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Wang, Cong

Publications and source records attributed to Wang, Cong.

At least 55 records · Page 3

Crystal structure of a far-red–sensing cyanobacteriochrome reveals an atypical bilin conformation and spectral tuning mechanism

Significance Phytochromes are well-known far-red-light sensors found in plants that trigger adaptive responses to facilitate competition for light capture with neighboring plants. Red- and far-red sensing are also critical for cyanobacteria living in the far-red–enriched shade of plants. This work reports the crystal structure of a far-red–sensing cyanobacteriochrome, a distant cyanobacterial relative of phytochrome. These studies shed insights into the molecular basis of far-red-sensing by phycobilin-based photoreceptors. Owing to the deep tissue penetration of far-red light, far-red–sensing cyanobacteriochromes are promising protein scaffolds for developing genetically encoded photoswitches, optoacoustic contrast agents, and fluorescent probes for in situ imaging and optogenetic applications.

59 BASIC BIOLOGICAL SCIENCES↗

Exosomes secreted from mesenchymal stem cells mediate the regeneration of endothelial cells treated with rapamycin by delivering pro-angiogenic microRNAs

Highlights: • MSC-derived exosomes play an important role in promoting endothelial regeneration treated with rapamycin in vitro. • A distinct class of exosomal miRNAs is identified to be tightly related to endothelial regeneration. • The therapeutic effects of MSC-exosomes may be ascribed to the delivery of pro-angiogenic miRNAs to endothelial cells. • MSC-exosomes may serve as a cell-free therapy for clinical treatment of delayed endothelial healing after DES implantation. Delayed endothelial healing after drug eluting stent (DES) implantation is a critical clinical problem in treatment of coronary artery diseases. Exosomes exhibit proangiogenic potential in a variety of ischemic diseases. However, the association of exosomes with endothelial regeneration after DES implantation has been rarely reported. In this study, we aimed to investigate the therapeutic effects of mesenchymal stem cell (MSC)-derived exosomes on endothelial cells treated with rapamycin and explore the potential mechanisms of MSC-derived exosomes in promoting endothelial regeneration. Exosomes were isolated from MSCs by ultracentrifugation and identified by transmission electron microscopy, nanoparticle tracking analysis, and Western blot assay. The in vitro effects of MSC-derived exosomes on the proliferation and migration of endothelial cells treated with rapamycin were evaluated by integrated experiment, cell counting kit-8, scratch, tube formation, and transwell assays. And the apoptosis of rapamycin-induced endothelial cells loaded with MSC-derived exosomes was detected using TUNEL and Annexin-V FITC and PI double-staining assays. The microRNA (miRNA) cargo of MSC-derived exosomes was identified by high-throughput RNA sequencing. Pro-angiogenic miRNAs and key pathways were further characterized. Our results indicated that MSC-derived exosomes could be ingested into umbilical vein endothelial cells (HUVECs) and significantly enhanced cell proliferation rate, migratory and tube-forming capabilities in vitro. MSC-derived exosomes also inhibited the apoptosis of HUVECs induced by rapamycin. A distinct class of exosomal miRNAs was further identified, including six miRNAs tightly related to neovasculogenesis. Silencing the expression of exosomal miRNA-21–5p and let-7c-5p attenuated the pro-proliferative and pro-migratory capacity of MSC-derived exosomes. Moreover, functional enrichment analysis indicated that metabolic pathways might contribute to reendothelialization. This study highlights a proregenerative effect of MSC-derived exosomes in vitro, which may be partly explained by the delivery of pro-angiogenic miRNAs to endothelial cells.

60 APPLIED LIFE SCIENCES↗

End-to-end online performance data capture and analysis for scientific workflows

With the increased prevalence of employing workflows for scientific computing and a push towards exascale computing, it has become paramount that we are able to analyze characteristics of scientific applications to better understand their impact on the underlying infrastructure and vice-versa. Such analysis can help drive the design, development, and optimization of these next generation systems and solutions. Here, we present the architecture, integrated with existing well-established and newly developed tools, to collect online performance statistics of workflow executions from various, heterogeneous sources and publish them in a distributed database (Elasticsearch). Using this architecture, we are able to correlate online workflow performance data, with data from the underlying infrastructure, and present them in a useful and intuitive way via an online dashboard. We have validated our approach by executing two classes of real-world workflows, both under normal and anomalous conditions. The first is an I/O-intensive genome analysis workflow; the second, a CPU- and memory-intensive material science workflow. Based on the data collected in Elasticsearch, we are able to demonstrate that we can correctly identify anomalies that we injected. The resulting end-to-end data collection of workflow performance data is an important resource of training data for automated machine learning analysis.

97 MATHEMATICS AND COMPUTING↗

Soot formation and growth with palladium acetylacetonate-toluene injection in ethylene base flames investigated by in situ synchrotron small-angle X-ray scattering

Organo-Pd compounds as fuel additives are proven to have distinct catalytic effects on enhancing ignition and combustion performance. However, their effects on soot emission and the mechanism are not well-established. In this study, the effect of palladium acetylacetonate (Pd(C 5 H 7 O 2 ) 2 , Pd(acac) 2 ) on soot formation and growth was investigated experimentally. Different concentrations of Pd(acac)2 were added in the ethylene flames. Synchrotron small-angle X-ray scattering (SAXS) and transmission electron microscopy (TEM) were used to detect the soot particles to obtain the size, shape and morphology information. The results show that the Pd(acac) 2 addition with low concentration (100 ppm) suppresses the formation and growth of the primary soot particles at each height above the burner. As the addition concentration increases to 200 and 300 ppm, the size and volume fraction of the soot particles are decreased at the low flame region, and increased at the high flame region. Furthermore, detailed size distribution, morphology and nanostructure information of the soot particles at different flame heights are discussed.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

The Potential of Low Molecular Weight Heparin to Mitigate Cytokine Storm in Severe COVID‐19 Patients: A Retrospective Cohort Study

On March 11, 2020, the World Health Organization declared its assessment of coronavirus disease 2019 (COVID‐19) as a global pandemic. However, specific anti‐severe acute respiratory syndrome‐coronavirus 2 (SARS‐CoV‐2) drugs are still under development, and patients are managed by multiple complementary treatments. We performed a retrospective analysis to compare and evaluate the effect of low molecular weight heparin (LMWH) treatment on disease progression. For this purpose, the clinical records and laboratory indicators were extracted from electronic medical records of 42 patients with COVID‐19 (21 of whom were treated with LMWH, and 21 without LMWH) hospitalized (Union Hospital of Huazhong University of Science and Technology) from February 1 to March 15, 2020. Changes in the percentage of lymphocytes before and after LMWH treatment were significantly different from those in the control group ( P = 0.011). Likewise, changes in the levels of D‐dimer and fibrinogen degradation products in the LMWH group before and after treatment were significantly different from those in the control group ( P = 0.035). Remarkably, IL‐6 levels were significantly reduced after LMWH treatment ( P = 0.006), indicating that, besides other beneficial properties, LMWH may exert an anti‐inflammatory effect and attenuate in part the “cytokine storm” induced by the virus. Our results support the use of LMWH as a potential therapeutic drug for the treatment of COVID‐19, paving the way for a subsequent well‐controlled clinical study.

Shi, Chen↗

An automated platform for in situ serial crystallography at room temperature

Direct observation of functional motions in protein structures is highly desirable for understanding how these nanomachineries of life operate at the molecular level. Because cryogenic temperatures are non-physiological and may prohibit or even alter protein structural dynamics, it is necessary to develop robust X-ray diffraction methods that enable routine data collection at room temperature. We recently reported a crystal-on-crystal device to facilitate in situ diffraction of protein crystals at room temperature devoid of any sample manipulation. Here an automated serial crystallography platform based on this crystal-on-crystal technology is presented. A hardware and software prototype has been implemented, and protocols have been established that allow users to image, recognize and rank hundreds to thousands of protein crystals grown on a chip in optical scanning mode prior to serial introduction of these crystals to an X-ray beam in a programmable and high-throughput manner. This platform has been tested extensively using fragile protein crystals. We demonstrate that with affordable sample consumption, this in situ serial crystallography technology could give rise to room-temperature protein structures of higher resolution and superior map quality for those protein crystals that encounter difficulties during freezing. This serial data collection platform is compatible with both monochromatic oscillation and Laue methods for X-ray diffraction and presents a widely applicable approach for static and dynamic crystallographic studies at room temperature.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Engineering the Composition of Bimetallic Nanocrystals to Improve Hydrodeoxygenation Selectivity for 2-Acetylfuran

Hydrodeoxygenation (HDO) of 2-acetylfuran (2-AF) was examined at 473 K and 33 bar over carbon-supported, bimetallic catalysts. Monodispersed, Pt-based (PtNi, PtCo, and PtCu) and Ni-based (NiCu) nanocrystals (NCs) with well-defined sizes and compositions were prepared via colloidal synthesis. Steady-state, flow-reactor measurements demonstrate that selectivities for the HDO reaction to 2-ethylfuran (2-EF) are strongly dependent on the alloy compositions. The HDO of 2-AF is shown to be sequential, where 2-EF can react further to form over-hydrogenated products. The NiCu 3 /C nanocatalyst was superior to the other bimetallics; with the optimal residence time, it was possible to achieve a selectivity of 75% 2-EF with 80% conversion of 2-AF, with good stability for up to at least 5 hours time-on-stream. Deactivation due to coking became an issue when the NCs were deposited on oxide supports with weak acidity (SiO 2 and γ-Al 2 O 3 ). Furthermore, this work provides insights into which bimetallic catalytic systems might be useful for HDO of 2-AF reaction.

2-acetylfuran↗

Detecting anomalous packets in network transfers: investigations using PCA, autoencoder and isolation forest in TCP

Large-scale scientific workflows rely heavily on high-performance file transfers. These transfers require strict quality parameters such as guaranteed bandwidth, no packet loss or data duplication. To have successful file transfers, methods such as predetermined thresholds and statistical analysis need to be done to determine abnormal patterns. Network administrators routinely monitor and analyze network data for diagnosing and alleviating these, making decisions based on their experience. However, as networks grow and become complex, monitoring large data files and quickly processing them, makes it improbable to identify errors and rectify these. Abnormal file transfers have been classified by simply setting alert thresholds, via tools such as PerfSonar and TCP statistics (Tstat). This paper investigates the feasibility of unsupervised feature extraction methods for identifying network anomaly patterns with three unsupervised classification methods—principal component analysis, autoencoder and isolation forest. Here, we collect file transfer statistics from two experiment sets—synthetic iPerf generated traffic and 1000 Genome workflow runs, with synthetically introduced anomalies. Our results show that while PCA and a simple autoencoder finds it difficult to detect clusters, the tree-variant isolation forest is able to identify anomalous packets by breaking down TCP traces into tree classes early.

97 MATHEMATICS AND COMPUTING↗

An embedded 3D fracture modeling approach for simulating fracture-dominated fluid flow and heat transfer in geothermal reservoirs

In this paper, we describe an efficient modeling approach, named embedded discrete fracture method (EDFM), for incorporating arbitrary 3D, discrete fractures, such as hydraulic fractures or faults, into modeling fracture-dominated fluid flow and heat transfer in fractured geothermal reservoirs. This technique allows 3D discrete fractures to be discretized independently from surrounding rock volume and inserted explicitly into a primary fracture/matrix grid, generated without including 3D discrete fractures in prior. An effective computational algorithm is developed to discretize these 3D discrete fractures and construct local connections between 3D fractures and fracture/matrix grid blocks representing the surrounding rock volume. The constructed gridding information on 3D fractures is then added to the primary grid. This embedded fracture modeling approach can be directly implemented into a developed geothermal reservoir simulator via the integral finite difference (IFD) method or with TOUGH2 technology. This embedded fracture modeling approach is very promising and computationally efficient to handle realistic 3D discrete fractures with complicated geometries, connections, and spatial distributions. Compared with other fracture modeling approaches, it avoids cumbersome 3D unstructured, local refining procedures, and increases computational efficiency by simplifying Jacobian matrix size and sparsity, while maintaining enough accuracy. Several numeral simulations are presented to demonstrate the utility and robustness of the proposed technique. Our numerical experiments show that this approach captures all the key patterns about fluid flow and heat transfer dominated by fractures in these cases. Thus, this approach is readily available to the simulation of fractured geothermal reservoirs with both artificial and natural fractures.

15 GEOTHERMAL ENERGY↗

Warming-induced permafrost thaw exacerbates tundra soil carbon decomposition mediated by microbial community

BACKGROUND:It is well-known that global warming has effects on high-latitude tundra underlain with permafrost. This leads to a severe concern that decomposition of soil organic carbon (SOC) previously stored in this region, which accounts for about 50% of the world's SOC storage, will cause positive feedback that accelerates climate warming. We have previously shown that short-term warming (1.5 years) stimulates rapid, microbe-mediated decomposition of tundra soil carbon without affecting the composition of the soil microbial community (based on the depth of 42684 sequence reads of 16S rRNA gene amplicons per 3 g of soil sample). RESULTS:We show that longer-term (5 years) experimental winter warming at the same site altered microbial communities (p < 0.040). Thaw depth correlated the strongest with community assembly and interaction networks, implying that warming-accelerated tundra thaw fundamentally restructured the microbial communities. Both carbon decomposition and methanogenesis genes increased in relative abundance under warming, and their functional structures strongly correlated (R 2 > 0.725, p < 0.001) with ecosystem respiration or CH4 flux. CONCLUSIONS:Our results demonstrate that microbial responses associated with carbon cycling could lead to positive feedbacks that accelerate SOC decomposition in tundra regions, which is alarming because SOC loss is unlikely to subside owing to changes in microbial community composition. Video Abstract.

59 BASIC BIOLOGICAL SCIENCES↗

Optimizing Wear Resistance via Brazing Temperature Adaption: Application into CBN/Cu-Sn-Ti Composites

Cubic boron nitride (CBN)/Cu-Sn-Ti composites as potential superabrasive products are prepared. It is found that as the temperature increases, porosity keeps decreasing from 1123 K to 1223 K but becomes virtually constant afterward, which is inversely coupled to the reaction layer thickness variation. Weight loss arrives at the minimum value at 1223 K. Deep etching over the interfacial region reveals that TiN and TiB{sub 2} compounds have been generated, and their roles in determining wear properties are postulated.

36 MATERIALS SCIENCE↗

Tuning Weld Metal Mechanical Responses via Welding Flux Optimization of TiO{sub 2} Content: Application into EH36 Shipbuilding Steel

A series of TiO{sub 2}-containing basic-fluoride-type agglomerated fluxes was applied to join EH36 shipbuilding steel under high heat input SAW. The effects of TiO{sub 2} content on composition, microstructure features, inclusions characteristics, and mechanical properties of ensuing weld metals (WMs) were systematically investigated. 6 wt pct TiO{sub 2} leads to the most optimal mechanical properties. Such behaviors were elucidated via transfer of alloying elements, which enables a good combination of acicular ferrites (AFs) and accompanying microstructures.

36 MATERIALS SCIENCE↗

Quantifying MnS Inclusion Evolution Behaviors During 1473 K Heating in EH36 Shipbuilding Steel with Zr Addition

The evolution behaviors of MnS inclusions during 1473 K heating have been systematically investigated for EH36 shipbuilding steel with Zr addition. It is revealed that heating promotes MnS precipitation on the surfaces of ZrO{sub 2} inclusions. Further, quantified results by confocal scanning laser microscopy indicate that the area fraction of MnS first increases, reaches a maximum value, and undergoes a sharp decrease, which corresponds to the three unambiguously defined stages, namely, coarsening, Ostwald ripening, and crushing.

36 MATERIALS SCIENCE↗

Ionic-Liquid-Gating Induced Protonation and Superconductivity in FeSe, FeSe 0.93 S 0.07 , ZrNCl, 1 T -TaS 2 and Bi 2 Se 3 *

We report protonation in several compounds by an ionic-liquid-gating method, under optimized gating conditions. This leads to single superconducting phases for several compounds. Non-volatility of protons allows post-gating magnetization and transport measurements. The superconducting transition temperature T c is enhanced to 43.5 K for FeSe 0.93 S 0.07 , and 41 K for FeSe after protonation. Superconducting transitions with T c ~ 15 K for ZrNCl, ~7.2 K for 1T-TaS 2 , and ~3.8 K for Bi 2 Se 3 are induced after protonation. Electric transport in protonated FeSe 0.93 S 0.07 confirms high-temperature superconductivity. Our 1 H nuclear magnetic resonance (NMR) measurements on protonated FeSe 1- x S x reveal enhanced spin-lattice relaxation rate 1/ 1 T 1 with increasing x , which is consistent with the LDA calculations that H + is located in the interstitial sites close to the anions.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Effect of nickel acetylacetonate addition on soot inception and growth in an ethylene flame studied by using in situ small-angle X-ray scattering

Small-angle X-ray scattering (SAXS) technique has been utilized to study soot formation and growth in an ethylene flame doped with Ni(acac) 2 (nickel acetylacetonate) at atmospheric pressure. An undoped flame under the same conditions was also studied to compare with the doped flame. The conclusions show that the Ni(acac) 2 addition affects particle size, shape and morphology significantly at certain flame heights. It has reducing effect on the primary soot particle size at the flame heights between 17 and 34 mm. It delays the growth of primary soot particles at soot growth region. The soot volume fraction in the doped flame is smaller than that in the undoped flame by factors of 1.5 ~ 4 at different heights above the burner. In the most heights of the soot surface growth region (HAB = 13 ~ 30 mm), the Porod exponents for the doped flame are smaller than those in the undoped flame, suggesting that the addition of Ni(acac) 2 in the ethylene flame induces a rougher surface and more irregular shape of the soot primary particles.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗