bluuebunny/crossref_metadata_2025_split huggingface dataset:
Associations Between Wildfire‐Related PM2.5 and Intensive Care Unit Admissions in the United States, 2006–2015
Authors: Sorensen Cecilia , House John A. , O'Dell Katelyn , Brey Steven J. , Ford Bonne , Pierce Jeffrey R. , Fischer Emily V. , Lemery Jay , Crooks James L. 
Published: March 2021

AbstractWildfire smoke is a growing public health concern in the United States. Numerous studies have documented associations between ambient smoke exposure and severe patient outcomes for single‐fire seasons or limited geographic regions. However, there are few national‐scale health studies of wildfire smoke in the United States, few studies investigating Intensive Care Unit (ICU) admissions as an outcome, and few specifically framed around hospital operations. This study retrospectively examined the associations between ambient wildfire‐related PM2.5 at a hospital ZIP code with total hospital ICU admissions using a national‐scale hospitalization data set. Wildfire smoke was characterized using a combination of kriged PM2.5 monitor observations and satellite‐derived plume polygons from National Oceanic and Atmospheric Administration's Hazard Mapping System. ICU admissions data were acquired from Premier, Inc. and encompass 15%–20% of all U.S. ICU admissions during the study period. Associations were estimated using a distributed‐lag conditional Poisson model under a time‐stratified case‐crossover design. We found that a 10 μg/m3 increase in daily wildfire PM2.5 was associated with a 2.7% (95% CI: 1.3, 4.1; p = 0.00018) increase in ICU admissions 5 days later. Under stratification, positive associations were found among patients aged 0–20 and 60+, patients living in the Midwest Census Region, patients admitted in the years 2013–2015, and non‐Black patients, though other results were mixed. Following a simulated severe 7‐day 120 μg/m3 smoke event, our results predict ICU bed utilization peaking at 131% (95% CI: 43, 239; p < 10−5) over baseline. Our work suggests that hospitals may need to preposition vital critical care resources when severe smoke events are forecast.
Mapping specificity, cleavage entropy, allosteric changes and substrates of blood proteases in a high-throughput screen
Authors: Uliana Federico , Vizovišek Matej , Acquasaliente Laura , Ciuffa Rodolfo , Fossati Andrea , Frommelt Fabian , Goetze Sandra , Wollscheid Bernd , Gstaiger Matthias , De Filippis Vincenzo , auf dem Keller Ulrich , Aebersold Ruedi 
Published: March 2021

AbstractProteases are among the largest protein families and critical regulators of biochemical processes like apoptosis and blood coagulation. Knowledge of proteases has been expanded by the development of proteomic approaches, however, technology for multiplexed screening of proteases within native environments is currently lacking behind. Here we introduce a simple method to profile protease activity based on isolation of protease products from native lysates using a 96FASP filter, their analysis in a mass spectrometer and a custom data analysis pipeline. The method is significantly faster, cheaper, technically less demanding, easy to multiplex and produces accurate protease fingerprints. Using the blood cascade proteases as a case study, we obtain protease substrate profiles that can be used to map specificity, cleavage entropy and allosteric effects and to design protease probes. The data further show that protease substrate predictions enable the selection of potential physiological substrates for targeted validation in biochemical assays.
Angular dependence of the Wigner time delay upon tunnel ionization of H2
Authors: Trabert D. , Brennecke S. , Fehre K. , Anders N. , Geyer A. , Grundmann S. , Schöffler M. S. , Schmidt L. Ph. H. , Jahnke T. , Dörner R. , Kunitski M. , Eckart S. 
Published: March 2021

AbstractWhen a very strong light field is applied to a molecule an electron can be ejected by tunneling. In order to quantify the time-resolved dynamics of this ionization process, the concept of the Wigner time delay can be used. The properties of this process can depend on the tunneling direction relative to the molecular axis. Here, we show experimental and theoretical data on the Wigner time delay for tunnel ionization of H2 molecules and demonstrate its dependence on the emission direction of the electron with respect to the molecular axis. We find, that the observed changes in the Wigner time delay can be quantitatively explained by elongated/shortened travel paths of the emitted electrons, which occur due to spatial shifts of the electrons’ birth positions after tunneling. Our work provides therefore an intuitive perspective towards the Wigner time delay in strong-field ionization.
In vivo and in vitro reconstitution of unique key steps in cystobactamid antibiotic biosynthesis
Authors: Groß Sebastian , Schnell Bastien , Haack Patrick A. , Auerbach David , Müller Rolf 
Published: March 2021

AbstractCystobactamids are myxobacteria-derived topoisomerase inhibitors with potent anti-Gram-negative activity. They are formed by a non-ribosomal peptide synthetase (NRPS) and consist of tailored para-aminobenzoic acids, connected by a unique α-methoxy-l-isoasparagine or a β-methoxy-l-asparagine linker moiety. We describe the heterologous expression of the cystobactamid biosynthetic gene cluster (BGC) in Myxococcus xanthus. Targeted gene deletions produce several unnatural cystobactamids. Using in vitro experiments, we reconstitute the key biosynthetic steps of linker formation and shuttling via CysB to the NRPS. The biosynthetic logic involves a previously uncharacterized bifunctional domain found in the stand-alone NRPS module CysH, albicidin biosynthesis and numerous BGCs of unknown natural products. This domain performs either an aminomutase (AM) or an amide dehydratase (DH) type of reaction, depending on the activity of CysJ which hydroxylates CysH-bound l-asparagine. Furthermore, CysQ O-methylates hydroxyl-l-(iso)asparagine only in the presence of the AMDH domain. Taken together, these findings provide direct evidence for unique steps in cystobactamid biosynthesis.
Lightning strikes as a major facilitator of prebiotic phosphorus reduction on early Earth
Authors: Hess Benjamin L. , Piazolo Sandra , Harvey Jason 
Published: March 2021

AbstractWhen hydrated, phosphides such as the mineral schreibersite, (Fe,Ni)3P, allow for the synthesis of important phosphorus-bearing organic compounds. Such phosphides are common accessory minerals in meteorites; consequently, meteorites are proposed to be a main source of prebiotic reactive phosphorus on early Earth. Here, we propose an alternative source for widespread phosphorus reduction, arguing that lightning strikes on early Earth potentially formed 10–1000 kg of phosphide and 100–10,000 kg of phosphite and hypophosphite annually. Therefore, lightning could have been a significant source of prebiotic, reactive phosphorus which would have been concentrated on landmasses in tropical regions. Lightning strikes could likewise provide a continual source of prebiotic reactive phosphorus independent of meteorite flux on other Earth-like planets, potentially facilitating the emergence of terrestrial life indefinitely.
Ultrafast melting and recovery of collective order in the excitonic insulator Ta2NiSe5
Authors: Bretscher Hope M. , Andrich Paolo , Telang Prachi , Singh Anupam , Harnagea Luminita , Sood A. K. , Rao Akshay 
Published: March 2021

AbstractThe layered chalcogenide Ta2NiSe5 has been proposed to host an excitonic condensate in its ground state, a phase that could offer a unique platform to study and manipulate many-body states at room temperature. However, identifying the dominant microscopic contribution to the observed spontaneous symmetry breaking remains challenging, perpetuating the debate over the ground state properties. Here, using broadband ultrafast spectroscopy we investigate the out-of-equilibrium dynamics of Ta2NiSe5 and demonstrate that the transient reflectivity in the near-infrared range is connected to the system’s low-energy physics. We track the status of the ordered phase using this optical signature, establishing that high-fluence photoexcitations can suppress this order. From the sub-50 fs quenching timescale and the behaviour of the photoinduced coherent phonon modes, we conclude that electronic correlations provide a decisive contribution to the excitonic order formation. Our results pave the way towards the ultrafast control of an exciton condensate at room temperature.
Trans-illumination intestine projection imaging of intestinal motility in mice
Authors: Wang Depeng , Zhang Huijuan , Vu Tri , Zhan Ye , Malhotra Akash , Wang Pei , Chitgupi Upendra , Rai Aliza , Zhang Sizhe , Wang Lidai , Huizinga Jan D. , Lovell Jonathan F. , Xia Jun 
Published: March 2021

AbstractFunctional intestinal imaging holds importance for the diagnosis and evaluation of treatment of gastrointestinal diseases. Currently, preclinical imaging of intestinal motility in animal models is performed either invasively with excised intestines or noninvasively under anesthesia, and cannot reveal intestinal dynamics in the awake condition. Capitalizing on near-infrared optics and a high-absorbing contrast agent, we report the Trans-illumination Intestine Projection (TIP) imaging system for free-moving mice. After a complete system evaluation, we performed in vivo studies, and obtained peristalsis and segmentation motor patterns of free-moving mice. We show the in vivo typical segmentation motor pattern, that was previously shown in ex vivo studies to be controlled by intestinal pacemaker cells. We also show the effects of anesthesia on motor patterns, highlighting the possibility to study the role of the extrinsic nervous system in controlling motor patterns, which requires unanesthetized live animals. Combining with light-field technologies, we further demonstrated 3D imaging of intestine in vivo (3D-TIP). Importantly, the added depth information allows us to extract intestines located away from the abdominal wall, and to quantify intestinal motor patterns along different directions. The TIP system should open up avenues for functional imaging of the GI tract in conscious animals in natural physiological states.
A mussel-inspired film for adhesion to wet buccal tissue and efficient buccal drug delivery
Authors: Hu Shanshan , Pei Xibo , Duan Lunliang , Zhu Zhou , Liu Yanhua , Chen Junyu , Chen Tao , Ji Ping , Wan Qianbing , Wang Jian 
Published: March 2021

AbstractAdministration of drugs via the buccal route has attracted much attention in recent years. However, developing systems with satisfactory adhesion under wet conditions and adequate drug bioavailability still remains a challenge. Here, we propose a mussel-inspired mucoadhesive film. Ex vivo models show that this film can achieve strong adhesion to wet buccal tissues (up to 38.72 ± 10.94 kPa). We also demonstrate that the adhesion mechanism of this film relies on both physical association and covalent bonding between the film and mucus. Additionally, the film with incorporated polydopamine nanoparticles shows superior advantages for transport across the mucosal barrier, with improved drug bioavailability (~3.5-fold greater than observed with oral delivery) and therapeutic efficacy in oral mucositis models (~6.0-fold improvement in wound closure at day 5 compared with that observed with no treatment). We anticipate that this platform might aid the development of tissue adhesives and inspire the design of nanoparticle-based buccal delivery systems.
Impact of artificial light at night on diurnal plant-pollinator interactions
Authors: Giavi Simone , Fontaine Colin , Knop Eva 
Published: March 2021

AbstractArtificial light at night has rapidly spread around the globe over the last decades. Evidence is increasing that it has adverse effects on the behavior, physiology, and survival of animals and plants with consequences for species interactions and ecosystem functioning. For example, artificial light at night disrupts plant-pollinator interactions at night and this can have consequences for the plant reproductive output. By experimentally illuminating natural plant-pollinator communities during the night using commercial street-lamps we tested whether light at night can also change interactions of a plant-pollinator community during daytime. Here we show that artificial light at night can alter diurnal plant-pollinator interactions, but the direction of the change depends on the plant species. We conclude that the effect of artificial light at night on plant-pollinator interactions is not limited to the night, but can also propagate to the daytime with so far unknown consequences for the pollinator community and the diurnal pollination function and services they provide.
Recovery of complete genomes and non-chromosomal replicons from activated sludge enrichment microbial communities with long read metagenome sequencing
Authors: Arumugam Krithika , Bessarab Irina , Haryono Mindia A. S. , Liu Xianghui , Zuniga–Montanez Rogelio E. , Roy Samarpita , Qiu Guanglei , Drautz–Moses Daniela I. , Law Ying Yu , Wuertz Stefan , Lauro Federico M. , Huson Daniel H. , Williams Rohan B. H. 
Published: March 2021

AbstractNew long read sequencing technologies offer huge potential for effective recovery of complete, closed genomes from complex microbial communities. Using long read data (ONT MinION) obtained from an ensemble of activated sludge enrichment bioreactors we recover 22 closed or complete genomes of community members, including several species known to play key functional roles in wastewater bioprocesses, specifically microbes known to exhibit the polyphosphate- and glycogen-accumulating organism phenotypes (namelyCandidatusAccumulibacter andDechloromonas, andMicropruina,DefluviicoccusandCandidatusContendobacter, respectively), and filamentous bacteria (Thiothrix) associated with the formation and stability of activated sludge flocs. Additionally we demonstrate the recovery of close to 100 circularised plasmids, phages and small microbial genomes from these microbial communities using long read assembled sequence. We describe methods for validating long read assembled genomes using their counterpart short read metagenome-assembled genomes, and assess the influence of different correction procedures on genome quality and predicted gene quality. Our findings establish the feasibility of performing long read metagenome-assembled genome recovery for both chromosomal and non-chromosomal replicons, and demonstrate the value of parallel sampling of moderately complex enrichment communities to obtaining high quality reference genomes of key functional species relevant for wastewater bioprocesses.
Contaminant organisms recorded on plant product imports to South Africa 1994–2019
Authors: Saccaggi Davina L. , Arendse Melanie , Wilson John R. U. , Terblanche John S. 
Published: March 2021

AbstractBiosecurity interception records are crucial data underlying efforts to predict and manage pest and pathogen introductions. Here we present a dataset containing information on imported plant products inspected by the South African Department of Agriculture’s laboratories between 1994 and 2019 and the contaminant organisms found on them. Samples were received from border inspectors as either propagation material (e.g. plants) or material for immediate use (e.g. fruit). Material for immediate use was further divided into two sample categories, depending on if contaminants were seen/suspected by the border official or not: intervention or audit samples. The final dataset consists of 25,279 records, of which 30% tested positive (i.e. had at least one contaminant) and 13% had multiple contaminants. Of the 13,731 recorded contaminants, fungi (41%), mites (37%) and insects (19%) were most common. This dataset provides insight into the suite of taxa transported along the plant import pathway and provides an important resource for analyses of contaminant organisms in international trade, which can inform strategies for risk assessment, pathway management and biosecurity protocols.
Analysis of the frequency of single nucleotide polymorphisms in cytokine genes in patients with New Onset Diabetes After Transplant
Authors: Jahromi Mohamed , Al-Otaibi Torki , Ashry Gheith Osama , Farouk Othman Nashwa , Mahmoud Tarek , Nair Parasad , A-Halim Medhat , Aggarwal Parul , Messenger Grace , Chu Philip , De Serres Sacha A. , Azzi Jamil R. 
Published: March 2021

AbstractNew Onset Diabetes After Transplantation (NODAT) is a serious metabolic complication. While β-cell dysfunction is considered the main contributing factor in the development of NODAT, the precise pathogenesis is not well understood. Cytokines are thought to be involved in the inflammation of islet β-cells in diabetes; however, few studies have investigated this hypothesis in NODAT. A total of 309 kidney transplant recipients (KTRs) were included in this study. An association between kidney transplants, and the development of diabetes after transplant (NODAT) was investigated. Comparison was made between KTRs who develop diabetes (NODAT cases) or did not develop diabetes (control), using key cytokines, IL-6 G (− 174)C, macrophage mediator; IL-4 C (− 490)T, T helper (Th)-2 cytokine profile initiator; Th-1 cytokine profile initiator interferon-γ T (+ 874) A gene and TGF β1 C (+ 869) T gene polymorphisms were investigated. The genes were amplified using well-established polymerase chain reaction (PCR) techniques in our laboratory. Compared to the AA and AT genotypes of interferon gamma (IFNG), there was a strong association between the TT genotype of IFNG and NODAT kidney transplant recipients (KTRs) versus non-NODAT KTRs (p = 0.005). The AA genotype of IFNG was found to be predominant in the control group (p = 0.004). Also, significant variations of IL6 G (− 174) C, IL-4 C (− 590) T, interferon-γ T (+ 874) A gene and transforming growth factor β1 C (+ 869) T may contribute to NODAT. Our data is consistent with theTh-1/T-reg pathway of immunity. Further larger pan Arab studies are required to confirm our findings.
Altered left atrial 4D flow characteristics in patients with paroxysmal atrial fibrillation in the absence of apparent remodeling
Authors: Demirkiran Ahmet , Amier Raquel P. , Hofman Mark B. M. , van der Geest Rob J. , Robbers Lourens F. H. J. , Hopman Luuk H. G. A. , Mulder Mark J. , van de Ven Peter , Allaart Cornelis P. , van Rossum Albert C. , Götte Marco J. W. , Nijveldt Robin 
Published: March 2021

AbstractThe pathophysiology behind thrombus formation in paroxysmal atrial fibrillation (AF) patients is very complex. This can be due to left atrial (LA) flow changes, remodeling, or both. We investigated differences for cardiovascular magnetic resonance (CMR)-derived LA 4D flow and remodeling characteristics between paroxysmal AF patients and patients without cardiac disease. In this proof-of-concept study, the 4D flow data were acquired in 10 patients with paroxysmal AF (age = 61 ± 8 years) and 5 age/gender matched controls (age = 56 ± 1 years) during sinus rhythm. The following LA and LA appendage flow parameters were obtained: flow velocity (mean, peak), stasis defined as the relative volume with velocities < 10 cm/s, and kinetic energy (KE). Furthermore, LA global strain values were derived from b-SSFP cine images using dedicated CMR feature-tracking software. Even in sinus rhythm, LA mean and peak flow velocities over the entire cardiac cycle were significantly lower in paroxysmal AF patients compared to controls [(13.1 ± 2.4 cm/s vs. 16.7 ± 2.1 cm/s, p = 0.01) and (19.3 ± 4.7 cm/s vs. 26.8 ± 5.5 cm/s, p = 0.02), respectively]. Moreover, paroxysmal AF patients expressed more stasis of blood than controls both in the LA (43.2 ± 10.8% vs. 27.8 ± 7.9%, p = 0.01) and in the LA appendage (73.3 ± 5.7% vs. 52.8 ± 16.2%, p = 0.04). With respect to energetics, paroxysmal AF patients demonstrated lower mean and peak KE values (indexed to maximum LA volume) than controls. No significant differences were observed for LA volume, function, and strain parameters between the groups. Global LA flow dynamics in paroxysmal AF patients appear to be impaired including mean/peak flow velocity, stasis fraction, and KE, partly independent of LA remodeling. This pathophysiological flow pattern may be of clinical value to explain the increased incidence of thromboembolic events in paroxysmal AF patients, in the absence of actual AF or LA remodeling.
Crosses with spelt improve tolerance of South Asian spring wheat to spot blotch, terminal heat stress, and their combination
Authors: Pandey Ajeet Kumar , Mishra Vinod Kumar , Chand Ramesh , Navathe Sudhir , Budhlakoti Neeraj , Srinivasa Jayasudha , Sharma Sandeep , Joshi Arun Kumar 
Published: March 2021

AbstractSpot blotch and terminal heat are two of the most important stresses for wheat in South Asia. A study was initiated to explore the use of spelt (Triticum spelta) to improve tolerance to these stresses in spring wheat (T. aestivum). We assessed 185 recombinant inbred lines (RILs) from the cross T. spelta (H + 26) × T. aestivum (cv. HUW234), under the individual stresses and their combination. H + 26 showed better tolerance to the single stresses and also their combination; grain yield in RILs was reduced by 21.9%, 27.7% and 39.0% under spot blotch, terminal heat and their combined effect, respectively. However, phenological and plant architectural traits were not affected by spot blotch itself. Multivariate analysis demonstrated a strong negative correlation between spikelet sterility and grain yield under spot blotch, terminal heat and their combination. However, four recombinant lines demonstrated high performance under both stresses and also under their combined stress. The four lines were significantly superior in grain yield and showed significantly lower AUDPC than the better parent. This study demonstrates the potential of spelt wheat in enhancing tolerance to spot blotch and terminal heat stresses. It also provides comprehensive evidence about the expression of yield and phenological traits under these stresses.
Laguerre-Gaussian modes generated vector beam via nonlinear magneto-optical rotation
Authors: Ghaderi Goran Abad Mohsen , Mahmoudi Mohammad 
Published: March 2021

AbstractLaguerre-Gaussian (LG) beams contain a helical phase front with a doughnut-like intensity profile. We use the LG beam to introduce a rather simple method for generation of a vector beam (VB), a beam with spatially-dependent polarization in the beam cross section, via the nonlinear magneto-optical rotation (NMOR). We consider the NMOR of the polarization of a linearly polarized probe field passing through an inverted Y-type four-level quantum system interacting with a LG control field and a static magnetic field. It is shown that the polarization of the transmitted field is spatially distributed by the orbital angular momentum (OAM) of the LG control field, leading to generation of the VB with azimuthally symmetric polarization distribution. We show that the polarization and intensity distributions of the VB spatially vary by changing the OAMs of the LG control field. Moreover, the radial index of the LG control field has a major role in more spatially polarization distributing of the VB. It is shown that the intensity of the generated VBs in different points of the beam cross section can be controlled by the OAM as well as the radial index of the LG control field. However, the VB with highly spatially distributed can be generated for higher values of the radial index of LG control field. The analytical calculations determine the contribution of the different nonlinear (cross-Kerr effect) phenomena on the generation of the VB. We show that the VB is mainly generated via birefringence induced by the applied fields. Finally, we use asymmetric LG (aLG) beams for making the VBs with asymmetric polarization distribution. It is shown that by applying aLG beams, the azimuthal symmetry of the polarization distribution breaks and the asymmetric polarization distribution can be controlled by OAM and radial index of the aLG control field. The obtained results may find more interesting applications in fiber/free space optical communication to enhance the capacity of the information transmission.