Ecological impacts of the expansion of offshore wind farms on trophic level species of marine food chain.

The global demand for renewable energy has resulted in a rapid expansion of offshore wind farms (OWFs) and increased attention to the ecological impacts of OWFs on the marine ecosystem. Previous reviews mainly focused on the OWFs' impacts on individual species like birds, bats, or mammals. This review collected numerous field-measured data and simulated results to summarize the ecological impacts on phytoplankton, zooplankton, zoobenthos, fishes, and mammals from each trophic level and also analyze their interactions in the marine food chain. Phytoplankton and zooplankton are positively or adversely affected by the 'wave effect', 'shading effect', oxygen depletion and predation pressure, leading to a ± 10% fluctuation of primary production. Although zoobenthos are threatened transiently by habitat destruction with a reduction of around 60% in biomass in the construction stage, their abundance exhibited an over 90% increase, dominated by sessile species, due to the 'reef effect' in the operation stage. Marine fishes and mammals are to endure the interferences of noise and electromagnetic, but they are also aggregated around OWFs by the 'reef effect' and 'reserve effect'. Furthermore, the complexity of marine ecosystem would increase with a promotion of the total system biomass by 40% through trophic cascade effects strengthen and resource partitioning alternation triggered by the proliferation of filter-feeders. The suitable site selection, long-term monitoring, and life-cycle-assessment of ecological impacts of OWFs that are lacking in current literature have been described in this review, as well as the carbon emission and deposition.

Advances in methane emissions from agricultural sources: Part I. Accounting and mitigation.

Methane is one of the major greenhouse gases (GHGs) and agriculture is recognized as its primary emitter. Methane accounting is a prerequisite for developing effective agriculture mitigation strategies. In this review, methane accounting methods and research status for various agricultural emission source including rice fields, animal enteric fermentation and livestock and poultry manure management were overview, and the influencing factors of each emission source were analyzed and discussed. At the same time, it analyzes the different research efforts involving agricultural methane accounting and makes recommendations based on the actual situation. Finally, mitigation strategies based on accounting results and actual situation are proposed. This review aims to provide basic data and reference for agriculture-oriented countries and regions to actively participate in climate action and carry out effective methane emission mitigation.

Domain-specific Topic Model for Knowledge Discovery in Computational and Data-Intensive Scientific Communities.

Shortened time to knowledge discovery and adapting prior domain knowledge is a challenge for computational and data-intensive communities such as e.g., bioinformatics and neuroscience. The challenge for a domain scientist lies in the actions to obtain guidance through query of massive information from diverse text corpus comprising of a wide-ranging set of topics when: investigating new methods, developing new tools, or integrating datasets. In this paper, we propose a novel "domain-specific topic model" (DSTM) to discover latent knowledge patterns about relationships among research topics, tools and datasets from exemplary scientific domains. Our DSTM is a generative model that extends the Latent Dirichlet Allocation (LDA) model and uses the Markov chain Monte Carlo (MCMC) algorithm to infer latent patterns within a specific domain in an unsupervised manner. We apply our DSTM to large collections of data from bioinformatics and neuroscience domains that include more than 25,000 of papers over the last ten years, featuring hundreds of tools and datasets that are commonly used in relevant studies. Evaluation experiments based on generalization and information retrieval metrics show that our model has better performance than the state-of-the-art baseline models for discovering highly-specific latent topics within a domain. Lastly, we demonstrate applications that benefit from our DSTM to discover intra-domain, cross-domain and trend knowledge patterns.

Insights into reactive oxygen species formation induced by water-soluble organic compounds and transition metals using spectroscopic method.

Ambient particulate matter (PM) can cause adverse health effects via their ability to produce Reactive Oxygen Species (ROS). Water-Soluble Organic Compounds (WSOCs), a complex mixture of organic compounds which usually coexist with Transition Metals (TMs) in PM, have been found to contribute to ROS formation. However, the interaction between WSOCs and TMs and its effect on ROS generation are still unknown. In this study, we examined the ROS concentrations of V, Zn, Suwannee River Fulvic Acid (SRFA), Suwannee River Humic Acid (SRHA) and the mixtures of V/Zn and SRFA/SRHA by using a cell-free 2',7'-Dichlorodihydrofluorescein (DCFH) assay. The results showed that V or Zn synergistically promoted ROS generated by SRFA, but had an antagonistic effect on ROS generated by SRHA. Fluorescence quenching experiments indicated that V and Zn were more prone to form stable complexes with aromatic humic acid-like component (C1) and fulvic acid-like component (C3) in SRFA and SRHA. Results suggested that the underlying mechanism involving the fulvic acid-like component in SRFA more tending to complex with TMs to facilitate ROS generation through π electron transfer. Our work showed that the complexing ability and complexing stability of atmospheric PM organics with metals could significantly affect ROS generation. It is recommended that the research deploying multiple analytical methods to quantify the impact of PM components on public health and environment is needed in the future.

Impact of Beijing's "Coal to Electricity" program on ambient PM2.5 and the associated reactive oxygen species (ROS).

The Beijing "Coal to Electricity" program provides a unique opportunity to explore air quality impacts by replacing residential coal burning with electrical appliances. In this study, the atmospheric ROS (Gas-phase ROS and Particle-phase ROS, abbreviated to G-ROS and P-ROS) were measured by an online instrument in parallel with concurrent PM2.5 sample collections analyzed for chemical composition and cellular ROS in a baseline year (Coal Use Year-CUY) and the first year following implementation of the "Coal to Electricity" program (Coal Ban Year-CBY). The results showed PM2.5 concentrations had no significant difference between the two sampling periods, but the activities of G-ROS, P-ROS, and cellular ROS in CBY were 8.72 nmol H2O2/m3, 9.82 nmol H2O2/m3, and 2045.75 µg UD /mg PM higher than in CUY. Six sources were identified by factor-analysis from the chemical components of PM2.5. Secondary sources (SECs) were the dominant source of PM2.5 in the two periods, with 15.90% higher contribution in CBY than in CUY. Industrial Emission & Coal Combustion sources (Ind. & CCs), mainly from regional transport, also increased significantly in CBY. The contributions of Aged Sea Salt & Residential Burning sources to PM2.5 decreased 5.31% from CUY to CBY. The correlation results illustrated that Ind. & CCs had significant positive correlations with atmospheric ROS, and SECs significantly associated with cellular ROS, especially nitrates (r = 0.626, p = 0.000). Therefore, the implementation of the "Coal to Electricity" program reduced PM2.5 contributions from coal and biomass combustion, but had little effect on the improvement of atmospheric and cellular ROS.

Simplified Synthetic Approach to Tetrabrominated Spiro-Cyclopentadithiophene and the Following Derivation to A-D-A Type Acceptor Molecules for Use in Polymer Solar Cells.

4,4'-Spiro-bis[cyclopenta[2,1-b;3,4-b']dithiophene] (SCT) is a versatile building block for constructing three-dimensional (3D) π-conjugated molecules for use in organic electronics. In this paper, we report a more convenient synthetic route to SCT and its derivatives, where a structurally symmetric 3,3'-dibromo-5,5'-bis(trimethylsilyl)-2,2'-bithiophene (2) serves as the precursor for both the synthesis of 4H-cyclopenta[2,1-b:3,4-b']dithiophen-4-one (4) and 4-(5,5'-bis(trimethylsilyl)-2,2'-bithiophen-3-yl)-2,6-bis(trimethylsilyl)-4-hydroxy-cyclopenta[2,1-b;3,4-b']dithiophene (5). The later one is the key intermediate for the final brominated SCT building block. Such a "two birds with one stone" strategy simplifies the synthetic approach to the SCT core. Functionalization on the SCT core with different terminal electron-deficient groups, including 1H-indene-1,3(2H)-dione (ID), 2-(3-oxo-2,3-dihydro-1H-inden-1-ylidene)malononitrile (IC), and 2-(5,6-difluoro-3-oxo-2,3-dihydro-1H-inden-1-ylidene)malononitrile (FIC), was carried out, yielding three spiro-conjugated A-D-A type molecules, SCT-(TID)4, SCT-(TIC)4, SCT-(TFIC)4, respectively. The optical spectroscopy and electrochemical properties of these three compounds were investigated and compared to the corresponding linear oligomers. Results revealed that the IC and TFIC terminated compounds showed low-lying HOMO/LUMO energy levels with reduced optical bandgap, making them more suitable for use in polymer solar cells. A power conversion efficiency of 3.73% was achieved for the SCT-(TFIC)4 based cell, demonstrating the application perspective of 3D molecules.

Socioeconomic and Demographic Associations with Wintertime Air Pollution Exposures at Household, Community, and District Scales in Rural Beijing, China.

The Chinese government implemented a national household energy transition program that replaced residential coal heating stoves with electricity-powered heat pumps for space heating in northern China. As part of a baseline assessment of the program, this study investigated variability in personal air pollution exposures within villages and between villages and evaluated exposure patterns by sociodemographic factors. We randomly recruited 446 participants in 50 villages in four districts in rural Beijing and measured 24 h personal exposures to fine particulate matter (PM2.5) and black carbon (BC). The geometric mean personal exposure to PM2.5 and BC was 72 and 2.5 µg/m3, respectively. The variability in PM2.5 and BC exposures was greater within villages than between villages. Study participants who used traditional stoves as their dominant source of space heating were exposed to the highest levels of PM2.5 and BC. Wealthier households tended to burn more coal for space heating, whereas less wealthy households used more biomass. PM2.5 and BC exposures were almost uniformly distributed by socioeconomic status. Future work that combines these results with PM2.5 chemical composition analysis will shed light on whether air pollution source contributors (e.g., industrial, traffic, and household solid fuel burning) follow similar distributions.

Evaluation of impact of "2+26″ regional strategies on air quality improvement of different functional districts in Beijing based on a long-term field campaign.

Consecutive measurements of ambient fine particulate matter (PM2.5) from February 2016 to April 2018 have been performed at four representative sites of Beijing to evaluate the impact of "2 + 26" regional strategies implemented in 2017 for air quality improvement in non-heating period (2017NH) and heating period (2017H). The decrease of PM2.5 were significant both in 2017NH (20.2% on average) and 2017H (43.7% on average) compared to 2016NH and 2016H, respectively. Eight sources were resolved at each site from the PMF source apportionment including secondary nitrate, traffic, coal combustion, soil dust, road dust, sulfate, biomass/waste burning and industrial process. The results show that the reductions of industrial process, soil dust, and coal combustion were most effective among all sources at each site after the regional strategies implementation with the large reductions in potential source areas. The decrease of coal combustion in 2017NH were larger than 2017H at all sites while that of soil dust and industrial sources were the opposite. Insignificant reduction of coal combustion contribution at the suburban site in the heating period indicated that rural residential coal burning need further control. The industrial source control in the suburbs were least effective compared with other districts. Traffic was the largest contributer at each site and control of traffic emissions were more effective in 2017H than 2017NH. The local nature and increase of biomass/waste burning contributions emphasized the effect of fireworks and bio-fuel use in rural areas and incinerator emissions in urban districts. Secondary nitrate and sulfate were mainly impacted by the regional transport from southern adjacent areas and favorable meteorological conditions played an important part in the PM2.5 abatements of 2017H. Secondary nitrate became a more major role in the air pollution process because of the larger decrease of sulfate. Finally suggestions for future control are made in this study.

Field measurements of indoor and community air quality in rural Beijing before, during, and after the COVID-19 lockdown.

The coronavirus (COVID-19) lockdown in China is thought to have reduced air pollution emissions due to reduced human mobility and economic activities. Few studies have assessed the impacts of COVID-19 on community and indoor air quality in environments with diverse socioeconomic and household energy use patterns. The main goal of this study was to evaluate whether indoor and community air pollution differed before, during, and after the COVID-19 lockdown in homes with different energy use patterns. Using calibrated real-time PM2.5 sensors, we measured indoor and community air quality in 147 homes from 30 villages in Beijing over 4 months including periods before, during, and after the COVID-19 lockdown. Community pollution was higher during the lockdown (61 ± 47 µg/m3 ) compared with before (45 ± 35 µg/m3 , p < 0.001) and after (47 ± 37 µg/m3 , p < 0.001) the lockdown. However, we did not observe significantly increased indoor PM2.5 during the COVID-19 lockdown. Indoor-generated PM2.5 in homes using clean energy for heating without smokers was the lowest compared with those using solid fuel with/without smokers, implying air pollutant emissions are reduced in homes using clean energy. Indoor air quality may not have been impacted by the COVID-19 lockdown in rural settings in China and appeared to be more impacted by the household energy choice and indoor smoking than the COVID-19 lockdown. As clean energy transitions occurred in rural households in northern China, our work highlights the importance of understanding multiple possible indoor sources to interpret the impacts of interventions, intended or otherwise.

Persistent high PM2.5 pollution driven by unfavorable meteorological conditions during the COVID-19 lockdown period in the Beijing-Tianjin-Hebei region, China.

Lockdown measures to curtail the COVID-19 pandemic in China halted most non-essential activities on January 23, 2020. Despite significant reductions in anthropogenic emissions, the Beijing-Tianjin-Hebei (BTH) region still experienced high air pollution concentrations. Employing two emissions reduction scenarios, the Community Multiscale Air Quality (CMAQ) model was used to investigate the PM2.5 concentrations change in this region. The model using the scenario (C3) with greater traffic reductions performed better compared to the observed PM2.5. Compared with the no reductions base-case (scenario C1), PM2.5 reductions with scenario C3 were 2.70, 2.53, 2.90, 2.98, 3.30, 2.81, 2.82, 2.98, 2.68, and 2.83 µg/m3 in Beijing, Tianjin, Shijiazhuang, Baoding, Cangzhou, Chengde, Handan, Hengshui, Tangshan, and Xingtai, respectively. During high-pollution days in scenario C3, the percentage reductions in PM2.5 concentrations in Beijing, Tianjin, Shijiazhuang, Baoding, Cangzhou, Chengde, Handan, Hengshui, Tangshan, and Xingtai were 3.76, 3.54, 3.28, 3.22, 3.57, 3.56, 3.47, 6.10, 3.61, and 3.67%, respectively. However, significant increases caused by unfavorable meteorological conditions counteracted the emissions reduction effects resulting in high air pollution in BTH region during the lockdown period. This study shows that effective air pollution control strategies incorporating these results are urgently required in BTH to avoid severe pollution.

COVID-19 pandemic in Wuhan: Ambient air quality and the relationships between criteria air pollutants and meteorological variables before, during, and after lockdown.

As a result of the lockdown (LD) control measures enacted to curtail the COVID-19 pandemic in Wuhan, almost all non-essential human activities were halted beginning on January 23, 2020 when the total lockdown was implemented. In this study, changes in the concentrations of the six criteria air pollutants (PM2.5, PM10, SO2, NO2, CO, and O3) in Wuhan were investigated before (January 1 to 23, 2020), during (January 24 to April 5, 2020), and after the COVID-19 lockdown (April 6 to June 20, 2020) periods. Also, the relationships between the air pollutants and meteorological variables during the three periods were investigated. The results showed that there was significant improvement in air quality during the lockdown. Compared to the pre-lockdown period, the concentrations of NO2, PM2.5, PM10, and CO decreased by 50.6, 41.2, 33.1, and 16.6%, respectively, while O3 increased by 149% during the lockdown. After the lockdown, the concentrations of PM2.5, CO and SO2 declined by an additional 19.6, 15.6, and 2.1%, respectively. However, NO2, O3, and PM10 increased by 55.5, 25.3, and 5.9%, respectively, compared to the lockdown period. Except for CO and SO2, WS had negative correlations with the other pollutants during the three periods. RH was inversely related with all pollutants. Positive correlations were observed between temperature and the pollutants during the lockdown. Easterly winds were associated with peak PM2.5 concentrations prior to the lockdown. The highest PM2.5 concentrations were associated with southwesterly wind during the lockdown, and northwesterly winds coincided with the peak PM2.5 concentrations after the lockdown. Although, COVID-19 pandemic had numerous negative effects on human health and the global economy, the reductions in air pollution and significant improvement in ambient air quality likely had substantial short-term health benefits. This study improves the understanding of the mechanisms that lead to air pollution under diverse meteorological conditions and suggest effective ways of reducing air pollution in Wuhan.

Plant Gravitropism and Signal Conversion under a Stress Environment of Altered Gravity.

Humans have been committed to space exploration and to find the next planet suitable for human survival. The construction of an ecosystem that adapts to the long-term survival of human beings in space stations or other planets would be the first step. The space plant cultivation system is the key component of an ecosystem, which will produce food, fiber, edible oil and oxygen for future space inhabitants. Many plant experiments have been carried out under a stimulated or real environment of altered gravity, including at microgravity (0 g), Moon gravity (0.17 g) and Mars gravity (0.38 g). How plants sense gravity and change under stress environment of altered gravity were summarized in this review. However, many challenges remain regarding human missions to the Moon or Mars. Our group conducted the first plant experiment under real Moon gravity (0.17 g) in 2019. One of the cotton seeds successfully germinated and produced a green seedling, which represents the first green leaf produced by mankind on the Moon.

Quantitative estimation of meteorological impacts and the COVID-19 lockdown reductions on NO2 and PM2.5 over the Beijing area using Generalized Additive Models (GAM).

Unprecedented travel restrictions due to the COVID-19 pandemic caused remarkable reductions in anthropogenic emissions, however, the Beijing area still experienced extreme haze pollution even under the strict COVID-19 controls. Generalized Additive Models (GAM) were developed with respect to inter-annual variations, seasonal cycles, holiday effects, diurnal profile, and the non-linear influences of meteorological factors to quantitatively differentiate the lockdown effects and meteorology impacts on concentrations of nitrogen dioxide (NO2) and fine particulate matters (PM2.5) at 34 sites in the Beijing area. The results revealed that lockdown measures caused large reductions while meteorology offset a large fraction of the decrease in surface concentrations. GAM estimates showed that in February, the control measures led to average NO2 reductions of 19 µg/m3 and average PM2.5 reductions of 12 µg/m3. At the same time, meteorology was estimated to contribute about 12 µg/m3 increase in NO2, thereby offsetting most of the reductions as well as an increase of 30 µg/m3 in PM2.5, thereby resulting in concentrations higher than the average PM2.5 concentrations during the lockdown. At the beginning of the lockdown period, the boundary layer height was the dominant factor contributing to a 17% increase in NO2 while humid condition was the dominant factor for PM2.5 concentrations leading to an increase of 65% relative to the baseline level. Estimated NO2 emissions declined by 42% at the start of the lockdown, after which the emissions gradually increased with the increase of traffic volumes. The diurnal patterns from the models showed that the peak of vehicular traffic occurred from about 12pm to 5pm daily during the strictest control periods. This study provides insights for quantifying the changes in air quality due to the lockdowns by accounting for meteorological variability and providing a reference in evaluating the effectiveness of control measures, thereby contributing to air quality mitigation policies.

Evaluation of regional transport of PM2.5 during severe atmospheric pollution episodes in the western Yangtze River Delta, China.

During winter 2018, the 16 prefecture-level cities in Anhui Province, Western Yangtze River Delta region, China had very high PM2.5 concentrations and prolonged pollution days. The impact of regional transport in the formation, accumulation, as well as dispersion of fine particulate matter (PM2.5) in Anhui Province was very significant. This study quantified and analyzed the vertical transport of PM2.5 in three major cities (Hefei, Fuyang, and Suzhou) of Anhui Province in January and July 2018 using the Weather Research and Forecasting (WRF) model coupled with the Community Multiscale Air Quality (CMAQ) model. The results of the inter-regional transport of PM2.5 revealed the dominant transport pathways for the three cities. The flux mainly flowed into Fuyang from Henan (2.23 and 1.42 kt/day in January and July, respectively) and Bozhou (1.96 and 1.21 kt/day in January and July, respectively), while the main flux from Fuyang flowed into Henan (-2.15 kt/day) and Lu'an (-1.91 kt/day) in January and Henan (-0.34 kt/day) and Bozhou (-0.29 kt/day) in July. In addition, the dominant transport pathways and the heights at which they occurred were identified: the northwest-southeast and northeast-south pathways in both winter and summer at both lower (˂300 m) and higher (≥300 m) levels for Fuyang; the northwest-south and northeast-southwest pathways in winter (at both lower and upper levels) and northwest-east and northeast-southwest pathways in summer at lower and upper levels for Hefei; and the northwest-southeast and northeast-south pathways in both winter (from 50 m up to the top level) and summer (between 100 and 300 m) for Suzhou. Furthermore, the intensities of daily PM2.5 transport fluxes in Fuyang during the atmospheric pollution episode (APE1) were stronger than the monthly average. These results show that joint emission controls across multiple cities along the identified pathways are urgently needed to reduce winter episodes.

Impacts of Sources on PM2.5 Oxidation Potential during and after the Asia-Pacific Economic Cooperation Conference in Huairou, Beijing.

To illustrate the major sources responsible for the redox activity of ambient fine particles during the 2014 Asia-Pacific Economic Cooperation (APEC) conference in Beijing, 3 months of daytime (8:00-19:30 LST) and nighttime (20:00-7:30 LST) particulate kmatter (PM2.5) was collected in Huairou, Beijing from November 3, 2014 through January 31, 2015. PM2.5 compositions were analyzed, including elements, organic carbon, elemental carbon, water-soluble ions, organics, and redox activities measured by both the dithiothreitol and the macrophage reactive oxygen species (ROS) assays. The mass-normalized redox activity was approximately constant during the noncontrol period (NCP) and control period (CP). The absolute value of the volume-normalized redox activity was about 4 times higher during NCP than that during CP, indicating the effectiveness of the control measures. The statistical analysis results showed that an interquartile range increase in PM2.5 mass, chemicals, and sources (µg/m3) was associated with the 1-3% increase in redox activity, indicating that the successful control did make a significant reduction in redox activity but did not elucidate that some source controls (i.e., vehicle emissions) could be more effective at reducing redox activity than other control programs (i.e., dust source). This study demonstrated that combustion particles from both solid fuels and liquid fuels could contribute to ROS generation. Furthermore, ROS could be formed in the atmosphere via photochemical reactions, which highlights the need to further research on their formation pathways. A better understanding of the relevant mechanistic pathways and different source contributors to ROS will help to guide strategies for targeted mitigation of the atmospheric oxidation potential and will also help to reduce the great disease stress caused by exposure to air pollution.

Effectiveness of a Household Energy Package in Improving Indoor Air Quality and Reducing Personal Exposures in Rural China.

We evaluated whether an energy package comprising a low-polluting semigasifier cookstove with chimney, water heater, and pelletized biomass fuel would improve air pollution in China. We measured the stove use, 48-h air pollution exposures (PM2.5, black carbon), and kitchen concentrations (PM2.5, black carbon, carbon monoxide, nitrogen oxides) for 205 women, along with ambient PM2.5. Over half (n = 125) were offered the energy package after baseline assessment, forming "treated" and "untreated" groups, and we repeated the measurements up to 3 occasions over 18-months. Kitchen carbon monoxide did not change, and nitrogen oxides increased in summer but decreased in winter for both groups. Summer geometric mean exposures and kitchen concentrations of PM2.5 and black carbon decreased by 24-67% in women who received the energy package, but greater reductions (48-70%) were observed in untreated homes, likely due to increased use of gas stoves. After adjusting for differences in outdoor PM2.5, receiving the energy package was associated with decreased winter exposures to PM2.5 (-46%; 95% CI: -70, -2) and black carbon (-55%; -74, -25) and the summer increases were smaller (PM2.5: 8%; -22, 51 and black carbon: 37%; -12, 113). However, PM2.5 exposures remained 1.5-3 times higher than those of health-based international air pollution targets.

Effect of Temperature on Deformation and Fracture Behaviour of Nanostructured Polycrystalline Ni Under Tensile Hydrostatic Stress by Molecular Dynamics Simulation.

Real materials have structural defects that are normally brought in during the processes of manufacturing and storage and often have a structure with abundant grains, as well as being subjected to multi-directional force conditions. The study of temperature's effect on plastic deformation mechanisms in polycrystalline materials bathed by a multi-axial force is still very rare and not clear. Therefore, we conducted very large-scale molecular dynamics simulations to study the deformation and fracture behaviour of nanostructured polycrystalline Ni under a pre-existing external tensile hydrostatic stress with various temperatures. By characterizing the deformation and fracture mechanisms at an atomic scale, our results elucidate the effect of temperature on brittle versus ductile fracture behaviour by analysing the local stresses for void nucleation and crack propagation and the associated interplays of grain boundary, dislocation/twin and void/crack activities. The lower temperature results in a more brittle fracture manner. This is because the decreasing temperatures contribute to more sources of local stress concentrators for void/crack nucleation and propagation, and suppress the plastic deformation achieved by the activities of grain boundary, twin and dislocation. Our findings shed a light on a fundamental understanding of polycrystalline Ni metals subjected to complex working environments.

Highway proximity and black carbon from cookstoves as a risk factor for higher blood pressure in rural China.

Air pollution in China and other parts of Asia poses large health risks and is an important contributor to global climate change. Almost half of Chinese homes use biomass and coal fuels for cooking and heating. China's economic growth and infrastructure development has led to increased emissions from coal-fired power plants and an expanding fleet of motor vehicles. Black carbon (BC) from incomplete biomass and fossil fuel combustion is the most strongly light-absorbing component of particulate matter (PM) air pollution and the second most important climate-forcing human emission. PM composition and sources may also be related to its human health impact. We enrolled 280 women living in a rural area of northwestern Yunnan where biomass fuels are commonly used. We measured their blood pressure, distance from major traffic routes, and daily exposure to BC (pyrolytic biomass combustion), water-soluble organic aerosol (organic aerosol from biomass combustion), and, in a subset, hopane markers (motor vehicle emissions) in winter and summer. BC had the strongest association with systolic blood pressure (SBP) (4.3 mmHg; P < 0.001), followed by PM mass and water-soluble organic mass. The effect of BC on SBP was almost three times greater in women living near the highway [6.2 mmHg; 95% confidence interval (CI), 3.6 to 8.9 vs. 2.6 mmHg; 95% CI, 0.1 to 5.2]. Our findings suggest that BC from combustion emissions is more strongly associated with blood pressure than PM mass, and that BC's health effects may be larger among women living near a highway and with greater exposure to motor vehicle emissions.

PGen: large-scale genomic variations analysis workflow and browser in SoyKB.

BACKGROUND: With the advances in next-generation sequencing (NGS) technology and significant reductions in sequencing costs, it is now possible to sequence large collections of germplasm in crops for detecting genome-scale genetic variations and to apply the knowledge towards improvements in traits. To efficiently facilitate large-scale NGS resequencing data analysis of genomic variations, we have developed "PGen", an integrated and optimized workflow using the Extreme Science and Engineering Discovery Environment (XSEDE) high-performance computing (HPC) virtual system, iPlant cloud data storage resources and Pegasus workflow management system (Pegasus-WMS). The workflow allows users to identify single nucleotide polymorphisms (SNPs) and insertion-deletions (indels), perform SNP annotations and conduct copy number variation analyses on multiple resequencing datasets in a user-friendly and seamless way. RESULTS: We have developed both a Linux version in GitHub ( https://github.com/pegasus-isi/PGen-GenomicVariations-Workflow ) and a web-based implementation of the PGen workflow integrated within the Soybean Knowledge Base (SoyKB), ( http://soykb.org/Pegasus/index.php ). Using PGen, we identified 10,218,140 single-nucleotide polymorphisms (SNPs) and 1,398,982 indels from analysis of 106 soybean lines sequenced at 15X coverage. 297,245 non-synonymous SNPs and 3330 copy number variation (CNV) regions were identified from this analysis. SNPs identified using PGen from additional soybean resequencing projects adding to 500+ soybean germplasm lines in total have been integrated. These SNPs are being utilized for trait improvement using genotype to phenotype prediction approaches developed in-house. In order to browse and access NGS data easily, we have also developed an NGS resequencing data browser ( http://soykb.org/NGS_Resequence/NGS_index.php ) within SoyKB to provide easy access to SNP and downstream analysis results for soybean researchers. CONCLUSION: PGen workflow has been optimized for the most efficient analysis of soybean data using thorough testing and validation. This research serves as an example of best practices for development of genomics data analysis workflows by integrating remote HPC resources and efficient data management with ease of use for biological users. PGen workflow can also be easily customized for analysis of data in other species.

Oxidative potential and inflammatory impacts of source apportioned ambient air pollution in Beijing.

Air pollution exposure is associated with a range of adverse health impacts. Knowledge of the chemical components and sources of air pollution most responsible for these health effects could lead to an improved understanding of the mechanisms of such effects and more targeted risk reduction strategies. We measured daily ambient fine particulate matter (<2.5 µm in aerodynamic diameter; PM2.5) for 2 months in peri-urban and central Beijing, and assessed the contribution of its chemical components to the oxidative potential of ambient air pollution using the dithiothreitol (DTT) assay. The composition data were applied to a multivariate source apportionment model to determine the PM contributions of six sources or factors: a zinc factor, an aluminum factor, a lead point factor, a secondary source (e.g., SO4(2-), NO3(2-)), an iron source, and a soil dust source. Finally, we assessed the relationship between reactive oxygen species (ROS) activity-related PM sources and inflammatory responses in human bronchial epithelial cells. In peri-urban Beijing, the soil dust source accounted for the largest fraction (47%) of measured ROS variability. In central Beijing, a secondary source explained the greatest fraction (29%) of measured ROS variability. The ROS activities of PM collected in central Beijing were exponentially associated with in vivo inflammatory responses in epithelial cells (R2=0.65-0.89). We also observed a high correlation between three ROS-related PM sources (a lead point factor, a zinc factor, and a secondary source) and expression of an inflammatory marker (r=0.45-0.80). Our results suggest large differences in the contribution of different PM sources to ROS variability at the central versus peri-urban study sites in Beijing and that secondary sources may play an important role in PM2.5-related oxidative potential and inflammatory health impacts.