bluuebunny/crossref_metadata_2025_split huggingface dataset:
Laboratory Experiments of Volcanic Ash Resuspension by Wind
Authors: Etyemezian V. , Gillies J. A. , Mastin L. G. , Crawford A. , Hasson R. , Van Eaton A. R. , Nikolich G. 
Published: August 2019

AbstractFresh volcanic eruption deposits tend to be loose, bare, and readily resuspended by wind. Major resuspension events in Patagonia, Iceland, and Alaska have lofted ash clouds with potential to impact aircraft, infrastructure, and downwind communities. However, poor constraints on this resuspension process limit our ability to model this phenomenon. Here, we present laboratory experiments measuring threshold shear velocities and emission rates of resuspended ash under different environmental conditions, including relative humidity of 25–75% and simulated rainfall with subsequent drying. Eruption deposits were replicated using ash collected from two major eruptions: the 18 May 1980 eruption of Mount St. Helens and the 1912 eruption of Novarupta, in Alaska's Valley of Ten Thousand Smokes. Samples were conditioned in a laboratory chamber and prepared with bulk deposit densities of 1,300–1,500 kg/m3. A control sample of dune sand was included for comparison. The deposits were subjected to different wind speeds using a modified PI‐SWERL® instrument. Under a constant relative humidity of 50% and shear velocities 0.4–0.8 m/s, PM10 emission by resuspension ranged from 10 to >100 mg·m−2·s−1. Addition of liquid water equivalent to 5 mm of rainfall had little lasting effect on Mount St. Helens wind erosion potential, while the Valley of Ten Thousand Smokes deposits exhibited lower emissions for at least 12 days. The results indicate that particle resuspension due to wind erosion from ash deposits potentially exceeds that of most desert surfaces and approaches some of the highest emissions ever measured.
Spatial Distributions and Seasonal Changes of Current‐Use Pesticides from the North Pacific to the Arctic Oceans
Authors: Gao Yuan , Zheng Hongyuan , Xia Yinyue , Chen Min , Meng Xiang‐Zhou , Cai Minghong 
Published: August 2019

AbstractDistributions of eight targeted current‐use pesticides (CUPs) chloroneb, simazine, atrazine, alachlor, dacthal, chlorobenzilate, methoxychlor, and permethrin were investigated in seawater and the atmosphere in a region covering the North Pacific to the Arctic Oceans during the 7th and 8th Chinese National Arctic Research Expedition (2016 and 2017) voyages of the research vessel R/V Xuelong (Snow Dragon in English). Total CUP concentrations in seawater have prominent seasonal and latitudinal trends, with higher concentrations occurring at lower latitudes in early summer. The major contributors of the CUPs (∑8CUP) did not alter over different seasons with dominant chloroneb, alachlor, and atrazine accounting for more than 90%, but their concentrations did have marked seasonal changes. However, the compositions of the eight analyzed CUPs varied indistinctly between seasons indicating a possible combined environmental impact on these compounds rather than the effects of individual chemical properties. Three‐day backward air mass trajectories indicate that atmospheric masses from northeastern China are responsible for the high concentrations of CUPs in East China and Japan Seas, whereas those from the North Atlantic Ocean contribute to the low levels in local area. Fugacity ratios indicate potential volatilization and equilibrium of chloroneb in the Canada Basin of the Arctic Ocean and Japan Sea, respectively, and deposition of other CUPs in both regions. However, atmospheric concentrations are decoupled from those in seawater, which indicates a low exchange rate.
Does Involving Parents in Soil Sampling Identify Causes of Child Exposure to Lead? A Case Study of Community Engagement in Mining‐Impacted Towns in Peru
Authors: Landes Franziska C. , Inauen Jennifer , Ponce‐Canchihuamán Johny , Markowski Kathie , Ellis Tyler K. , van Geen Alexander 
Published: August 2019

AbstractOver a million people in Peru may be exposed to lead (Pb) due to past or present mining‐related activities; however, neither soil Pb nor blood Pb are routinely monitored throughout the country. Because little is known about Pb contamination in smaller mining‐impacted towns, soil Pb was mapped in four such towns with a portable X‐ray fluorescence analyzer in 2015. The roadside mapping delineated hotspots of highly contaminated soil (1,000–6,000 mg/kg Pb) in two of the towns. The local health department, provided with a LeadCare II analyzer, then measured blood‐Pb levels >5 in 65% and >10 μg/dL in 15% of children (n = 200) up to 6 years of age in these same four communities. There were no clear relations between child blood‐Pb levels and Pb levels in soil samples collected inside (n = 50) or outside the home (n = 50). Increased child blood Pb was associated with decreased level of cleanliness of parent clothing (n = 136) and shoes (n = 138), linking a possible behavioral factor for transferring contaminated soil and dust to children. In order to explore individual exposure and variations in soil Pb, 10 parents of children with blood Pb >10 μg/dL and 10 parents of children with blood Pb <5 μg/dL were invited to collect soil samples in areas where their children play and screen it for Pb using a color‐based field procedure. Importantly, parents identified a new hotspot of Pb contamination that had been missed by the previous portable X‐ray fluorescence soil mapping. The findings highlight the feasibility and value of involving families impacted by environmental contamination to identify and reduce environmental health risk.
Deposition of Organic and Black Carbon: Direct Measurements at Three Remote Stations in the Himalayas and Tibetan Plateau
Authors: Yan Fangping , He Cenlin , Kang Shichang , Chen Pengfei , Hu Zhaofu , Han Xiaowen , Gautam Sangita , Yan Caiqing , Zheng Mei , Sillanpää Mika , Raymond Peter A. , Li Chaoliu 
Published: August 2019

AbstractCarbonaceous matter in the atmosphere has an important influence on climate change. Currently, the deposition of carbonaceous matter is one of the largest uncertainties in the climate system. This phenomenon is common in remote regions, such as the Himalayas and Tibetan Plateau. In this study, for the first time, we reported in situ measurements of wet and dry deposition rates of carbonaceous matter at three remote stations: Nam Co, Lulang, and Everest. The results showed that the annual wet deposition rates of water‐insoluble organic carbon (WIOC) and black carbon (BC) were 60.2 and 5.8 mg·m−2·year−1, 330 and 34.6 mg·m−2·year−1, and 47.0 and 2.6 mg·m−2·year−1 at the Nam Co, Lulang, and Everest stations, respectively. Seasonal variations in the wet deposition rates of WIOC and BC were controlled by precipitation amount and their atmospheric concentrations. In addition, the wet scavenging ratios of WIOC and BC at Nam Co Station were close to those observed in other remote areas. The total BC deposition at Nam Co Station (15.3 mg·m−2·year−1) was higher than that from chemical transport models, implying a dominant role of dry deposition of BC in the total deposition at this station and an urgent need to improve the aerosol deposition in models for the Himalayas and Tibetan Plateau. It was found that the deposition rates of carbonaceous matter in the Himalayas and Tibetan Plateau had large spatial variation; thus, high‐resolution models need to be applied in the future.
Impact of energy turnover on the regulation of glucose homeostasis in healthy subjects
Authors: Büsing Franziska , Hägele Franziska Anna , Nas Alessa , Hasler Mario , Müller Manfred James , Bosy-Westphal Anja 
Published: August 2019

Abstract
Objective
Sedentary lifestyle increases the risk of type 2 diabetes. The aim of this study was to investigate the impact of different levels of energy turnover (ET; low, medium, and high level of physical activity and the corresponding energy intake) on glucose metabolism at zero energy balance, caloric restriction, and overfeeding.

Methods
Sixteen healthy individuals (13 men, 3 women, 25.1 ± 3.9 years, BMI 24.0 ± 3.2 kg/m2) participated in a randomized crossover intervention under metabolic ward conditions. Subjects passed 3 × 3 intervention days. Three levels of physical activity (PAL: low 1.3, medium 1.6, and high 1.8 achieved by walking at 4 km/h for 0, 3 × 55, or 3 × 110 min) were compared under three levels of energy balance (zero energy balance (EB): 100% of energy requirement (Ereq); caloric restriction (CR): 75% Ereq, and overfeeding (OF): 125% Ereq). Continuous interstitial glucose monitoring, C-peptide excretion, and HOMA–IR, as well as postprandial glucose and insulin were measured.

Results
Daylong glycemia and insulin secretion did not increase with higher ET at all conditions of energy balance (EB, CR, and OF), despite a correspondingly higher CHO intake (Δ low vs. high ET: +86 to 135 g of CHO/d). At CR, daylong glycemia (p = 0.02) and insulin secretion (p = 0.04) were even reduced with high compared with low ET. HOMA–IR was impaired with OF and improved with CR, whereas ET had no effect on fasting insulin sensitivity. A higher ET led to lower postprandial glucose and insulin levels under conditions of CR and OF.

Conclusion
Low-intensity physical activity can significantly improve postprandial glycemic response of healthy individuals, independent of energy balance.
Potent delivery of an MMP inhibitor to the tumor microenvironment with thermosensitive liposomes for the suppression of metastasis and angiogenesis
Authors: Lyu Yaqi , Xiao Qingqing , Yin Lifang , Yang Lei , He Wei 
Published: August 2019

AbstractMetastasis is a major cause of chemotherapeutic failure and death. Degradation of a specific component of the extracellular matrix (ECM) by matrix metalloproteinases (MMPs) affects the physical barrier of the tumor microenvironment (TME) and induces metastasis. Here, lysolipid-containing thermosensitive liposomes (LTSLs) were prepared to deliver an MMP inhibitor, marimastat (MATT), to the TME to inhibit MMP activity and expression. LTSLs rapidly released their payloads at 42 °C. Compared with the saline control, MATT-LTSLs exhibited enhanced accumulation in the tumor and a 20-fold decrease in tumor growth in 4T1 tumor-bearing mice; moreover, MATT-LTSLs reduced MMP-2 and MMP-9 activity by 50% and 43%, respectively, and downregulated MMP-2 and MMP-9 expression in vivo by 30% and 43%, respectively. Most importantly, MATT-LTSL treatment caused a 7-fold decrease in metastatic lung nodules and a 6-fold reduction in microvessels inside the tumor. We believe this study provides an effective approach for the suppression of metastasis, and the use of a cytotoxic agent in combination with MATT is a potential strategy for metastatic cancer treatment.
Horizontally transmitted symbiont populations in deep-sea mussels are genetically isolated
Authors: Romero Picazo Devani , Dagan Tal , Ansorge Rebecca , Petersen Jillian M , Dubilier Nicole , Kupczok Anne 
Published: August 2019

Abstract
Eukaryotes are habitats for bacterial organisms where the host colonization and dispersal among individual hosts have consequences for the bacterial ecology and evolution. Vertical symbiont transmission leads to geographic isolation of the microbial population and consequently to genetic isolation of microbiotas from individual hosts. In contrast, the extent of geographic and genetic isolation of horizontally transmitted microbiota is poorly characterized. Here we show that chemosynthetic symbionts of individual Bathymodiolus brooksi mussels constitute genetically isolated subpopulations. The reconstruction of core genome-wide strains from high-resolution metagenomes revealed distinct phylogenetic clades. Nucleotide diversity and strain composition vary along the mussel life span and individual hosts show a high degree of genetic isolation. Our results suggest that the uptake of environmental bacteria is a restricted process in B. brooksi, where self-infection of the gill tissue results in serial founder effects during symbiont evolution. We conclude that bacterial colonization dynamics over the host life cycle is thus an important determinant of population structure and genome evolution of horizontally transmitted symbionts.
Chemosymbiotic bivalves contribute to the nitrogen budget of seagrass ecosystems
Authors: Cardini Ulisse , Bartoli Marco , Lücker Sebastian , Mooshammer Maria , Polzin Julia , Lee Raymond W , Micić Vesna , Hofmann Thilo , Weber Miriam , Petersen Jillian M 
Published: August 2019

Abstract
In many seagrass sediments, lucinid bivalves and their sulfur-oxidizing symbionts are thought to underpin key ecosystem functions, but little is known about their role in nutrient cycles, particularly nitrogen. We used natural stable isotopes, elemental analyses, and stable isotope probing to study the ecological stoichiometry of a lucinid symbiosis in spring and fall. Chemoautotrophy appeared to dominate in fall, when chemoautotrophic carbon fixation rates were up to one order of magnitude higher as compared with the spring, suggesting a flexible nutritional mutualism. In fall, an isotope pool dilution experiment revealed carbon limitation of the symbiosis and ammonium excretion rates up to tenfold higher compared with fluxes reported for nonsymbiotic marine bivalves. These results provide evidence that lucinid bivalves can contribute substantial amounts of ammonium to the ecosystem. Given the preference of seagrasses for this nitrogen source, lucinid bivalves’ contribution may boost productivity of these important blue carbon ecosystems.
The transcriptional landscape of lncRNAs reveals the oncogenic function of LINC00511 in ER-negative breast cancer
Authors: Zhang Jian , Sui Shiyao , Wu Hao , Zhang Jinfeng , Zhang Xingda , Xu Shouping , Pang Da 
Published: August 2019

AbstractAdvances in the molecular characteristics of cancers have facilitated the classification system from morphology to molecular characteristic-based subtypes. Cancer profiling has expanded in its focus from protein-coding genes to noncoding RNAs, with advances in the depth and quality of transcriptome sequencing. Here, we examined the profiles of long noncoding RNAs (lncRNAs) according to breast cancer subtype categories in The Cancer Genome Atlas (TCGA) database to identify a cohort of breast cancer- and oestrogen receptor (ER)-negative-associated lncRNAs. According to the prioritization of variation in ER-negative-associated lncRNAs, we identified and investigated the role of LINC00511 in breast cancer. We determined that high LINC00511 expression was an unfavourable prognostic factor for patients with breast cancer. Furthermore, LINC00511 promoted tumour growth by accelerating the G1/S transition and inhibiting apoptosis. At the transcriptional level, ER deficiency directly affected the expression of LINC00511 activated by transcription factor AP-2 (TFAP-2) in breast cancer cells. Moreover, mechanistic investigations demonstrated that ER-negative-associated LINC00511 interacted with enhancer of zeste homologue 2 (EZH2, the catalytic subunit of polycomb repressive complex 2, PRC2) and recruited PRC2 to mediate histone methylation, contributing to the repression of CDKN1B in the nucleus. This process resulted in altered ER-negative breast cancer cell biology. By highlighting the oncogenic function of LINC00511, we revealed the role of lncRNAs in regulating the network of cell cycle control in ER-negative breast cancer and suggested the exploitation of LINC00511 as an anticancer therapy in the future.
Diamond-Blackfan anemia caused by chromosome 1p22 deletion encompassing RPL5
Authors: Tominaga Makiko , Hamanoue Satoshi , Goto Hiroaki , Saito Toshiyuki , Nagai Jun-ichi , Masuno Mitsuo , Umeda You , Kurosawa Kenji 
Published: August 2019

AbstractDiamond-Blackfan anemia (DBA) is an inherited anemia with multiple congenital malformations, and mutations in ribosomal protein genes have been identified as the underlying cause. We describe a female patient with mild DBA due to 1p22 deletion, encompassing the gene encoding 60S ribosomal protein L5 (RPL5). Considering previously reported cases together with our patient, we suggest that RPL5 haploinsufficiency might cause a less severe form of DBA than loss-of-function mutations.
Computer simulations of food oral processing to engineer teeth cleaning
Authors: Skamniotis C. G. , Elliott M. , Charalambides M. N. 
Published: August 2019

AbstractOral biofilm accumulation in pets is a growing concern. It is desirable to address this problem via non-invasive teeth cleaning techniques, such as through friction between teeth and food during chewing. Therefore, pet food design tools are needed towards optimising cleaning efficacy. Developing such tools is challenging, as several parameters affecting teeth cleaning should be considered: the food’s complex mechanical response, the contacting surfaces topology as well as the wide range of masticatory and anatomical characteristics amongst breeds. We show that Finite Element (FE) models can efficiently account for all these parameters, through the simulation of food deformation and fracture during the first bite. This reduces the need for time consuming and costly in-vivo or in-vitro trials. Our in-silico model is validated through in-vitro tests, demonstrating that the initial oral processing stage can be engineered through computers with high fidelity.
Identification of drug-specific public TCR driving severe cutaneous adverse reactions
Authors: Pan Ren-You , Chu Mu-Tzu , Wang Chuang-Wei , Lee Yun-Shien , Lemonnier Francois , Michels Aaron W. , Schutte Ryan , Ostrov David A. , Chen Chun-Bing , Phillips Elizabeth Jane , Mallal Simon Alexander , Mockenhaupt Maja , Bellón Teresa , Tassaneeyakul Wichittra , White Katie D. , Roujeau Jean-Claude , Chung Wen-Hung , Hung Shuen-Iu 
Published: August 2019

AbstractDrug hypersensitivity such as severe cutaneous adverse reactions (SCAR), including Stevens–Johnson syndrome (SJS) and toxic epidermal necrolysis (TEN), could be life-threatening. Here, we enroll SCAR patients to investigate the T cell receptor (TCR) repertoire by next-generation sequencing. A public αβTCR is identified from the cytotoxic T lymphocytes of patients with carbamazepine-SJS/TEN, with its expression showing drug/phenotype-specificity and an bias for HLA-B*15:02. This public αβTCR has binding affinity for carbamazepine and its structural analogs, thereby mediating the immune response. Adoptive transfer of T cell expressing this public αβTCR toHLA-B*15:02transgenic mice receiving oral administration of carbamazepine induces multi-organ injuries and symptoms mimicking SCAR, including hair loss, erythema, increase of inflammatory lymphocytes in the skin and blood, and liver and kidney dysfunction. Our results not only demonstrate an essential role of TCR in the immune synapse mediating SCAR, but also implicate potential clinical applications and development of therapeutics.
Quantifying the impact of uncertainty on threat management for biodiversity
Authors: Nicol Sam , Brazill-Boast James , Gorrod Emma , McSorley Adam , Peyrard Nathalie , Chadès Iadine 
Published: August 2019

AbstractWith inadequate resources to manage the threats facing biodiversity worldwide, achieving projected management outcomes is critical for efficient resource allocation and species recovery. Despite this, conservation plans to mitigate threats rarely articulate the likelihood of management success. Here we develop a general value of information approach to quantify the impact of uncertainty on 20 threatening processes affecting 976 listed species and communities. To our knowledge, this is the most comprehensive quantification of the impacts of uncertainty on threat management. We discover that, on average, removing uncertainty about management effectiveness could triple the gain in persistence achieved by managing under current uncertainty. Management of fire, invasive animals and a plant pathogen are most impeded by uncertainty; management of invasive plants is least impacted. Our results emphasise the tremendous importance of reducing uncertainty about species responses to management, and show that failure to consider management effectiveness wastes resources and impedes species recovery.
Past–future information bottleneck for sampling molecular reaction coordinate simultaneously with thermodynamics and kinetics
Authors: Wang Yihang , Ribeiro João Marcelo Lamim , Tiwary Pratyush 
Published: August 2019

AbstractThe ability to rapidly learn from high-dimensional data to make reliable bets about the future is crucial in many contexts. This could be a fly avoiding predators, or the retina processing gigabytes of data to guide human actions. In this work we draw parallels between these and the efficient sampling of biomolecules with hundreds of thousands of atoms. For this we use the Predictive Information Bottleneck framework used for the first two problems, and re-formulate it for the sampling of biomolecules, especially when plagued with rare events. Our method uses a deep neural network to learn the minimally complex yet most predictive aspects of a given biomolecular trajectory. This information is used to perform iteratively biased simulations that enhance the sampling and directly obtain associated thermodynamic and kinetic information. We demonstrate the method on two test-pieces, studying processes slower than milliseconds, calculating free energies, kinetics and critical mutations.
Comprehensive transcriptomic analysis of cell lines as models of primary tumors across 22 tumor types
Authors: Yu K. , Chen B. , Aran D. , Charalel J. , Yau C. , Wolf D. M. , van ‘t Veer L. J. , Butte A. J. , Goldstein T. , Sirota M. 
Published: August 2019

AbstractCancer cell lines are a cornerstone of cancer research but previous studies have shown that not all cell lines are equal in their ability to model primary tumors. Here we present a comprehensive pan-cancer analysis utilizing transcriptomic profiles from The Cancer Genome Atlas and the Cancer Cell Line Encyclopedia to evaluate cell lines as models of primary tumors across 22 tumor types. We perform correlation analysis and gene set enrichment analysis to understand the differences between cell lines and primary tumors. Additionally, we classify cell lines into tumor subtypes in 9 tumor types. We present our pancreatic cancer results as a case study and find that the commonly used cell line MIA PaCa-2 is transcriptionally unrepresentative of primary pancreatic adenocarcinomas. Lastly, we propose a new cell line panel, the TCGA-110-CL, for pan-cancer studies. This study provides a resource to help researchers select more representative cell line models.
Blood stem cell-forming haemogenic endothelium in zebrafish derives from arterial endothelium
Authors: Bonkhofer Florian , Rispoli Rossella , Pinheiro Philip , Krecsmarik Monika , Schneider-Swales Janina , Tsang Ingrid Ho Ching , de Bruijn Marella , Monteiro Rui , Peterkin Tessa , Patient Roger 
Published: August 2019

AbstractHaematopoietic stem cells are generated from the haemogenic endothelium (HE) located in the floor of the dorsal aorta (DA). Despite being integral to arteries, it is controversial whether HE and arterial endothelium share a common lineage. Here, we present a transgenic zebrafish runx1 reporter line to isolate HE and aortic roof endothelium (ARE)s, excluding non-aortic endothelium. Transcriptomic analysis of these populations identifies Runx1-regulated genes and shows that HE initially expresses arterial markers at similar levels to ARE. Furthermore, runx1 expression depends on prior arterial programming by the Notch ligand dll4. Runx1−/− mutants fail to downregulate arterial genes in the HE, which remains integrated within the DA, suggesting that Runx1 represses the pre-existing arterial programme in HE to allow progression towards the haematopoietic fate. These findings strongly suggest that, in zebrafish, aortic endothelium is a precursor to HE, with potential implications for pluripotent stem cell differentiation protocols for the generation of transplantable HSCs.