bluuebunny/crossref_metadata_2025_split huggingface dataset:
A biogenic secondary organic aerosol source of cirrus ice nucleating particles
Authors: Wolf Martin J. , Zhang Yue , Zawadowicz Maria A. , Goodell Megan , Froyd Karl , Freney Evelyn , Sellegri Karine , Rösch Michael , Cui Tianqu , Winter Margaux , Lacher Larissa , Axisa Duncan , DeMott Paul J. , Levin Ezra J. T. , Gute Ellen , Abbatt Jonathan , Koss Abigail , Kroll Jesse H. , Surratt Jason D. , Cziczo Daniel J. 
Published: October 2020

AbstractAtmospheric ice nucleating particles (INPs) influence global climate by altering cloud formation, lifetime, and precipitation efficiency. The role of secondary organic aerosol (SOA) material as a source of INPs in the ambient atmosphere has not been well defined. Here, we demonstrate the potential for biogenic SOA to activate as depositional INPs in the upper troposphere by combining field measurements with laboratory experiments. Ambient INPs were measured in a remote mountaintop location at –46 °C and an ice supersaturation of 30% with concentrations ranging from 0.1 to 70 L–1. Concentrations of depositional INPs were positively correlated with the mass fractions and loadings of isoprene-derived secondary organic aerosols. Compositional analysis of ice residuals showed that ambient particles with isoprene-derived SOA material can act as depositional ice nuclei. Laboratory experiments further demonstrated the ability of isoprene-derived SOA to nucleate ice under a range of atmospheric conditions. We further show that ambient concentrations of isoprene-derived SOA can be competitive with other INP sources. This demonstrates that isoprene and potentially other biogenically-derived SOA materials could influence cirrus formation and properties.
Chromatin accessibility landscape and regulatory network of high-altitude hypoxia adaptation
Authors: Xin Jingxue , Zhang Hui , He Yaoxi , Duren Zhana , Bai Caijuan , Chen Lang , Luo Xin , Yan Dong-Sheng , Zhang Chaoyu , Zhu Xiang , Yuan Qiuyue , Feng Zhanying , Cui Chaoying , Qi Xuebin , Ouzhuluobu  , Wong Wing Hung , Wang Yong , Su Bing 
Published: October 2020

AbstractHigh-altitude adaptation of Tibetans represents a remarkable case of natural selection during recent human evolution. Previous genome-wide scans found many non-coding variants under selection, suggesting a pressing need to understand the functional role of non-coding regulatory elements (REs). Here, we generate time courses of paired ATAC-seq and RNA-seq data on cultured HUVECs under hypoxic and normoxic conditions. We further develop a variant interpretation methodology (vPECA) to identify active selected REs (ASREs) and associated regulatory network. We discover three causal SNPs of EPAS1, the key adaptive gene for Tibetans. These SNPs decrease the accessibility of ASREs with weakened binding strength of relevant TFs, and cooperatively down-regulate EPAS1 expression. We further construct the downstream network of EPAS1, elucidating its roles in hypoxic response and angiogenesis. Collectively, we provide a systematic approach to interpret phenotype-associated noncoding variants in proper cell types and relevant dynamic conditions, to model their impact on gene regulation.
A three-order-parameter bistable magnetoelectric multiferroic metal
Authors: Urru Andrea , Ricci Francesco , Filippetti Alessio , Íñiguez Jorge , Fiorentini Vincenzo 
Published: October 2020

AbstractUsing first-principles calculations we predict that the layered-perovskite metal Bi5Mn5O17 is a ferromagnet, ferroelectric, and ferrotoroid which may realize the long sought-after goal of a room-temperature ferromagnetic single-phase multiferroic with large, strongly coupled, primary-order polarization and magnetization. Bi5Mn5O17 has two nearly energy-degenerate ground states with mutually orthogonal vector order parameters (polarization, magnetization, ferrotoroidicity), which can be rotated globally by switching between ground states. Giant cross-coupling magnetoelectric and magnetotoroidic effects, as well as optical non-reciprocity, are thus expected. Importantly, Bi5Mn5O17 should be thermodynamically stable in O-rich growth conditions, and hence experimentally accessible.
Piperacillin/tazobactam resistance in a clinical isolate of Escherichia coli due to IS26-mediated amplification of blaTEM-1B
Authors: Hubbard Alasdair T. M. , Mason Jenifer , Roberts Paul , Parry Christopher M. , Corless Caroline , van Aartsen Jon , Howard Alex , Bulgasim Issra , Fraser Alice J. , Adams Emily R. , Roberts Adam P. , Edwards Thomas 
Published: October 2020

AbstractA phenotype of Escherichia coli and Klebsiella pneumoniae, resistant to piperacillin/tazobactam (TZP) but susceptible to carbapenems and 3rd generation cephalosporins, has emerged. The resistance mechanism associated with this phenotype has been identified as hyperproduction of the β-lactamase TEM. However, the mechanism of hyperproduction due to gene amplification is not well understood. Here, we report a mechanism of gene amplification due to a translocatable unit (TU) excising from an IS26-flanked pseudo-compound transposon, PTn6762, which harbours blaTEM-1B. The TU re-inserts into the chromosome adjacent to IS26 and forms a tandem array of TUs, which increases the copy number of blaTEM-1B, leading to TEM-1B hyperproduction and TZP resistance. Despite a significant increase in blaTEM-1B copy number, the TZP-resistant isolate does not incur a fitness cost compared to the TZP-susceptible ancestor. This mechanism of amplification of blaTEM-1B is an important consideration when using genomic data to predict susceptibility to TZP.
Dynamics and clinical relevance of maternal mRNA clearance during the oocyte-to-embryo transition in humans
Authors: Sha Qian-Qian , Zheng Wei , Wu Yun-Wen , Li Sen , Guo Lei , Zhang Shuoping , Lin Ge , Ou Xiang-Hong , Fan Heng-Yu 
Published: October 2020

AbstractMaternal mRNA clearance is an essential process that occurs during maternal-to-zygotic transition (MZT). However, the dynamics, functional importance, and pathological relevance of maternal mRNA decay in human preimplantation embryos have not yet been analyzed. Here we report the zygotic genome activation (ZGA)-dependent and -independent maternal mRNA clearance processes during human MZT and demonstrate that subgroups of human maternal transcripts are sequentially removed by maternal (M)- and zygotic (Z)-decay pathways before and after ZGA. Key factors regulating M-decay and Z-decay pathways in mouse have similar expression pattern during human MZT, suggesting that YAP1-TEAD4 transcription activators, TUT4/7-mediated mRNA 3ʹ-oligouridylation, and BTG4/CCR4-NOT-induced mRNA deadenylation may also be involved in the regulation of human maternal mRNA stability. Decreased expression of these factors and abnormal accumulation of maternal transcripts are observed in the development-arrested embryos of patients who seek assisted reproduction. Defects of M-decay and Z-decay are detected with high incidence in embryos that are arrested at the zygote and 8-cell stages, respectively. In addition, M-decay is not found to be affected by maternal TUBB8 mutations, although these mutations cause meiotic cell division defects and zygotic arrest, which indicates that mRNA decay is regulated independent of meiotic spindle assembly. Considering the correlations between maternal mRNA decay defects and early developmental arrest of in vitro fertilized human embryos, M-decay and Z-decay pathway activities may contribute to the developmental potential of human preimplantation embryos.
Highly efficient oxygen evolution reaction via facile bubble transport realized by three-dimensionally stack-printed catalysts
Authors: Kim Ye Ji , Lim Ahyoun , Kim Jong Min , Lim Donghoon , Chae Keun Hwa , Cho Eugene N. , Han Hyeuk Jin , Jeon Ki Ung , Kim Moohyun , Lee Gun Ho , Lee Gyu Rac , Ahn Hyun S. , Park Hyun S. , Kim Hyoungsoo , Kim Jin Young , Jung Yeon Sik 
Published: October 2020

AbstractDespite highly promising characteristics of three-dimensionally (3D) nanostructured catalysts for the oxygen evolution reaction (OER) in polymer electrolyte membrane water electrolyzers (PEMWEs), universal design rules for maximizing their performance have not been explored. Here we show that woodpile (WP)-structured Ir, consisting of 3D-printed, highly-ordered Ir nanowire building blocks, improve OER mass activity markedly. The WP structure secures the electrochemically active surface area (ECSA) through enhanced utilization efficiency of the extended surface area of 3D WP catalysts. Moreover, systematic control of the 3D geometry combined with theoretical calculations and various electrochemical analyses reveals that facile transport of evolved O2 gas bubbles is an important contributor to the improved ECSA-specific activity. The 3D nanostructuring-based improvement of ECSA and ECSA-specific activity enables our well-controlled geometry to afford a 30-fold higher mass activity of the OER catalyst when used in a single-cell PEMWE than conventional nanoparticle-based catalysts.
Biophysical ambiguities prevent accurate genetic prediction
Authors: Li Xianghua , Lehner Ben 
Published: October 2020

AbstractA goal of biology is to predict how mutations combine to alter phenotypes, fitness and disease. It is often assumed that mutations combine additively or with interactions that can be predicted. Here, we show using simulations that, even for the simple example of the lambda phage transcription factor CI repressing a gene, this assumption is incorrect and that perfect measurements of the effects of mutations on a trait and mechanistic understanding can be insufficient to predict what happens when two mutations are combined. This apparent paradox arises because mutations can have different biophysical effects to cause the same change in a phenotype and the outcome in a double mutant depends upon what these hidden biophysical changes actually are. Pleiotropy and non-monotonic functions further confound prediction of how mutations interact. Accurate prediction of phenotypes and disease will sometimes not be possible unless these biophysical ambiguities can be resolved using additional measurements.
Oxepinamide F biosynthesis involves enzymatic d-aminoacyl epimerization, 3H-oxepin formation, and hydroxylation induced double bond migration
Authors: Zheng Liujuan , Wang Haowen , Fan Aili , Li Shu-Ming 
Published: October 2020

AbstractOxepinamides are derivatives of anthranilyl-containing tripeptides and share an oxepin ring and a fused pyrimidinone moiety. To the best of our knowledge, no studies have been reported on the elucidation of an oxepinamide biosynthetic pathway and conversion of a quinazolinone to a pyrimidinone-fused 1H-oxepin framework by a cytochrome P450 enzyme in fungal natural product biosynthesis. Here we report the isolation of oxepinamide F from Aspergillus ustus and identification of its biosynthetic pathway by gene deletion, heterologous expression, feeding experiments, and enzyme assays. The nonribosomal peptide synthase (NRPS) OpaA assembles the quinazolinone core with d-Phe incorporation. The cytochrome P450 enzyme OpaB catalyzes alone the oxepin ring formation. The flavoenzyme OpaC installs subsequently one hydroxyl group at the oxepin ring, accompanied by double bond migration. The epimerase OpaE changes the d-Phe residue back to l-form, which is essential for the final methylation by OpaF.
PINCH-1 regulates mitochondrial dynamics to promote proline synthesis and tumor growth
Authors: Guo Ling , Cui Chunhong , Wang Jiaxin , Yuan Jifan , Yang Qingyang , Zhang Ping , Su Wen , Bao Ruolu , Ran Jingchao , Wu Chuanyue 
Published: October 2020

AbstractReprograming of proline metabolism is critical for tumor growth. Here we show that PINCH-1 is highly expressed in lung adenocarcinoma and promotes proline synthesis through regulation of mitochondrial dynamics. Knockout (KO) of PINCH-1 increases dynamin-related protein 1 (DRP1) expression and mitochondrial fragmentation, which suppresses kindlin-2 mitochondrial translocation and interaction with pyrroline-5-carboxylate reductase 1 (PYCR1), resulting in inhibition of proline synthesis and cell proliferation. Depletion of DRP1 reverses PINCH-1 deficiency-induced defects on mitochondrial dynamics, proline synthesis and cell proliferation. Furthermore, overexpression of PYCR1 in PINCH-1 KO cells restores proline synthesis and cell proliferation, and suppresses DRP1 expression and mitochondrial fragmentation. Finally, ablation of PINCH-1 from lung adenocarcinoma in mouse increases DRP1 expression and inhibits PYCR1 expression, proline synthesis, fibrosis and tumor growth. Our results identify a signaling axis consisting of PINCH-1, DRP1 and PYCR1 that regulates mitochondrial dynamics and proline synthesis, and suggest an attractive strategy for alleviation of tumor growth.
Deep longitudinal multiomics profiling reveals two biological seasonal patterns in California
Authors: Sailani M. Reza , Metwally Ahmed A. , Zhou Wenyu , Rose Sophia Miryam Schüssler-Fiorenza , Ahadi Sara , Contrepois Kevin , Mishra Tejaswini , Zhang Martin Jinye , Kidziński Łukasz , Chu Theodore J. , Snyder Michael P. 
Published: October 2020

AbstractThe influence of seasons on biological processes is poorly understood. In order to identify biological seasonal patterns based on diverse molecular data, rather than calendar dates, we performed a deep longitudinal multiomics profiling of 105 individuals over 4 years. Here, we report more than 1000 seasonal variations in omics analytes and clinical measures. The different molecules group into two major seasonal patterns which correlate with peaks in late spring and late fall/early winter in California. The two patterns are enriched for molecules involved in human biological processes such as inflammation, immunity, cardiovascular health, as well as neurological and psychiatric conditions. Lastly, we identify molecules and microbes that demonstrate different seasonal patterns in insulin sensitive and insulin resistant individuals. The results of our study have important implications in healthcare and highlight the value of considering seasonality when assessing population wide health risk and management.
Multiyear in-situ L-band microwave radiometry of land surface processes on the Tibetan Plateau
Authors: Su Z. , Wen J. , Zeng Y. , Zhao H. , Lv S. , van der Velde R. , Zheng D. , Wang X. , Wang Z. , Schwank M. , Kerr Y. , Yueh S. , Colliander A. , Qian H. , Drusch M. , Mecklenburg S. 
Published: September 2020

AbstractWe report a unique multiyear L-band microwave radiometry dataset collected at the Maqu site on the eastern Tibetan Plateau and demonstrate its utilities in advancing our understandings of microwave observations of land surface processes. The presented dataset contains measurements of L-band brightness temperature by an ELBARA-III microwave radiometer in horizontal and vertical polarization, profile soil moisture and soil temperature, turbulent heat fluxes, and meteorological data from the beginning of 2016 till August 2019, while the experiment is still continuing. Auxiliary vegetation and soil texture information collected in dedicated campaigns are also reported. This dataset can be used to validate the Soil Moisture and Ocean Salinity (SMOS) and Soil Moisture Active Passive (SMAP) satellite based observations and retrievals, verify radiative transfer model assumptions and validate land surface model and reanalysis outputs, retrieve soil properties, as well as to quantify land-atmosphere exchanges of energy, water and carbon and help to reduce discrepancies and uncertainties in current Earth System Models (ESM) parameterizations. Measurement cases in winter, pre-monsoon, monsoon and post-monsoon periods are presented.
Comparing preference of ankle–foot stiffness in below-knee amputees and prosthetists
Authors: Shepherd Max K. , Rouse Elliott J. 
Published: September 2020

AbstractWhen fitting prosthetic feet, prosthetists fuse information from their visual assessment of patient gait with the patient’s communicated perceptions and preferences. In this study, we sought to simultaneously and independently assess patient and prosthetist preference for prosthetic foot stiffness using a custom variable-stiffness prosthesis. In the first part of the experiment, seven subjects with below-knee amputation walked on the variable-stiffness prosthetic foot set to a randomized stiffness, while several prosthetist subjects simultaneously observed their gait. After each trial, the amputee subjects and prosthetist subjects indicated the change to stiffness that they would prefer (increase or decrease). This paradigm allowed us to simultaneously measure amputee subject and prosthetist subject preferences, and provided a reliability index indicating the consistency of their preferences. In the second part of the experiment, amputee subjects were instructed to communicate verbally with one prosthetist subject to arrive at a mutually preferred stiffness. On average, prosthetist subjects preferred a 26% higher stiffness than amputee subjects (p < 0.001), though this depended on the amputee subject (p < 0.001). Prosthetist subjects were also considerably less consistent than amputee subjects in their preferences (CV of 5.6% for amputee subjects, CV of 23% for prosthetist subjects; p = 0.014). Mutual preference seemed to be dictated by the specific patient-prosthetist dynamic, and no clear trends emerged.
Imaging atmospheric aerosol particles from a UAV with digital holography
Authors: Kemppinen Osku , Laning Jesse C. , Mersmann Ryan D. , Videen Gorden , Berg Matthew J. 
Published: September 2020

AbstractThe lack of quantitative characterization of aerosol particles and their loading in the atmosphere is one of the greatest uncertainties in climate-change science. Improved instrumentation capable of determining the size and shape of aerosol particles is needed in efforts to reduce this uncertainty. We describe a new instrument carried by an unmanned aerial vehicle (UAV) that images free-floating aerosol particles in the atmosphere. Using digital holography, the instrument obtains the images in a non-contact manner, resolving particles larger than ten micrometers in size in a sensing volume of approximately three cubic centimeters. The instrument, called the holographic aerosol particle imager (HAPI), has the unique ability to image multiple particles freely entering its sensing volume from any direction via a single measurement. The construction of HAPI consists of 3D printed polymer structures that enable a sufficiently low size and weight that it may be flown on a commercial-grade UAV. Examples from field trials of HAPI show images of freshly emitted tree pollen and mineral dust.
Persistent fire foci in all biomes undermine the Paris Agreement in Brazil
Authors: da Silva Junior Carlos Antonio , Teodoro Paulo Eduardo , Delgado Rafael Coll , Teodoro Larissa Pereira Ribeiro , Lima Mendelson , de Andréa Pantaleão Ariane , Baio Fabio Henrique Rojo , de Azevedo Gileno Brito , de Oliveira Sousa Azevedo Glauce Taís , Capristo-Silva Guilherme Fernando , Arvor Damien , Facco Cassiele Uliana 
Published: October 2020

AbstractBrazil is one of the world’s biggest emitters of greenhouse gases (GHGs). Fire foci across the country contributes to these emissions and compromises emission reduction targets pledged by Brazil under the Paris Agreement. In this paper, we quantify fire foci, burned areas, and carbon emissions in all Brazilian biomes (i.e., Amazon, Cerrado, Caatinga, Atlantic Forest, Pantanal and Pampa). We analyzed these variables using cluster analysis and non-parametric statistics to predict carbon and CO2 emissions for the next decade. Our results showed no increase in the number of fire foci and carbon emissions for the evaluated time series, whereby the highest emissions occur and will persist in the Amazon and Cerrado biomes. The Atlantic Forest, Pantanal, Caatinga and Pampa biomes had low emissions compared to the Amazon and Cerrado. Based on 2030 projections, the sum of emissions from fire foci in the six Brazilian biomes will exceed 5.7 Gt CO2, compromising the national GHG reduction targets. To reduce GHG emissions, Brazil will need to control deforestation induced by the expansion of the agricultural frontier in the Amazon and Cerrado biomes. This can only be achieved through significant political effort involving the government, entrepreneurs and society as a collective.
Biological sex does not predict glymphatic influx in healthy young, middle aged or old mice
Authors: Giannetto Michael , Xia Maosheng , Stæger Frederik Filip , Metcalfe Tanner , Vinitsky Hanna S. , Dang Juliana A. M. L. , Xavier Anna L. R. , Kress Benjamin T. , Nedergaard Maiken , Hablitz Lauren M. 
Published: September 2020

AbstractSexual dimorphism is evident in brain structure, size, and function throughout multiple species. Here, we tested whether cerebrospinal fluid entry into the glymphatic system, a network of perivascular fluid transport that clears metabolic waste from the brain, was altered between male and female mice. We analyze glymphatic influx in 244 young reproductive age (2–4 months) C57BL/6 mice. We found no male/female differences in total influx under anesthesia, or across the anterior/posterior axis of the brain. Circadian-dependent changes in glymphatic influx under ketamine/xylazine anesthesia were not altered by sex. This was not true for diurnal rhythms under pentobarbital and avertin, but both still showed daily oscillations independent of biological sex. Finally, although glymphatic influx decreases with age there was no sex difference in total influx or subregion-dependent tracer distribution in 17 middle aged (9–10 months) and 36 old (22–24 months) mice. Overall, in healthy adult C57BL/6 mice we could not detect male/female differences in glymphatic influx. This finding contrasts the gender differences in common neurodegenerative diseases. We propose that additional sex-dependent co-morbidities, such as chronic stress, protein misfolding, traumatic brain injury or other pathological mechanisms may explain the increased risk for developing proteinopathies rather than pre-existing suppression of glymphatic influx.
The impact of musical pleasure and musical hedonia on verbal episodic memory
Authors: Cardona Gemma , Rodriguez-Fornells Antoni , Nye Harry , Rifà-Ros Xavier , Ferreri Laura 
Published: September 2020

AbstractMusic listening is one of the most pleasurable activities in our life. As a rewarding stimulus, pleasant music could induce long-term memory improvements for the items encoded in close temporal proximity. In the present study, we behaviourally investigated (1) whether musical pleasure and musical hedonia enhance verbal episodic memory, and (2) whether such enhancement takes place even when the pleasant stimulus is not present during the encoding. Participants (N = 100) were asked to encode words presented in different auditory contexts (highly and lowly pleasant classical music, and control white noise), played before and during (N = 49), or only before (N = 51) the encoding. The Barcelona Music Reward Questionnaire was used to measure participants’ sensitivity to musical reward. 24 h later, participants’ verbal episodic memory was tested (old/new recognition and remember/know paradigm). Results revealed that participants with a high musical reward sensitivity present an increased recollection performance, especially for words encoded in a highly pleasant musical context. Furthermore, this effect persists even when the auditory stimulus is not concurrently present during the encoding of target items. Taken together, these findings suggest that musical pleasure might constitute a helpful encoding context able to drive memory improvements via reward mechanisms.