bluuebunny/crossref_metadata_2025_split huggingface dataset:
Characteristics of Winter Haze Pollution in the Fenwei Plain and the Possible Influence of EU During 1984–2017
Authors: Zhao Zhijun , Liu Run , Zhang Ziyin 
Published: April 2020

AbstractDuring the past few years, air pollution in the Fenwei Plain (FWP) region had obviously rebounded. In this study, we used quantitative analysis, difference analysis, and correlation analysis methods to analyze the temporal and spatial distribution and the influence of the meteorological and climatic factors on haze pollution in FWP. The results showed that on the long‐term timescale, the haze pollution had an overall upward trend during the winter of 1984–2017, and the pollution became more serious after 2000. In addition, the differences in meteorological parameters such as relative humidity, sea level pressure, temperature, vertical velocity, and wind fields near the surface between the regional haze days and the regional clean days were remarkable, indicating that the changes in these meteorological parameters had a distinct impact on haze pollution. Among several atmospheric circulations in the Northern Hemisphere mid‐high latitudes, Eurasian (EU) pattern had the most obvious influence on haze pollution via two possible pathways: First, on the interannual timescale, the evolution of EU pattern affected the changes of Siberian high and Aleutian low pressure; second, changes in EU pattern could result in changes in wind speed at 850 hPa, boundary layer height and relative humidity in the lower troposphere. All these findings may provide some help for the government to take prevention measures for haze pollution in FWP.
Linking Ocean Forcing and Atmospheric Interactions to Atlantic Multidecadal Variability in MPI‐ESM1.2
Authors: Oelsmann J. , Borchert L. , Hand R. , Baehr J. , Jungclaus J. H. 
Published: April 2020

AbstractWe investigate how ocean‐driven multidecadal sea surface temperature (SST) variations force the atmosphere to jointly set the pace of Atlantic multidecadal variability (AMV). We generate periodic low‐frequency Atlantic Meridional Overturning Circulation oscillations by implementing time‐dependent deep‐ocean‐density restoring in MPI‐ESM1.2 to explicitly identify variations driven by Atlantic Meridional Overturning Circulation without any perturbation at the ocean‐atmosphere interface. We show in a coupled experiment that ocean heat convergence variations generate positive SST anomalies, turbulent heat release, and low sea level pressure in the subpolar North Atlantic (NA) and vice versa. The SST signal is communicated to the tropical NA by wind‐evaporative‐SST feedbacks and to the North‐East Atlantic by enhanced northward atmospheric heat transport. Such atmospheric feedbacks and the characteristic AMV‐SST pattern are synchronized to the multidecadal time scale of ocean circulation changes by air‐sea heat exchange. This coupled ocean‐atmosphere mechanism is consistent with observed features of AMV and thus supports a key role of ocean dynamics in driving the AMV.
Heterogeneity‐Induced Mixing and Reaction Hot Spots Facilitate Karst Propagation in Coastal Aquifers
Authors: De Vriendt K. , Pool M. , Dentz M. 
Published: April 2020

AbstractThe freshwater‐seawater mixing zone is a critical region for chemical activity. Yet little is known about the influence of ever present spatial heterogeneity on the dynamics of mixing and calcite dissolution, which play a key role in the understanding of karst development. We analyze the impact of different heterogeneity structures and strengths on the local and global response of mixing and dissolution rates across the saltwater freshwater mixing zone. We find that the initial heterogeneity structure significantly impacts observed dissolution and mixing patterns, which sheds some new light on karst propagation in coastal aquifers.
Calibration and Initial Results of Space Radiation Dosimetry Using the iMESA‐R
Authors: Maldonado C. A. , Cress R. , Gresham P. , Armstrong J. L. , Wilson G. , Reisenfeld D. , Larsen B. , Balthazor R. L. , Harley J. , McHarg M. G. 
Published: April 2020

AbstractThe integrated Miniaturized Electrostatic Analyzer‐Reflight (iMESA‐R) is a space weather instrument designed to measure plasma density, temperature, and spacecraft charging, along with total ionizing dose and dose rate. A constellation consisting of five nearly identical instruments has been designed and developed to act as science payloads hosted on‐board Department of Defense satellites operating in low‐Earth orbit. To validate the dosimetry component of the iMESA‐R, a radiation test study was performed to calibrate the dosimeter and ascertain the attenuation due to the instrument aluminum housing. An 80 curie Cobalt‐60 radioisotope source emitting beta, X‐ray, and gamma ray radiation decay products was used to calibrate the dosimeter response as a function of distance and instrument shielding. We present results of the calibration study along with initial on‐orbit data presented from the first operational iMESA‐R hosted on‐board Space Test Program Satellite 5 in a polar Earth orbit. The initial on‐orbit data demonstrate the ability to map the radiation environment, particularly the South Atlantic Anomaly and the auroral regions using total ionizing dose rate due to electrons of E > 1.5 MeV and protons of E > 25 MeV.
Association between maternal exposure to particulate matter (PM2.5) and adverse pregnancy outcomes in Lima, Peru
Authors: Tapia V. L. , Vasquez B. V. , Vu B. , Liu Y. , Steenland K. , Gonzales G. F. 
Published: April 2020

AbstractThe literature shows associations between maternal exposures to PM2.5 and adverse pregnancy outcomes. There are few data from Latin America. We have examined PM2.5 and pregnancy outcomes in Lima. The study included 123,034 births from 2012 to 2016, at three public hospitals. We used estimated daily PM2.5 from a newly created model developed using ground measurements, satellite data, and a chemical transport model. Exposure was assigned based on district of residence (n = 39). Linear and logistic regression analyzes were used to estimate the associations between air pollution exposure and pregnancy outcomes. Increased exposure to PM2.5 during the entire pregnancy and in the first trimester was inversely associated with birth weight. We found a decrease of 8.13 g (−14.0; −1.84) overall and 18.6 g (−24.4, −12.8) in the first trimester, for an interquartile range (IQR) increase (9.2 µg/m3) in PM2.5. PM2.5 exposure was positively associated with low birth weight at term (TLBW) during entire pregnancy (OR: 1.11; 95% CI: 1.03–1.20), and at the first (OR: 1.11; 95% CI: 1.03–1.20), second (OR: 1.09; 95% CI: 1.01–1.17), and third trimester (OR: 1.10; 95% CI: 1.02–1.18) per IQR (9.2 µg/m3) increase. Higher exposure to PM2.5 was also associated with increased risk of small for gestational age (SGA). There were no statistically significant associations between PM2.5 exposure and preterm births (PTB). Exposure to higher concentrations of PM2.5 in Lima may decrease birth weight and increase the frequency of TLBW and SGA. Our study was inconsistent with the literature in finding no associations with preterm birth.
Keratinocyte transglutaminase 2 promotes CCR6+ γδT-cell recruitment by upregulating CCL20 in psoriatic inflammation
Authors: Shin Ji-Woong , Kwon Mee-ae , Hwang Jinha , Lee Seok-Jin , Lee Jin-Haeng , Kim Hyo-Jun , Lee Ki Baek , Lee Soo-Jin , Jeong Eui Man , Chung Jin Ho , Kim In-Gyu 
Published: April 2020

AbstractKeratinocyte-derived cytokines and chemokines amplify psoriatic inflammation by recruiting IL-17-producing CCR6+ γδT-cells and neutrophils. The expression of these cytokines and chemokines mainly depends on NF-κB activity; however, the pathway that activates NF-κB in response to triggering factors is poorly defined. Here, we show that transglutaminase 2 (TG2), previously reported to elicit a TH17 response by increasing IL-6 expression in a mouse model of lung fibrosis, mediates the upregulation of cytokines and chemokines by activating NF-κB in imiquimod (IMQ)-treated keratinocytes. TG2-deficient mice exhibited reduced psoriatic inflammation in skin treated with IMQ but showed systemic immune responses similar to wild-type mice. Experiments in bone marrow (BM) chimeric mice revealed that TG2 is responsible for promoting psoriatic inflammation in non-BM-derived cells. In keratinocytes, IMQ treatment activated TG2, which in turn activated NF-κB signaling, leading to the upregulation of IL-6, CCL20, and CXCL8 and increased leukocyte migration, in vitro. Consequently, TG2-deficient mice showed markedly decreased CCR6+ γδT-cell and neutrophil infiltration in IMQ-treated skin. Moreover, TG2 levels were higher in psoriatic skin than in normal skin and correlated with IL-6, CXCL8, and CCL20 levels. Therefore, these results indicate that keratinocyte TG2 acts as a critical mediator in the amplification of psoriatic inflammation.
In vivo evidence for extracellular DNA trap formation
Authors: Yousefi Shida , Simon Dagmar , Stojkov Darko , Karsonova Antonina , Karaulov Alexander , Simon Hans-Uwe 
Published: April 2020

AbstractExtracellular DNA trap formation is a cellular function of neutrophils, eosinophils, and basophils that facilitates the immobilization and killing of invading microorganisms in the extracellular milieu. To form extracellular traps, granulocytes release a scaffold consisting of mitochondrial DNA in association with granule proteins. As we understand more about the molecular mechanism for the formation of extracellular DNA traps, the in vivo function of this phenomenon under pathological conditions remains an enigma. In this article, we critically review the literature to summarize the evidence for extracellular DNA trap formation under in vivo conditions. Extracellular DNA traps have not only been detected in infectious diseases but also in chronic inflammatory diseases, as well as in cancer. While on the one hand, extracellular DNA traps clearly exhibit an important function in host defense, it appears that they can also contribute to the maintenance of inflammation and metastasis, suggesting that they may represent an interesting drug target for such pathological conditions.
The ChinaMAP analytics of deep whole genome sequences in 10,588 individuals
Authors:   The ChinaMAP Consortium, Cao Yanan , Li Lin , Xu Min , Feng Zhimin , Sun Xiaohui , Lu Jieli , Xu Yu , Du Peina , Wang Tiange , Hu Ruying , Ye Zhen , Shi Lixin , Tang Xulei , Yan Li , Gao Zhengnan , Chen Gang , Zhang Yinfei , Chen Lulu , Ning Guang , Bi Yufang , Wang Weiqing 
Published: April 2020

AbstractMetabolic diseases are the most common and rapidly growing health issues worldwide. The massive population-based human genetics is crucial for the precise prevention and intervention of metabolic disorders. The China Metabolic Analytics Project (ChinaMAP) is based on cohort studies across diverse regions and ethnic groups with metabolic phenotypic data in China. Here, we describe the centralized analysis of the deep whole genome sequencing data and the genetic bases of metabolic traits in 10,588 individuals from the ChinaMAP. The frequency spectrum of variants, population structure, pathogenic variants and novel genomic characteristics were analyzed. The individual genetic evaluations of Mendelian diseases, nutrition and drug metabolism, and traits of blood glucose and BMI were integrated. Our study establishes a large-scale and deep resource for the genetics of East Asians and provides opportunities for novel genetic discoveries of metabolic characteristics and disorders.
Whole genome re-sequencing of sweet cherry (Prunus avium L.) yields insights into genomic diversity of a fruit species
Authors: Xanthopoulou Aliki , Manioudaki Maria , Bazakos Christos , Kissoudis Christos , Farsakoglou Anna-Maria , Karagiannis Evangelos , Michailidis Michail , Polychroniadou Chrysanthi , Zambounis Antonios , Kazantzis Konstantinos , Tsaftaris Athanasios , Madesis Panagiotis , Aravanopoulos Filippos , Molassiotis Athanassios , Ganopoulos Ioannis 
Published: April 2020

AbstractSweet cherries, Prunus avium L. (Rosaceae), are gaining importance due to their perenniallity and nutritional attributes beneficial for human health. Interestingly, sweet cherry cultivars exhibit a wide range of phenotypic diversity in important agronomic traits, such as flowering time and defense reactions against pathogens. In this study, whole-genome resequencing (WGRS) was employed to characterize genetic variation, population structure and allelic variants in a panel of 20 sweet cherry and one wild cherry genotypes, embodying the majority of cultivated Greek germplasm and a representative of a local wild cherry elite phenotype. The 21 genotypes were sequenced in an average depth of coverage of 33.91×. and effective mapping depth, to the genomic reference sequence of ‘Satonishiki’ cultivar, between 22.21× to 36.62×. Discriminant analysis of principal components (DAPC) with SNPs revealed two clusters of genotypes. There was a rapid linkage disequilibrium decay, as the majority of SNP pairs with r2 in near complete disequilibrium (>0.8) were found at physical distances less than 10 kb. Functional analysis of the variants showed that the genomic ratio of non-synonymous/synonymous (dN/dS) changes was 1.78. The higher dN frequency in the Greek cohort of sweet cherry could be the result of artificial selection pressure imposed by breeding, in combination with the vegetative propagation of domesticated cultivars through grafting. The majority of SNPs with high impact (e.g., stop codon gaining, frameshift), were identified in genes involved in flowering time, dormancy and defense reactions against pathogens, providing promising resources for future breeding programs. Our study has established the foundation for further large scale characterization of sweet cherry germplasm, enabling breeders to incorporate diverse germplasm and allelic variants to fine tune flowering and maturity time and disease resistance in sweet cherry cultivars.
The chromosome-scale genome reveals the evolution and diversification after the recent tetraploidization event in tea plant
Authors: Chen Jie-Dan , Zheng Chao , Ma Jian-Qiang , Jiang Chen-Kai , Ercisli Sezai , Yao Ming-Zhe , Chen Liang 
Published: April 2020

AbstractTea is one of the most popular nonalcoholic beverages due to its characteristic secondary metabolites with numerous health benefits. Although two draft genomes of tea plant (Camellia sinensis) have been published recently, the lack of chromosome-scale assembly hampers the understanding of the fundamental genomic architecture of tea plant and potential improvement. Here, we performed a genome-wide chromosome conformation capture technique (Hi-C) to obtain a chromosome-scale assembly based on the draft genome of C. sinensis var. sinensis and successfully ordered 2984.7 Mb (94.7%) scaffolds into 15 chromosomes. The scaffold N50 of the improved genome was 218.1 Mb, ~157-fold higher than that of the draft genome. Collinearity comparison of genome sequences and two genetic maps validated the high contiguity and accuracy of the chromosome-scale assembly. We clarified that only one Camellia recent tetraploidization event (CRT, 58.9–61.7 million years ago (Mya)) occurred after the core-eudicot common hexaploidization event (146.6–152.7 Mya). Meanwhile, 9243 genes (28.6%) occurred in tandem duplication, and most of these expanded after the CRT event. These gene duplicates increased functionally divergent genes that play important roles in tea-specific biosynthesis or stress response. Sixty-four catechin- and caffeine-related quantitative trait loci (QTLs) were anchored to chromosome assembly. Of these, two catechin-related QTL hotspots were derived from the CRT event, which illustrated that polyploidy has played a dramatic role in the diversification of tea germplasms. The availability of a chromosome-scale genome of tea plant holds great promise for the understanding of genome evolution and the discovery of novel genes contributing to agronomically beneficial traits in future breeding programs.
Cadmium isotope fractionation reveals genetic variation in Cd uptake and translocation by Theobroma cacao and role of natural resistance-associated macrophage protein 5 and heavy metal ATPase-family transporters
Authors: Moore Rebekah E. T. , Ullah Ihsan , de Oliveira Vinicius H. , Hammond Samantha J. , Strekopytov Stanislav , Tibbett Mark , Dunwell Jim M. , Rehkämper Mark 
Published: April 2020

AbstractIn response to new European Union regulations, studies are underway to mitigate accumulation of toxic cadmium (Cd) in cacao (Theobroma cacao, Tc). This study advances such research with Cd isotope analyses of 19 genetically diverse cacao clones and yeast transformed to express cacao natural resistance-associated macrophage protein (NRAMP5) and heavy metal ATPases (HMAs). The plants were enriched in light Cd isotopes relative to the hydroponic solution with Δ114/110Cdtot-sol = −0.22 ± 0.08‰. Leaves show a systematic enrichment of isotopically heavy Cd relative to total plants, in accord with closed-system isotope fractionation of Δ114/110Cdseq-mob = −0.13‰, by sequestering isotopically light Cd in roots/stems and mobilisation of remaining Cd to leaves. The findings demonstrate that (i) transfer of Cd between roots and leaves is primarily unidirectional; (ii) different clones utilise similar pathways for Cd sequestration, which differ from those of other studied plants; (iii) clones differ in their efficiency of Cd sequestration. Transgenic yeast that expresses TcNRAMP5 (T. cacao natural resistance-associated macrophage gene) had isotopically lighter Cd than did cacao. This suggests that NRAMP5 transporters constitute an important pathway for uptake of Cd by cacao. Cd isotope signatures of transgenic yeast expressing HMA-family proteins suggest that they may contribute to Cd sequestration. The data are the first to record isotope fractionation induced by transporter proteins in vivo.
Demonstration of a quantized acoustic octupole topological insulator
Authors: Ni Xiang , Li Mengyao , Weiner Matthew , Alù Andrea , Khanikaev Alexander B. 
Published: April 2020

AbstractRecently introduced quantized multipole topological insulators (QMTIs) reveal new types of gapped boundary states, which themselves represent lower-dimensional topological phases and host symmetry protected zero-dimensional corner states. Inspired by these predictions, tremendous efforts have been devoted to the experimental observation of quantized quadrupole topological phase. However, due to stringent requirements of anti-commuting reflection symmetries, it is challenging to achieve higher-order quantized multipole moments, such as octupole moments, in a three-dimensional structure. Here, we overcome this challenge, and experimentally realize the acoustic analogue of a quantized octupole topological insulator using negatively coupled resonators. We confirm by first-principle studies that our design possesses a quantized octupole topological phase, and experimentally demonstrate spectroscopic evidence of a hierarchy of boundary modes, observing 3rd order topological corner states. Furthermore, we reveal topological phase transitions from higher- to lower-order multipole moments. Our work offers a pathway to explore higher-order topological states in 3D classical platforms.
Highly parallel and efficient single cell mRNA sequencing with paired picoliter chambers
Authors: Zhang Mingxia , Zou Yuan , Xu Xing , Zhang Xuebing , Gao Mingxuan , Song Jia , Huang Peifeng , Chen Qin , Zhu Zhi , Lin Wei , Zare Richard N. , Yang Chaoyong 
Published: April 2020

AbstractScRNA-seq has the ability to reveal accurate and precise cell types and states. Existing scRNA-seq platforms utilize bead-based technologies uniquely barcoding individual cells, facing practical challenges for precious samples with limited cell number. Here, we present a scRNA-seq platform, named Paired-seq, with high cells/beads utilization efficiency, cell-free RNAs removal capability, high gene detection ability and low cost. We utilize the differential flow resistance principle to achieve single cell/barcoded bead pairing with high cell utilization efficiency (95%). The integration of valves and pumps enables the complete removal of cell-free RNAs, efficient cell lysis and mRNA capture, achieving highest mRNA detection accuracy (R = 0.955) and comparable sensitivity. Lower reaction volume and higher mRNA capture and barcoding efficiency significantly reduce the cost of reagents and sequencing. The single-cell expression profile of mES and drug treated cells reveal cell heterogeneity, demonstrating the enormous potential of Paired-seq for cell biology, developmental biology and precision medicine.
High temperature rise dominated cracking mechanisms in ultra-ductile and tough titanium alloy
Authors: Choisez L. , Ding L. , Marteleur M. , Idrissi H. , Pardoen T. , Jacques P. J. 
Published: April 2020

AbstractExtensive use of titanium alloys is partly hindered by a lack of ductility, strain hardening, and fracture toughness. Recently, several β-metastable titanium alloys were designed to simultaneously activate both transformation-induced plasticity and twinning-induced plasticity effects, resulting in significant improvements to their strain hardening capacity and resistance to plastic localization. Here, we report an ultra-large fracture resistance in a Ti-12Mo alloy (wt.%), that results from a high resistance to damage nucleation, with an unexpected fracture phenomenology under quasi-static loading. Necking develops at a large uniform true strain of 0.3 while fracture initiates at a true fracture strain of 1.0 by intense through-thickness shear within a thin localized shear band. Transmission electron microscopy reveals that dynamic recrystallization occurs in this band, while local partial melting is observed on the fracture surface. Shear band temperatures of 1250–2450 °C are estimated by the fusible coating method. The reported high ductility combined to the unconventional fracture process opens alternative avenues toward Ti alloys toughening.
The impact of antimalarial resistance on the genetic structure of Plasmodium falciparum in the DRC
Authors: Verity Robert , Aydemir Ozkan , Brazeau Nicholas F. , Watson Oliver J. , Hathaway Nicholas J. , Mwandagalirwa Melchior Kashamuka , Marsh Patrick W. , Thwai Kyaw , Fulton Travis , Denton Madeline , Morgan Andrew P. , Parr Jonathan B. , Tumwebaze Patrick K. , Conrad Melissa , Rosenthal Philip J. , Ishengoma Deus S. , Ngondi Jeremiah , Gutman Julie , Mulenga Modest , Norris Douglas E. , Moss William J. , Mensah Benedicta A. , Myers-Hansen James L. , Ghansah Anita , Tshefu Antoinette K. , Ghani Azra C. , Meshnick Steven R. , Bailey Jeffrey A. , Juliano Jonathan J. 
Published: April 2020

AbstractThe Democratic Republic of the Congo (DRC) harbors 11% of global malaria cases, yet little is known about the spatial and genetic structure of the parasite population in that country. We sequence 2537 Plasmodium falciparum infections, including a nationally representative population sample from DRC and samples from surrounding countries, using molecular inversion probes - a high-throughput genotyping tool. We identify an east-west divide in haplotypes known to confer resistance to chloroquine and sulfadoxine-pyrimethamine. Furthermore, we identify highly related parasites over large geographic distances, indicative of gene flow and migration. Our results are consistent with a background of isolation by distance combined with the effects of selection for antimalarial drug resistance. This study provides a high-resolution view of parasite genetic structure across a large country in Africa and provides a baseline to study how implementation programs may impact parasite populations.