data set includes three groups, and each group has 8000 points. The three groups obey uniform distribution, normal distribution and beta distribution, respectively. Uncertainty is assessed by the quantification of mean values and standard deviation of outputs. The distribution of simulated GPP is slightly different from that of model-calculated GPP over the study sites. Among the input parameters, the land surface water index (LSWI) and air temperature (T) make less of a contribution to model output than photosynthetic active radiation (PAR) and the enhanced vegetation index (EVI). The main sources of model uncertainty are input data uncertainty and uncertainty from the specific model.
AnimalQTLdb: a livestock QTL database tool set for positional QTL information mining and beyond

The Animal Quantitative Trait Loci (QTL) database (AnimalQTLdb) is designed to house all publicly available QTL data on livestock animal species from which researchers can easily locate and compare QTL within species. The database tools are also added to link the QTL data to other types of genomic information, such as radiation hybrid (RH) maps, finger printed contig (FPC) physical maps, linkage maps and comparative maps to the human genome, etc. Currently, this database contains data on 1287 pig, 630 cattle and 657 chicken QTL, which are dynamically linked to respective RH, FPC and human comparative maps. We plan to apply the tool to other animal species, and add more structural genome information for alignment, in an attempt to aid comparative structural genome studies ().
Comprehensive Analysis Reveals Novel Interactions between Circulating MicroRNAs and Gut Microbiota Composition in Human Obesity

Background: The determinants that mediate the interactions between microRNAs and the gut microbiome impacting on obesity are scarcely understood. Thus, the aim of this study was to investigate possible interactions between circulating microRNAs and gut microbiota composition in obesity. Method: The sample comprised 78 subjects with obesity (cases, body mass index (BMI): 30–40 kg/m2) and 25 eutrophic individuals (controls, BMI ≤ 25 kg/m2). The expression of 96 microRNAs was investigated in plasma of all individuals using miRCURY LNA miRNA Custom PCR Panels. Bacterial DNA sequencing was performed following the Illumina 16S protocol. The FDR correction was used for multiple comparison analyses. Results: A total of 26 circulating microRNAs and 12 bacterial species were found differentially expressed between cases and controls. Interestingly, an interaction among three miRNAs (miR-130b-3p, miR-185-5p and miR-21-5p) with Bacteroides eggerthi and BMI levels was evidenced (r2 = 0.148, p = 0.004). Moreover, these microRNAs regulate genes that participate in metabolism-related pathways, including fatty acid degradation, insulin signaling and glycerolipid metabolism. Conclusions: This study characterized an interaction between the abundance of 4 bacterial species and 14 circulating microRNAs in relation to obesity. Moreover, the current study also suggests that miRNAs may serve as a communication mechanism between the gut microbiome and human hosts.
Assessment of genetically modified maize MON 87411 for food and feed uses, import and processing, under Regulation (EC) No 1829/2003 (application EFSA‐GMO‐NL‐2015‐124)

Abstract Maize MON 87411 was developed to confer resistance to corn rootworms (Diabrotica spp.) by the expression of a modified version of the Bacillus thuringiensis cry3Bb1 gene and a DvSnf7 dsRNA expression cassette, and tolerance to glyphosate‐containing herbicides by the expression of a CP4 5‐enolpyruvylshikimate‐3‐phosphate synthase (cp4 epsps) gene. The molecular characterisation data and bioinformatics analyses did not identify issues requiring assessment for food and feed safety. No statistically significant differences in the agronomic and phenotypic characteristics tested between maize MON 87411 and its conventional counterpart were identified. The compositional analysis of maize MON 87411 did not identify differences that required further assessment except for palmitic acid levels in grains from not treated maize MON 87411. The GMO Panel did not identify safety concerns regarding the toxicity and allergenicity of the Cry3Bb1 and CP4 EPSPS proteins, as expressed in maize MON 87411 and found no evidence that the genetic modification might significantly change the overall allergenicity of maize MON 87411. The nutritional impact of maize MON 87411‐derived food and feed is expected to be the same as those derived from the conventional counterpart and non‐GM commercial reference varieties. The GMO Panel concludes that maize MON 87411, as described in this application, is nutritionally equivalent to and as safe as the conventional counterpart and the non‐GM maize reference varieties tested, and no post‐market monitoring of food/feed is considered necessary. In the case of accidental release of viable maize MON 87411 grains into the environment, maize MON 87411 would not raise environmental safety concerns. The post‐market environmental monitoring plan and reporting intervals are in line with the intended uses of maize MON 87411. The GMO Panel concludes that maize MON 87411, as described in this application, is as safe as its conventional counterpart and the tested non‐GM maize reference varieties with respect to potential effects on human and animal health and the environment.
Ester-Linked Phospholipid Fatty Acids in Marine Sediments: Testing the Possibility of Methane Seepage in the Japan Sea

Two target sites in Japan Sea, Toyama Bay and Shiribeshi Seamount, were studied using deep-sea submersibles to ‘dowse’ or imply seafloor methane seepage by analysis of ester-linked phospholipid fatty acids in sediments. No methane seeps in the studied sites had been reported before. The sediments associated with yellow to red patches showed a relatively high abundance of phospholipid fatty acids with biomarkers for sulfate-reducing bacteria and methane-oxidizing bacteria. Similar phospholipid fatty acid compositions were found in the sediments near the dense colonies of the deep-sea tunicate Megalodicopia hians. The tunicate colonies were first discovered in the coastal Japan area by this study, and their association with possible methane seepage was suspected. These results suggest that microflora with sulfate-reducing and methane-oxidizing bacteria may have developed in adaptation to methane seepage in the bathyal Japan Sea floor, where gas hydrate is likely formed beneath. In addition, supplement 16S rDNA data from the yellow patch sediment in Toyama Bay suggested that sulfur-oxidizing bacteria occur in response to sulfide supplied by sulfate-reducing bacteria. As methane is a more effective greenhouse gas than carbon dioxide and thus has more impact on global biosphere from aquatic systems, these observations call for the survey of the distribution of methane seeps associated with faults and subsurface gas hydrate in the coastal Japan Sea.
Phyto-Beneficial Traits of Rhizosphere Bacteria: In Vitro Exploration of Plant Growth Promoting and Phytopathogen Biocontrol Ability of Selected Strains Isolated from Harsh Environments

Beneficial interactions between plants and some bacterial species have been long recognized, as they proved to exert various growth-promoting and health-protective activities on economically relevant crops. In this study, the growth promoting and antifungal activity of six bacterial strains, Paenarthrobacter ureafaciens, Beijerinckia fluminensis, Pseudomonas protegens, Arthrobacter sp. , Arthrobacter defluii, and Arthrobacter nicotinovorans, were investigated. The tested strains resulted positive for some plant growth promoting (PGP) traits, such as indole-3-acetic acid (IAA), 1-aminocyclopropane-1-carboxylate-deaminase (ACC-deaminase), siderophore production, and solubilization of phosphates. The effect of the selected bacteria on Arabidopsis thaliana seedlings growth was assessed using different morphological parameters. Bacterial activity against the phytopathogenic fungal species Aspergillus flavus, Fusarium proliferatum, and Fusarium verticillioides was also assessed, since these cause major yield losses in cereal crops and are well-known mycotoxin producers. Strains Pvr_9 (B. fluminensis) and PHA_1 (P. protegens) showed an important growth-promoting effect on A. thaliana coupled with a high antifungal activity on all the three fungal species. The analysis of bacterial broths through ultra performance liquid chromatography–mass spectrometry (UPLC–MS) and liquid chromatography–electrospray ionization–mass spectrometry (LC–ESI–MS/MS) confirmed the presence of potential PGP-compounds, among these are desferrioxamine B, aminochelin, asperchrome B, quinolobactin siderophores, and salicylic acid.
Detection and analysis of hepatitis C virus in HIV-infected patients in the Guangxi province of China

The aim of the present study was to investigate the prevalence rate of hepatitis C virus (HCV) infection in human immunodeficiency virus (HIV)-positive individuals and to study the infection status of HCV RNA in HIV-infected individuals who did not have anti-HCV antibodies in the Guangxi province of China, in order to provide basis for screening and clinical treatment of hepatitis C in future. Data were collected from patients recruited via a questionnaire. Between August 2008 and January 2009, 300 HIV-infected individuals were randomly selected from various HIV monitoring points in Liuzhou and Qinzhou (Guangxi, China). In addition, 41 patients with only hepatitis C were recruited from a hospital clinic (First Affiliated Hospital of Guangxi Medical University, Nanning, China). HCV antibodies in patient serum samples were detected by ELISA. HCV RNA expression was detected using nested polymerase chain reaction (PCR), HCV RNA levels in the serum were evaluated using quantitative fluorescence PCR, and HCV genotypes were confirmed using restriction fragment length polymorphism. The infection rate of HCV in the HIV-infected people was 48.67%. The anti-HCV positive rate differed between routes of disease transmission: Anti-HCV positive rate was 63.7% among drug users, 34.96% among sex-transmitted persons and 1.37% among other persons. In the anti-HCV-negative group, the HCV RNA-positive rate was 26.62%. In the anti-HCV-positive group, HCV RNA positive rate was 78.08%. HCV RNA level of HIV/HCV coinfected patients was higher than those infected with HCV alone, and there was no difference of anti-HCV-positive rate among different levels of HCV RNA. HCV genotypes of HIV/HCV coinfected persons showed diversity across Guangxi, and the predominant ones were the 1b and mixed subtypes. The predominant HCV genotypes were 6a, mixed subtypes and 3b amongst patients that contracted HCV via drug use-related routes of transmission. The patients with HCV transmission routes other than drug-related routes possessed 1b and 1a+1b genotypes. In conclusion, there was a large proportion of HIV infected persons with mixed HCV infection in the Guangxi province of China. The present results show that 26.62% of HCV-infected persons will be fail to be diagnosed with hepatitis C virus coinfection if we simply use ELISA to detect HCV antibody. The predominant HCV genotypes were 1b, mixed, 6a and 3b in HIV/HCV coinfected persons.
Comparison between Resectable Helicobacter pylori-Negative and -Positive Gastric Cancers

Background/Aims Controversy exists regarding the characteristics of Helicobacter pylori infection-negative gastric cancer (HPIN-GC). The aim of this study was to evaluate clinicopathologic features of HPIN-GC compared to H. pylori infection-positive gastric cancer (HPIP-GC) using a comprehensive analysis that included genetic and environmental factors. Methods H. pylori infection status of 705 resectable gastric cancer patients was determined by the rapid urease test, testing for anti-H. pylori antibodies, histologic analysis and culture of gastric cancer tissue samples, and history of H. pylori eradication. HPIN-GC was defined as gastric cancer that was negative for H. pylori infection based on all five methods and that had no evidence of atrophy in histology or serology. Results The prevalence of HPIN-GC was 4% (28/705). No significant differences with respect to age, sex, smoking, drinking, family history of gastric cancer or obesity were observed between the two groups. HPIN-GC tumors were marginally more likely to involve the cardia (14.3% for HPIN-GC vs 5.3% for HPIP-GC, p=0.068). The Lauren classification, histology, and TNM stage did not differ according to H. pylori infection status. Microsatellite instability was not different between the two groups, but p53 overexpression in HPIN-GC was marginally higher than in HPIP-GC (56.0% for HPIN-GC vs 37.0% for HPIP-GC, p=0.055). Conclusions The prevalence of HPIN-GC was extremely low, and its clinicopathologic characteristics were similar to HPIP-GC.