An Unexpected Stereochemical Insignificance Discovered in \u3cem\u3eAcinetobacter baumannii\u3c/em\u3e Quorum Sensing

Stereochemistry is a key aspect of molecular recognition for biological systems. As such, receptors and enzymes are often highly stereospecific, only recognizing one stereoisomer of a ligand. Recently, the quorum sensing signaling molecules used by the nosocomial opportunistic pathogen, Acinetobacter baumannii, were identified, and the primary signaling molecule isolated from this species was N-(3-hydroxydodecanoyl)-l-homoserine lactone. A plethora of bacterial species have been demonstrated to utilize 3-hydroxy-acylhomoserine lactone autoinducers, and in virtually all cases, the (R)-stereoisomer was identified as the natural ligand and exhibited greater autoinducer activity than the corresponding (S)-stereoisomer. Using chemical synthesis and biochemical assays, we have uncovered a case of stereochemical insignificance in A. baumannii and provide a unique example where stereochemistry appears nonessential for acylhomoserine lactone-mediated quorum sensing signaling. Based on previously reported phylogenetic studies, we suggest that A. baumannii has evolutionarily adopted this unique, yet promiscuous quorum sensing system to ensure its survival, particularly in the presence of other proteobacteria

GOCI Yonsei Aerosol Retrieval (YAER) algorithm and validation during the DRAGON-NE Asia 2012 campaign

The Geostationary Ocean Color Imager (GOCI) onboard the Communication, Ocean, and Meteorological Satellite (COMS) is the first multi-channel ocean color imager in geostationary orbit. Hourly GOCI top-of-atmosphere radiance has been available for the retrieval of aerosol optical properties over East Asia since March 2011. This study presents improvements made to the GOCI Yonsei Aerosol Retrieval (YAER) algorithm together with validation results during the Distributed Regional Aerosol Gridded Observation Networks - Northeast Asia 2012 campaign (DRAGON-NE Asia 2012 campaign). The evaluation during the spring season over East Asia is important because of high aerosol concentrations and diverse types of Asian dust and haze. Optical properties of aerosol are retrieved from the GOCI YAER algorithm including aerosol optical depth (AOD) at 550 nm, fine-mode fraction (FMF) at 550 nm, single-scattering albedo (SSA) at 440 nm, Angstrom exponent (AE) between 440 and 860 nm, and aerosol type. The aerosol models are created based on a global analysis of the Aerosol Robotic Networks (AERONET) inversion data, and covers a broad range of size distribution and absorptivity, including nonspherical dust properties. The Cox-Munk ocean bidirectional reflectance distribution function (BRDF) model is used over ocean, and an improved minimum reflectance technique is used over land. Because turbid water is persistent over the Yellow Sea, the land algorithm is used for such cases. The aerosol products are evaluated against AERONET observations and MODIS Collection 6 aerosol products retrieved from Dark Target (DT) and Deep Blue (DB) algorithms during the DRAGON-NE Asia 2012 campaign conducted from March to May 2012. Comparison of AOD from GOCI and AERONET resulted in a Pearson correlation coefficient of 0.881 and a linear regression equation with GOCI AOD = 1.083 x AERONET AOD -0.042. The correlation between GOCI and MODIS AODs is higher over ocean than land. GOCI AOD shows better agreement with MODIS DB than MODIS DT. The other GOCI YAER products (AE, FMF, and SSA) show lower correlation with AERONET than AOD, but still show some skills for qualitative use.open1

Characteristics of Classified Aerosol Types in South Korea during the MAPS-Seoul Campaign

During the Megacity Air Pollution Studies-Seoul (MAPS-Seoul) campaign from May to June 2015, aerosol optical properties in Korea were obtained based on the AERONET sunphotometer measurement at five sites (Anmyon, Gangneung_WNU, Gosan_SNU, Hankuk_UFS, and Yonsei_University). Using this dataset, we examine regional aerosol types by applying a number of known aerosol classification methods. We thoroughly utilize five different methods to categorize the regional aerosol types and evaluate the results from each method by inter-comparison. The differences and similarities among the results are also discussed, contingent upon the usage of AERONET inversion products, such as the single scattering albedo. Despite several small differences, all five methods suggest the same general features in terms of the regionally dominant aerosol type: Fine-mode aerosols with highly absorbing radiative properties dominate at HankukUFS and Yonsei_University; non-absorbing fine-mode particles form a large portion of the aerosol at Gosan_SNU; and coarse-mode particles cause some effects at Anmyon. The analysis of 3-day back-trajectories is also performed to determine the relationship between classified types at each site and the regional transport pattern. In particular, the spatiotemporally short-scale transport appears to have a large influence on the local aerosol properties. As a result, we find that the domestic emission in Korea significantly contributes to the high dominance of radiation-absorbing aerosols in the Seoul metropolitan area and the air-mass transport from China largely affects the western coastal sites, such as Anmyon and Gosan_SNU

Systems Analysis Implicates WAVE2 Complex in the Pathogenesis of Developmental Left-Sided Obstructive Heart Defects.

Genetic variants are the primary driver of congenital heart disease (CHD) pathogenesis. However, our ability to identify causative variants is limited. To identify causal CHD genes that are associated with specific molecular functions, the study used prior knowledge to filter de novo variants from 2,881 probands with sporadic severe CHD. This approach enabled the authors to identify an association between left ventricular outflow tract obstruction lesions and genes associated with the WAVE2 complex and regulation of small GTPase-mediated signal transduction. Using CRISPR zebrafish knockdowns, the study confirmed that WAVE2 complex proteins brk1, nckap1, and wasf2 and the regulators of small GTPase signaling cul3a and racgap1 are critical to cardiac development

Long-term variation of aerosol optical properties associated with aerosol types over East Asia using AERONET and satellite (VIIRS, OMI) data (2012-2019)

We analyzed annual and seasonal frequency in aerosol type over an 8-year period (2012-2019) to identify aerosol parameter trends over four ground sites and country regions in Korea, China, and Japan by using the Aerosol Robotic Network (AERONET), and the satellite-based Visible Infrared Imaging Radiometer Suite (VIIRS) and Ozone Monitoring Instrument (OMI). Decreasing trends are shown for aerosol optical depth (AOD), angstrom ng-stro center dot m exponent (AE), and fine mode fraction (FMF) in all countries. The decreasing trend in these data is considered to be due to a decrease in anthropogenic emissions. For the aerosol type frequency, decreases in the proportions of carbonaceous aerosols (CA) and non-absorbing aerosols (NA) were shown in the ground and satellite data, respectively. At most sites, the fractions of low AOD case (LOW) increased, whereas those of the Black and Brown Carbon (BC + BrC) category decreased. In Seoul, the fraction of LOW increased from 48.9% to 70.0%, and that of BC + BrC decreased continuously from 20.4% to 11.1% during 2012-2019. Beijing, on the other hand, showed decreasing LOW from 83.3% (2012) to 52.0% (2019), and that of BC + BrC increased significantly, from 2.4% to 26.2%. The satellite data showed that the percentage of LOW increased continuously, while that of NA aerosols decreased continuously in East Asia. A noticeable decrease in the fraction of CA was detected in China [21.5% (2013) to 11.2% (2019)]. In all countries, CA and NA aerosols had the greatest effect in winter and summer, respectively. We also detected significant differences between the fractions of NA and BC between the ground and satellite data. Changes in aerosol type and properties were observed concurrently in all ground and satellite data, and changes in aerosol type may explain the increasing and decreasing trends that we recorded for most parameters. Consistent results from both ground and satellite data suggest a steady decreasing in fine aerosol pollution in East Asia

New Approach to Monitor Transboundary Particulate Pollution over Northeast Asia

A new approach to more accurately monitor and evaluate transboundary particulate matter (PM) pollution is introduced based on aerosol optical products from Korea's Geostationary Ocean Color Imager (GOCI). The area studied is Northeast Asia (including eastern parts of China, the Korean peninsula and Japan), where GOCI has been monitoring since June 2010. The hourly multi-spectral aerosol optical data that were retrieved from GOCI sensor onboard geostationary satellite COMS (Communication, Ocean, and Meteorology Satellite) through the Yonsei aerosol retrieval algorithm were first presented and used in this study. The GOCI-retrieved aerosol optical data are integrated with estimated aerosol distributions from US EPA Models-3/CMAQ (Community Multi-scale Air Quality) v4.5.1 model simulations via data assimilation technique, thereby making the aerosol data spatially continuous and available even for cloud contamination cells. The assimilated aerosol optical data are utilized to provide quantitative estimates of transboundary PM pollution from China to the Korean peninsula and Japan. For the period of 1 April to 31 May, 2011 this analysis yields estimates that AOD as a proxy for PM2.5 or PM10 during long-range transport events increased by 117-265% compared to background average AOD (aerosol optical depth) at the four AERONET sites in Korea, and average AOD increases of 121% were found when averaged over the entire Korean peninsula. This paper demonstrates that the use of multi-spectral AOD retrievals from geostationary satellites can improve estimates of transboundary PM pollution. Such data will become more widely available later this decade when new sensors such as the GEMS (Geostationary Environment Monitoring Spectrometer) and GOCI-2 are scheduled to be launched

Accuracies of genomic breeding values in American Angus beef cattle using K-means clustering for cross-validation

<p>Abstract</p> <p>Background</p> <p>Genomic selection is a recently developed technology that is beginning to revolutionize animal breeding. The objective of this study was to estimate marker effects to derive prediction equations for direct genomic values for 16 routinely recorded traits of American Angus beef cattle and quantify corresponding accuracies of prediction.</p> <p>Methods</p> <p>Deregressed estimated breeding values were used as observations in a weighted analysis to derive direct genomic values for 3570 sires genotyped using the Illumina BovineSNP50 BeadChip. These bulls were clustered into five groups using K-means clustering on pedigree estimates of additive genetic relationships between animals, with the aim of increasing within-group and decreasing between-group relationships. All five combinations of four groups were used for model training, with cross-validation performed in the group not used in training. Bivariate animal models were used for each trait to estimate the genetic correlation between deregressed estimated breeding values and direct genomic values.</p> <p>Results</p> <p>Accuracies of direct genomic values ranged from 0.22 to 0.69 for the studied traits, with an average of 0.44. Predictions were more accurate when animals within the validation group were more closely related to animals in the training set. When training and validation sets were formed by random allocation, the accuracies of direct genomic values ranged from 0.38 to 0.85, with an average of 0.65, reflecting the greater relationship between animals in training and validation. The accuracies of direct genomic values obtained from training on older animals and validating in younger animals were intermediate to the accuracies obtained from K-means clustering and random clustering for most traits. The genetic correlation between deregressed estimated breeding values and direct genomic values ranged from 0.15 to 0.80 for the traits studied.</p> <p>Conclusions</p> <p>These results suggest that genomic estimates of genetic merit can be produced in beef cattle at a young age but the recurrent inclusion of genotyped sires in retraining analyses will be necessary to routinely produce for the industry the direct genomic values with the highest accuracy.</p

Balancing a sustained pursuit of nutrition, health, affordability and climate goals: exploring the case of Indonesia

Background: To guide the transformation of food systems to provide for healthy and sustainable diets, countries need to assess their current diet and food supply in comparison to nutrition, health, affordability, and environmental goals. Objectives: We sought to compare Indonesia’s food utilization to diets optimized for nutritional value and cost and to diets that are increasingly plant-based in order to meet further health and environmental goals, including the EAT-Lancet planetary health diet, to explore whether multiple goals could be achieved simultaneously. Methods: We compared 13 dietary scenarios (2 current, 7 optimized, 3 increasingly plant-based, 1 EAT-Lancet) for nutrient content, cost, greenhouse gas emissions (GHGe), and water footprints, using the FAO food balance sheet, Indonesia Household Income and Expenditure Survey household food expenditure, food composition, life cycle assessment, food losses, and trade data. Results: The diversity of modeled scenarios was higher than that of current consumption, reflecting nutritional deficiencies underlying Indonesia’s burden of different forms of malnutrition. Nutrient intake targets were met best by nutrient- and cost-optimized diets, followed by the EAT-Lancet diet. Those diets also had high GHGe, although less than 40% of a scenario in which Indonesia would adopt a typical high-income country’s diet. Only the low food chain diet had a GHGe below the 2050 target set by the EAT-Lancet commission. Its nutrient content was comparable to that of a no-dairy diet, slightly above those of fish-and-poultry and current diets, and somewhat below those of the EAT-Lancet diets. To meet nutrient needs, some animal-source foods had to be included. Costs of all except the optimized diets were above the current national average food expenditure. No scenario met all goals simultaneously. Conclusions: Indonesia’s consumption of rice and unhealthy foods should decrease; food production, trade, and processing should prioritize diversification, (bio)fortification, and limiting environmental impacts; and consumer and institutional demands for healthy, nutritious, and sustainable foods should be stimulated. More granula