bluuebunny/crossref_metadata_2025_split huggingface dataset:
Investigation of Particle Number Concentrations and New Particle Formation With Largely Reduced Air Pollutant Emissions at a Coastal Semi‐Urban Site in Northern China
Authors: Zhu Yujiao , Shen Yanjie , Li Kai , Meng He , Sun Yue , Yao Xiaohong , Gao Huiwang , Xue Likun , Wang Wenxing 
Published: August 2021

AbstractTo better understand the responses of particle number concentrations (PNCs) and new particle formation (NPF) to the largely reduced air pollutant emissions in urban atmospheres, we investigated the particle number size distributions in Qingdao, a coastal megacity in northern China, during two separate periods, 2010–2012 and 2016–2018. The results show only an average of 5% decrease in the total PNCs in 2016–2018 relative to 2010–2012, although the PM2.5 mass concentration decreased by over 40%. Nucleation‐mode PNCs decreased by 20%, which is attributable to reductions in primary emissions from on‐road vehicles and secondary sources. Unexpectedly, the accumulation‐mode PNCs increased by 11% in 2016–2018 relative to 2010–2012. The SO2 concentrations strongly decreased by ∼60%, and the NPF frequencies slightly decreased from 34% in 2010–2012 to 25% in 2016–2018. However, there were no significant changes in the apparent new particle formation rate (FR) or net maximum increase in nucleation‐mode PNCs (NMINP). The increased concentrations of other precursors may substantially negate the effect of SO2 reduction, leading to the invariant FR and NMINP. The maximum sizes of grown new particles decreased by 50%; combined with the decreased NPF frequency, the contribution of grown new particles to accumulation‐mode PNCs expectedly decreased in 2016–2018 relative to 2010–2012. Alternatively, the increased accumulation‐mode PNCs in 2016–2018 mainly attribute to the enhanced primary combustion emissions excluding on‐road vehicle emissions. The increase in accumulation‐mode PNCs in 2016–2018 provides insights on the inter‐annual variation in satellite‐based cloud properties, which appeared insensitive to the large decrease in satellite‐based aerosol optical depth.
Mare Domes in Mare Tranquillitatis: Identification, Characterization, and Implications for Their Origin
Authors: Qiao Le , Head James W. , Wilson Lionel , Chen Jian , Ling Zongcheng 
Published: August 2021

AbstractMare domes, small shield volcanoes typically <∼30 km diameter, are part of the spectrum of lunar volcanic features that characterize extrusive basalt deposits. We used new spacecraft data to document these in Mare Tranquillitatis, among the oldest maria and the site commonly interpreted as an ancient degraded non‐mascon impact basin. We found 283 known and suspected mare domes, with the majority (n = 229) concentrated on a broad, ∼450 km circular topographic rise in eastern Mare Tranquillitatis. The domes (median diameter 5.6 km, height 68 m, volume 0.7 km3) contain summit pits (74%; median diameter 0.8 km), and exhibit minor compositional variability between domes and surrounding flows, suggesting that domes both supply and are embayed by these flows. Based on their characteristics and associations, we interpret the small shield volcanoes to have been built from individual low‐volume (<∼10–100 km3), low volatile content, short duration, cooling‐limited eruptions. The ∼450 km broad volcanic rise is ∼920 m high (volume ∼1.6 × 105 km3) and is interpreted to be built from multiple occurrences of small shield eruptions, a shield plains volcanism style. This implies a shallow mantle source region capable of supplying distributed dike‐emplacement and eruption events over an area of 1.75 × 105 km2 early in mare volcanism history (∼3.7 Ga). The difference between Mare Tranquillitatis and younger mare‐filled mascon basins is attributed to the more ancient thermal state and crustal structure of the viscously relaxed Tranquillitatis basin, and a shallower broad magma source region present in earlier lunar thermal history.
Connecting the Age and Reactivity of Organic Carbon to Watershed Geology and Land Use in Tributaries of the Hudson River
Authors: Stahl Mason , Wassik Jack , Gehring Jaclyn , Horan Connor , Wozniak Andrew 
Published: September 2021

AbstractWe characterized the dissolved organic matter (DOM) under baseflow conditions from a set of rivers in the Mohawk and Hudson River watersheds. The rivers in this study drain a range of bedrock geologies and land cover. We identify how those factors influence riverine DOM reactivity and the source, age, and composition of the biolabile DOM. We performed laboratory incubation experiments to characterize each river's reactive and non‐reactive DOM pools. Measurements of dissolved organic carbon concentration, radiocarbon, Ultraviolet‐visible spectroscopy absorbance, and Fourier‐transform ion cyclotron resonance mass spectrometry (FTICR‐MS) analysis were performed at each incubation start and end, allowing us to determine the quantity, age, and composition of the reactive and nonreactive DOM pools. We find that lithology controls bulk DOM ages, with watersheds underlain by shale/limestone having the most aged DOM and crystalline/metasedimentary watersheds having the youngest DOM. We observe that for a given lithology, bulk DOM age increases with the proportion of agricultural land in the watershed–suggesting agricultural practices mobilize aged DOM. FTICR‐MS analysis reveals that both lithology and land cover influence DOM composition. Shale/limestone watersheds showed DOM compositions distinct from other watershed lithologies, and the percentage of nitrogen‐containing DOM correlated with agricultural influence. In two of the studied rivers we find that the biolabile DOM fraction is older than the bulk DOM (upwards of 7 kyr) revealing that aged DOM may be preferentially consumed in these rivers. Our findings provide insight into how riverine carbon cycles may respond to watershed disturbances that influence DOM inputs to rivers.
A dual-role of SARS-CoV-2 nucleocapsid protein in regulating innate immune response
Authors: Zhao Yinghua , Sui Liyan , Wu Ping , Wang Wenfang , Wang Zedong , Yu Yang , Hou Zhijun , Tan Guangyun , Liu Quan , Wang Guoqing 
Published: September 2021

AbstractThe recently emerged severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), which is the causative agent of ongoing global pandemic of COVID-19, may trigger immunosuppression in the early stage and overactive immune response in the late stage of infection; However, the underlying mechanisms are not well understood. Here we demonstrated that the SARS-CoV-2 nucleocapsid (N) protein dually regulated innate immune responses, i.e., the low-dose N protein suppressed type I interferon (IFN-I) signaling and inflammatory cytokines, whereas high-dose N protein promoted IFN-I signaling and inflammatory cytokines. Mechanistically, the SARS-CoV-2 N protein dually regulated the phosphorylation and nuclear translocation of IRF3, STAT1, and STAT2. Additionally, low-dose N protein combined with TRIM25 could suppress the ubiquitination and activation of retinoic acid-inducible gene I (RIG-I). Our findings revealed a regulatory mechanism of innate immune responses by the SARS-CoV-2 N protein, which would contribute to understanding the pathogenesis of SARS-CoV-2 and other SARS-like coronaviruses, and development of more effective strategies for controlling COVID-19.
Soil plastispheres as hotspots of antibiotic resistance genes and potential pathogens
Authors: Zhu Dong , Ma Jun , Li Gang , Rillig Matthias C , Zhu Yong-Guan 
Published: August 2021

Abstract
In the Anthropocene, increasing pervasive plastic pollution is creating a new environmental compartment, the plastisphere. How the plastisphere affects microbial communities and antibiotic resistance genes (ARGs) is an issue of global concern. Although this has been studied in aquatic ecosystems, our understanding of plastisphere microbiota in soil ecosystems remains poor. Here, we investigated plastisphere microbiota and ARGs of four types of microplastics (MPs) from diverse soil environments, and revealed effects of manure, temperature, and moisture on them. Our results showed that the MPs select for microbial communities in the plastisphere, and that these plastisphere communities are involved in diverse metabolic pathways, indicating that they could drive diverse ecological processes in the soil ecosystem. The relationship within plastisphere bacterial zero-radius operational taxonomic units (zOTUs) was predominantly positive, and neutral processes appeared to dominate community assembly. However, deterministic processes were more important in explaining the variance in ARGs in plastispheres. A range of potential pathogens and ARGs were detected in the plastisphere, which were enriched compared to the soil but varied across MPs and soil types. We further found that the addition of manure and elevation of soil temperature and moisture all enhance ARGs in plastispheres, and potential pathogens increase with soil moisture. These results suggested that plastispheres are habitats in which an increased potential pathogen abundance is spatially co-located with an increased abundance of ARGs under global change. Our findings provided new insights into the community ecology of the microbiome and antibiotic resistome of the soil plastisphere.
LsAP2 regulates leaf morphology by inhibiting CIN-like TCP transcription factors and repressing LsKAN2 in lettuce
Authors: Luo Chen , Wang Shenglin , Ning Kang , Chen Zijing , Wang Yixin , Yang Jingjing , Wang Qian 
Published: September 2021

AbstractLeaf size and flatness directly affect photosynthesis and are closely related to agricultural yield. The final leaf size and shape are coordinately determined by cell proliferation, differentiation, and expansion during leaf development. Lettuce (Lactuca sativa L.) is one of the most important leafy vegetables worldwide, and lettuce leaves vary in shape and size. However, the molecular mechanisms of leaf development in lettuce are largely unknown. In this study, we showed that the lettuce APETALA2 (LsAP2) gene regulates leaf morphology. LsAP2 encodes a transcriptional repressor that contains the conserved EAR motif, which mediates interactions with the TOPLESS/TOPLESS-RELATED (TPL/TPR) corepressors. Overexpression of LsAP2 led to small and crinkly leaves, and many bulges were seen on the surface of the leaf blade. LsAP2 physically interacted with the CINCINNATA (CIN)-like TEOSINTE BRANCHED1/CYCLOIDEA/PROLIFERATING CELL FACTOR (TCP) transcription factors and inhibited their transcriptional activation activity. RNA sequencing analysis showed that LsAP2 affected the expression of auxin- and polarity-related genes. In addition, LsAP2 directly repressed the abaxial identity gene KANADI2 (LsKAN2). Together, these results indicate that LsAP2 regulates leaf morphology by inhibiting CIN-like TCP transcription factors and repressing LsKAN2, and our work provides insights into the regulatory mechanisms of leaf development in lettuce.
Auxin response and transport during induction of pedicel abscission in tomato
Authors: Dong Xiufen , Ma Chao , Xu Tao , Reid Michael S. , Jiang Cai-Zhong , Li Tianlai 
Published: September 2021

AbstractAuxin plays a central role in control of organ abscission, and it is thought that changes in the auxin gradient across the abscission zone are the primary determinant of the onset of abscission. The nature of this gradient, whether in concentration, flow, or perhaps in the response system has not conclusively been determined. We employed a DR5::GUS auxin response reporter system to examine the temporal and spatial distribution of the auxin response activity in response to developmental and environmental cues during pedicel abscission in tomato. In pedicels of young and fully open flowers, auxin response, as indicated by GUS activity, was predominantly detected in the vascular tissues and was almost entirely confined to the abscission zone (AZ) and to the distal portion of the pedicel, with a striking reduction in the proximal tissues below the AZ—a ‘step’, rather than a gradient. Following pollination and during early fruit development, auxin response increased substantially throughout the pedicel. Changes in GUS activity following treatments that caused pedicel abscission (flower removal, high temperature, darkness, ethylene, or N-1-naphthylphthalamic acid (NPA) treatment) were relatively minor, with reduced auxin response in the AZ and some reduction above and below it. Expression of genes encoding some auxin efflux carriers (PIN) and influx carriers (AUX⁄LAX) was substantially reduced in the abscission zone of NPA-treated pedicels, and in pedicels stimulated to abscise by flower removal. Our results suggest that changes in auxin flow distribution through the abscission zone are likely more important than the auxin response system in the regulation of abscission.
UV-B light and its application potential to reduce disease and pest incidence in crops
Authors: Meyer Prisca , Van de Poel Bram , De Coninck Barbara 
Published: September 2021

AbstractUltraviolet-B radiation (280–315 nm), perceived by the plant photoreceptor UVR8, is a key environmental signal that influences plant growth and development and can reduce disease and pest incidence. The positive effect of UV-B on disease resistance and incidence in various plant species supports the implementation of supplemental UV-B radiation in sustainable crop production. However, despite many studies focusing on UV-B light, there is no consensus on the best mode of application. This review aims to analyze, evaluate, and organize the different application strategies of UV-B radiation in crop production with a focus on disease resistance. We summarize the physiological effects of UV-B light on plants and discuss how plants perceive and transduce UV-B light by the UVR8 photoreceptor as well as how this perception alters plant specialized metabolite production. Next, we bring together conclusions of various studies with respect to different UV-B application methods to improve plant resistance. In general, supplemental UV-B light has a positive effect on disease resistance in many plant–pathogen combinations, mainly through the induction of the production of specialized metabolites. However, many variables (UV-B light source, plant species, dose and intensity, timing during the day, duration, background light, etc.) make it difficult to compare and draw general conclusions. We compiled the information of recent studies on UV-B light applications, including e.g., details on the UV-B light source, experimental set-up, calculated UV-B light dose, intensity, and duration. This review provides practical insights and facilitates future research on UV-B radiation as a promising tool to reduce disease and pest incidence.
DNA methylation is involved in sexual differentiation and sex chromosome evolution in the dioecious plant garden asparagus
Authors: Li Shu-Fen , Lv Can-Can , Lan Li-Na , Jiang Kai-Lu , Zhang Yu-Lan , Li Ning , Deng Chuan-Liang , Gao Wu-Jun 
Published: September 2021

Abstract
DNA methylation is a crucial regulatory mechanism in many biological processes. However, limited studies have dissected the contribution of DNA methylation to sexual differentiation in dioecious plants. In this study, we investigated the variances in methylation and transcriptional patterns of male and female flowers of garden asparagus. Compared with male flowers, female flowers at the same stages showed higher levels of DNA methylation. Both male and female flowers gained DNA methylation globally from the premeiotic to meiotic stages. Detailed analysis revealed that the increased DNA methylation was largely due to increased CHH methylation. Correlation analysis of differentially expressed genes and differentially methylated regions suggested that DNA methylation might not have contributed to the expression variation of the sex-determining genes SOFF and TDF1 but probably played important roles in sexual differentiation and flower development of garden asparagus. The upregulated genes AoMS1, AoLAP3, AoAMS, and AoLAP5 with varied methylated CHH regions might have been involved in sexual differentiation and flower development of garden asparagus. Plant hormone signaling genes and transcription factor genes also participated in sexual differentiation and flower development with potential epigenetic regulation. In addition, the CG and CHG methylation levels in the Y chromosome were notably higher than those in the X chromosome, implying that DNA methylation might have been involved in Y chromosome evolution. These data provide insights into the epigenetic modification of sexual differentiation and flower development and improve our understanding of sex chromosome evolution in garden asparagus.
A high-quality chromosome-scale assembly of the centipedegrass [Eremochloa ophiuroides (Munro) Hack.] genome provides insights into chromosomal structural evolution and prostrate growth habit
Authors: Wang Jingjing , Zi Hailing , Wang Rui , Liu Jianxiu , Wang Haoran , Chen Rongrong , Li Ling , Guo Hailin , Chen Jingbo , Li Jianjian , Zong Junqin 
Published: September 2021

AbstractCentipedegrass [Eremochloa ophiuroides(Munro) Hack.], a member of the Panicoideae subfamily, is one of the most important warm-season turfgrasses originating from China. This grass has an extremely developed prostrate growth habit and has been widely used in transitional and warm climatic regions. To better understand the genetic basis of important biological characteristics, such as prostrate growth and seed yield, in warm-season turfgrasses, we present a high-quality reference genome for centipedegrass and use PacBio, BioNano, and Hi-C technologies to anchor the 867.43 Mb genome assembly into nine pseudochromosomes, with a scaffold N50 of 86.05 Mb and 36,572 annotated genes. Centipedegrass was most closely related to sorghum and diverged from their common ancestor ~16.8 Mya. We detected a novel chromosome reshuffling event in centipedegrass, namely, the nest chromosome fusion event in which fusion of chromosomes 8 and 10 of sorghum into chromosome 3 of centipedegrass likely occurred after the divergence of centipedegrass from sorghum. The typical prostrate growth trait in centipedegrass may be linked to the expansion of candidatePROSTRATE GROWTH 1(PROG1) genes on chromosome 2. Two orthologous genes ofOsPROG1,EoPROG1,andEoPROG2, were confirmed to increase the stem number and decrease the stem angle inArabidopsis. Collectively, our assembled reference genome of centipedegrass offers new knowledge and resources to dissect the genome evolution of Panicoideae and accelerate genome-assisted breeding and improvement of plant architecture in turf plants.
Integrin-αV-mediated activation of TGF-β regulates anti-tumour CD8 T cell immunity and response to PD-1 blockade
Authors: Malenica Ines , Adam Julien , Corgnac Stéphanie , Mezquita Laura , Auclin Edouard , Damei Isabelle , Grynszpan Laetitia , Gros Gwendoline , de Montpréville Vincent , Planchard David , Théret Nathalie , Besse Benjamin , Mami-Chouaib Fathia 
Published: September 2021

AbstractTGF-β is secreted in the tumour microenvironment in a latent, inactive form bound to latency associated protein and activated by the integrin αV subunit. The activation of latent TGF-β by cancer-cell-expressed αV re-shapes the tumour microenvironment, and this could affect patient responses to PD-1-targeting therapy. Here we show, using multiplex immunofluorescence staining in cohorts of anti-PD-1 and anti-PD-L1-treated lung cancer patients, that decreased expression of cancer cell αV is associated with improved immunotherapy-related, progression-free survival, as well as with an increased density of CD8+CD103+ tumour-infiltrating lymphocytes. Mechanistically, tumour αV regulates CD8 T cell recruitment, induces CD103 expression on activated CD8+ T cells and promotes their differentiation to granzyme B-producing CD103+CD69+ resident memory T cells via autocrine TGF-β signalling. Thus, our work provides the underlying principle of targeting cancer cell αV for more efficient PD-1 checkpoint blockade therapy.
Aging, inflammation and DNA damage in the somatic testicular niche with idiopathic germ cell aplasia
Authors: Alfano Massimo , Tascini Anna Sofia , Pederzoli Filippo , Locatelli Irene , Nebuloni Manuela , Giannese Francesca , Garcia-Manteiga Jose Manuel , Tonon Giovanni , Amodio Giada , Gregori Silvia , Agresti Alessandra , Montorsi Francesco , Salonia Andrea 
Published: September 2021

AbstractMolecular mechanisms associated with human germ cell aplasia in infertile men remain undefined. Here we perform single-cell transcriptome profiling to highlight differentially expressed genes and pathways in each somatic cell type in testes of men with idiopathic germ cell aplasia. We identify immaturity of Leydig cells, chronic tissue inflammation, fibrosis, and senescence phenotype of the somatic cells, as well markers of chronic inflammation in the blood. We find that deregulated expression of parentally imprinted genes in myoid and immature Leydig cells, with relevant changes in the ratio of Lamin A/C transcripts and an active DNA damage response in Leydig and peritubular myoid cells are also indicative of senescence of the testicular niche. This study offers molecular insights into the pathogenesis of idiopathic germ cell aplasia.
Histone deacetylase HDA-4-mediated epigenetic regulation in space-flown C. elegans
Authors: Higashitani Atsushi , Hashizume Toko , Takiura Mai , Higashitani Nahoko , Teranishi Mika , Oshima Rika , Yano Sachiko , Kuriyama Kana , Higashibata Akira 
Published: September 2021

AbstractEpigenetic changes during long-term spaceflight are beginning to be studied by NASA’s twin astronauts and other model organisms. Here, we evaluate the epigenetic regulation of gene expression in space-flown C. elegans by comparing wild type and histone deacetylase (hda)-4 mutants. Expression levels of 39 genes were consistently upregulated in all four generations of adult hda-4 mutants grown under microgravity compared with artificial Earth-like gravity (1G). In contrast, in the wild type, microgravity-induced upregulation of these genes occurred a little. Among these genes, 11 contain the domain of unknown function 19 (DUF-19) and are located in a cluster on chromosome V. When compared with the 1G condition, histone H3 trimethylation at lysine 27 (H3K27me3) increased under microgravity in the DUF-19 containing genes T20D4.12 to 4.10 locus in wild-type adults. On the other hand, this increase was also observed in the hda-4 mutant, but the level was significantly reduced. The body length of wild-type adults decreased slightly but significantly when grown under microgravity. This decrease was even more pronounced with the hda-4 mutant. In ground-based experiments, one of the T20D4.11 overexpressing strains significantly reduced body length and also caused larval growth retardation and arrest. These results indicate that under microgravity, C. elegans activates histone deacetylase HDA-4 to suppress overregulation of several genes, including the DUF-19 family. In other words, the expression of certain genes, including negative regulators of growth and development, is epigenetically fine-tuned to adapt to the space microgravity.