bluuebunny/crossref_metadata_2025 huggingface dataset:
Hypoxia signaling in human health and diseases: implications and prospects for therapeutics
Authors: Luo Zhen , Tian Mingfu , Yang Ge , Tan Qiaoru , Chen Yubing , Li Geng , Zhang Qiwei , Li Yongkui , Wan Pin , Wu Jianguo
Published: July 2022

Molecular oxygen (O2) is essential for most biological reactions in mammalian cells. When the intracellular oxygen content decreases, it is called hypoxia. The process of hypoxia is linked to several biological processes, including pathogenic microbe infection, metabolic adaptation, cancer, acute and chronic diseases, and other stress responses. The mechanism underlying cells respond to oxygen changes to mediate subsequent signal response is the central question during hypoxia. Hypoxia-inducible factors (HIFs) sense hypoxia to regulate the expressions of a series of downstream genes expression, which participate in multiple processes including cell metabolism, cell growth/death, cell proliferation, glycolysis, immune response, microbe infection, tumorigenesis, and metastasis. Importantly, hypoxia signaling also interacts with other cellular pathways, such as phosphoinositide 3-kinase (PI3K)-mammalian target of rapamycin (mTOR) signaling, nuclear factor kappa-B (NF-κB) pathway, extracellular signal-regulated kinases (ERK) signaling, and endoplasmic reticulum (ER) stress. This paper systematically reviews the mechanisms of hypoxia signaling activation, the control of HIF signaling, and the function of HIF signaling in human health and diseases. In addition, the therapeutic targets involved in HIF signaling to balance health and diseases are summarized and highlighted, which would provide novel strategies for the design and development of therapeutic drugs.
Animal models for COVID-19: advances, gaps and perspectives
Authors: Fan Changfa , Wu Yong , Rui Xiong , Yang Yuansong , Ling Chen , Liu Susu , Liu Shunan , Wang Youchun
Published: July 2022

COVID-19, caused by SARS-CoV-2, is the most consequential pandemic of this century. Since the outbreak in late 2019, animal models have been playing crucial roles in aiding the rapid development of vaccines/drugs for prevention and therapy, as well as understanding the pathogenesis of SARS-CoV-2 infection and immune responses of hosts. However, the current animal models have some deficits and there is an urgent need for novel models to evaluate the virulence of variants of concerns (VOC), antibody-dependent enhancement (ADE), and various comorbidities of COVID-19. This review summarizes the clinical features of COVID-19 in different populations, and the characteristics of the major animal models of SARS-CoV-2, including those naturally susceptible animals, such as non-human primates, Syrian hamster, ferret, minks, poultry, livestock, and mouse models sensitized by genetically modified, AAV/adenoviral transduced, mouse-adapted strain of SARS-CoV-2, and by engraftment of human tissues or cells. Since understanding the host receptors and proteases is essential for designing advanced genetically modified animal models, successful studies on receptors and proteases are also reviewed. Several improved alternatives for future mouse models are proposed, including the reselection of alternative receptor genes or multiple gene combinations, the use of transgenic or knock-in method, and different strains for establishing the next generation of genetically modified mice.
Cannabinoid CB1 receptor gene inactivation in oligodendrocyte precursors disrupts oligodendrogenesis and myelination in mice
Authors: Sánchez-de la Torre Aníbal , Aguado Tania , Huerga-Gómez Alba , Santamaría Silvia , Gentile Antonietta , Chara Juan Carlos , Matute Carlos , Monory Krisztina , Mato Susana , Guzmán Manuel , Lutz Beat , Galve-Roperh Ismael , Palazuelos Javier
Published: July 2022

Cannabinoids are known to modulate oligodendrogenesis and developmental CNS myelination. However, the cell-autonomous action of these compounds on oligodendroglial cells in vivo, and the molecular mechanisms underlying these effects have not yet been studied. Here, by using oligodendroglial precursor cell (OPC)-targeted genetic mouse models, we show that cannabinoid CB1 receptors exert an essential role in modulating OPC differentiation at the critical periods of postnatal myelination. We found that selective genetic inactivation of CB1 receptors in OPCs in vivo perturbs oligodendrogenesis and postnatal myelination by altering the RhoA/ROCK signaling pathway, leading to hypomyelination, and motor and cognitive alterations in young adult mice. Conversely, pharmacological CB1 receptor activation, by inducing E3 ubiquitin ligase-dependent RhoA proteasomal degradation, promotes oligodendrocyte development and CNS myelination in OPCs, an effect that was not evident in OPC-specific CB1 receptor-deficient mice. Moreover, pharmacological inactivation of ROCK in vivo overcomes the defects in oligodendrogenesis and CNS myelination, and behavioral alterations found in OPC-specific CB1 receptor-deficient mice. Overall, this study supports a cell-autonomous role for CB1 receptors in modulating oligodendrogenesis in vivo, which may have a profound impact on the scientific knowledge and therapeutic manipulation of CNS myelination by cannabinoids.
A plasmid system with tunable copy number
Authors: Rouches Miles V. , Xu Yasu , Cortes Louis Brian Georges , Lambert Guillaume
Published: July 2022

Plasmids are one of the most commonly used platforms for genetic engineering and recombinant gene expression in bacteria. The range of available copy numbers for cloning vectors is largely restricted to the handful of Origins of Replication (ORIs) that have been isolated from plasmids found in nature. Here, we introduce two systems that allow for the continuous, finely-tuned control of plasmid copy number between 1 and 800 copies per cell: a plasmid with an anhydrotetracycline-controlled copy number, and a parallelized assay that is used to generate a continuous spectrum of 1194 ColE1-based copy number variants. Using these systems, we investigate the effects of plasmid copy number on cellular growth rates, gene expression, biosynthesis, and genetic circuit performance. We perform single-cell timelapse measurements to characterize plasmid loss, runaway plasmid replication, and quantify the impact of plasmid copy number on the variability of gene expression. Using our assay, we find that each plasmid imposes a 0.063% linear metabolic burden on their hosts, hinting at a simple relationship between metabolic burdens and plasmid DNA synthesis. Our systems enable the precise control of gene expression, and our results highlight the importance of tuning plasmid copy number as a powerful tool for the optimization of synthetic biological systems.
Low-cost anti-mycobacterial drug discovery using engineered E. coli
Authors: Bongaerts Nadine , Edoo Zainab , Abukar Ayan A. , Song Xiaohu , Sosa-Carrillo Sebastián , Haggenmueller Sarah , Savigny Juline , Gontier Sophie , Lindner Ariel B. , Wintermute Edwin H.
Published: July 2022

Whole-cell screening for Mycobacterium tuberculosis (Mtb) inhibitors is complicated by the pathogen’s slow growth and biocontainment requirements. Here we present a synthetic biology framework for assaying Mtb drug targets in engineered E. coli. We construct Target Essential Surrogate E. coli (TESEC) in which an essential metabolic enzyme is deleted and replaced with an Mtb-derived functional analog, linking bacterial growth to the activity of the target enzyme. High throughput screening of a TESEC model for Mtb alanine racemase (Alr) revealed benazepril as a targeted inhibitor, a result validated in whole-cell Mtb. In vitro biochemical assays indicated a noncompetitive mechanism unlike that of clinical Alr inhibitors. We establish the scalability of TESEC for drug discovery by characterizing TESEC strains for four additional targets.
Nucleotide mismatches prevent intrinsic self-silencing of hpRNA transgenes to enhance RNAi stability in plants
Authors: Zhang Daai , Zhong Chengcheng , Smith Neil A. , de Feyter Robert , Greaves Ian K. , Swain Steve M. , Zhang Ren , Wang Ming-Bo
Published: July 2022

Hairpin RNA (hpRNA) transgenes are the most successful RNA interference (RNAi) method in plants. Here, we show that hpRNA transgenes are invariably methylated in the inverted-repeat (IR) DNA and the adjacent promoter, causing transcriptional self-silencing. Nucleotide substitutions in the sense sequence, disrupting the IR structure, prevent the intrinsic DNA methylation resulting in more uniform and persistent RNAi. Substituting all cytosine with thymine nucleotides, in a G:U hpRNA design, prevents self-silencing but still allows for the formation of hpRNA due to G:U wobble base-pairing. The G:U design induces effective RNAi in 90–96% of transgenic lines, compared to 57–65% for the traditional hpRNA design. While a traditional hpRNA transgene shows increasing self-silencing from cotyledons to true leaves, its G:U counterpart avoids this and induce RNAi throughout plant growth. Furthermore, siRNAs from G:U and traditional hpRNA show different characteristics and appear to function via different pathways to induce target DNA methylation.
Biophysical impacts of northern vegetation changes on seasonal warming patterns
Authors: Lian Xu , Jeong Sujong , Park Chang-Eui , Xu Hao , Li Laurent Z. X. , Wang Tao , Gentine Pierre , Peñuelas Josep , Piao Shilong
Published: July 2022

The seasonal greening of Northern Hemisphere (NH) ecosystems, due to extended growing periods and enhanced photosynthetic activity, could modify near-surface warming by perturbing land-atmosphere energy exchanges, yet this biophysical control on warming seasonality is underexplored. By performing experiments with a coupled land-atmosphere model, here we show that summer greening effectively dampens NH warming by −0.15 ± 0.03 °C for 1982–2014 due to enhanced evapotranspiration. However, greening generates weak temperature changes in spring (+0.02 ± 0.06 °C) and autumn (−0.05 ± 0.05 °C), because the evaporative cooling is counterbalanced by radiative warming from albedo and water vapor feedbacks. The dwindling evaporative cooling towards cool seasons is also supported by state-of-the-art Earth system models. Moreover, greening-triggered energy imbalance is propagated forward by atmospheric circulation to subsequent seasons and causes sizable time-lagged climate effects. Overall, greening makes winter warmer and summer cooler, attenuating the seasonal amplitude of NH temperature. These findings demonstrate complex tradeoffs and linkages of vegetation-climate feedbacks among seasons.
Identification of high-dielectric constant compounds from statistical design
Authors: Gopakumar Abhijith , Pal Koushik , Wolverton Chris
Published: July 2022

The discovery of high-dielectric materials is crucial to increasing the efficiency of electronic devices and batteries. Here, we report three previously unexplored materials with very high dielectric constants (69 < ϵ < 101) and large band gaps (2.9 < Eg(eV) < 5.5) obtained by screening materials databases using statistical optimization algorithms aided by artificial neural networks (ANN). Two of these new dielectrics are mixed-anion compounds (Eu5SiCl6O4 and HoClO) and are shown to be thermodynamically stable against common semiconductors via phase diagram analysis. We also uncovered four other materials with relatively large dielectric constants (20 < ϵ < 40) and band gaps (2.3 < Eg(eV) < 2.7). While the ANN training-data are obtained from the Materials Project, the search-space consists of materials from the Open Quantum Materials Database (OQMD)—demonstrating a successful implementation of cross-database materials design. Overall, we report the dielectric properties of 17 materials calculated using ab initio calculations, that were selected in our design workflow. The dielectric materials with high-dielectric properties predicted in this work open up further experimental research opportunities.
Thermoplastic elastomer enhanced interface adhesion and bending durability for flexible organic solar cells
Authors: Xu Zihan , Han Yunfei , Bai Yuanyuan , Chen Xingze , Guo Jingbo , Zhang Lianping , Gong Chao , Luo Qun , Zhang Ting , Ma Chang-Qi
Published: July 2022

Stable interface adhesion and bending durability of flexible organic solar cells (FOSCs) is a basic requirement for its real application in wearable electronics. Unfortunately, the device performance always degraded during continuous bending. Here, we revealed the weak interface adhesion force between MoO3 hole transporting layer (HTL) and the organic photoactive layer was the main reason of poor bending durability. The insertion of an interface bonding layer with a thermoplastic elastomer, polystyrene-block-poly(ethylene-ran-butylene)-block-polystyrene (SEBS) effectively improved the interface adhesion force of MoO3 HTL and the active layer and decreased the modulus, which ensured higher than 90% of the initial efficiency remaining after 10000 bending. Meanwhile, the FOSCs gave an efficiency of 14.18% and 16.15% for the PM6:Y6 and PM6:L8-BO devices, which was among the highest performance of FOSCs. These results demonstrated the potential of improving the mechanical durability of FOSCs through thermoplastic elastomer interface modification.
Bound state in a giant atom-modulated resonators system
Authors: Xiao Han , Wang Luojia , Li Zheng-Hong , Chen Xianfeng , Yuan Luqi
Published: July 2022

It is of fundamental interest in controlling the light–matter interaction for a long time in the field of quantum information processing. Here, we explore a model by coupling a giant atom with the dynamically-modulated coupled-resonator waveguide and find the bound state, where the light shows the localization effect and the atomic decay into resonator modes is inhibited, excited by a propagating photon. An analytical treatment based on the separation of the propagating states and localized states of light has been proposed and provides inspiring explanation of our finding, i.e., there supports a quantum channel where the propagating photon can be converted to the localized state through the quantum interference from light–atom interactions in three resonators at different frequency detunings. Our work therefore shows the potential for actively localizing the photon in a modulated coupled-resonator waveguide system interacting with the giant atom, and also points out a way to study the light–atom interaction in a synthetic frequency dimension that holds the similar Hamiltonian.
A nationwide Chinese consumer study of public interest on agriculture
Authors: Liao Danfeng , Cui Kai , Ke Lijing
Published: July 2022

A nationwide study was undertaken in China to understand why public interest has shifted away from agriculture and to discuss approaches that may help restore interest and support for agriculture. The study collected 2586 questionnaires from 242 cities in 31 provinces in mainland China. The results suggest that agriculture is still of public interest, but interest has shifted from traditional farming to the consumer perspective in food safety, nutrition and health, food security and agricultural history. Two groups in this study, the younger generation and those with college degrees, show less interest in production agriculture. The accelerating shift in population from rural China to urban areas explains why these two groups are less connected with agricultural issues. The authors contend that it is critically important to keep the urban population knowledgeable of the importance of agriculture and suggest ways to improve communication and support from this educated, city-dweller point of view in order to ensure a stable and secure future. The approach of science appreciation (ways to effectively communicate science to general publics) is proposed to effectively gain renewed interest and engagement with the public in the science of agriculture in order to optimize the needs and benefits from agriculture to society.
Vaccine-induced time- and age-dependent mucosal immunity to gastrointestinal parasite infection
Authors: Liu Wei , McNeilly Tom N. , Mitchell Mairi , Burgess Stewart T. G. , Nisbet Alasdair J. , Matthews Jacqueline B. , Babayan Simon A.
Published: July 2022

Individuals vary broadly in their response to vaccination and subsequent challenge infection, with poor vaccine responders causing persistence of both infection and transmission in populations. Yet despite having substantial economic and societal impact, the immune mechanisms that underlie such variability, especially in infected tissues, remain poorly understood. Here, to characterise how antihelminthic immunity at the mucosal site of infection developed in vaccinated lambs, we inserted gastric cannulae into the abomasa of three-month- and six-month-old lambs and longitudinally analysed their local immune response during subsequent challenge infection. The vaccine induced broad changes in pre-challenge abomasal immune profiles and reduced parasite burden and egg output post-challenge, regardless of age. However, age affected how vaccinated lambs responded to infection across multiple immune pathways: adaptive immune pathways were typically age-dependent. Identification of age-dependent and age-independent protective immune pathways may help refine the formulation of vaccines, and indicate specificities of pathogen-specific immunity more generally.
Suppression of surface ozone by an aerosol-inhibited photochemical ozone regime
Authors: Ivatt Peter D. , Evans Mathew J. , Lewis Alastair C.
Published: July 2022

Atmospheric ozone (O3) is a pollutant produced through chemical chain reactions where volatile organic compounds (VOCs), carbon monoxide and methane are oxidized in the presence of oxides of nitrogen (NOx). For decades, the controlling chain termination step has been used to separate regions into either ‘NOx limited’ (peroxyl-radical self-reactions dominate) or ‘VOC limited’ (hydroxyl radical (OH) + nitrogen dioxide (NO2) reaction dominates). The controlling regime would then guide policies for reducing emissions and so O3 concentrations. Using a chemical transport model, we show that a third ‘aerosol inhibited’ regime exists, where reactive uptake of hydroperoxyl radicals (HO2) onto aerosol particles dominates. In 1970, 2% of the Northern Hemisphere population lived in an aerosol-inhibited regime, but by 2014 this had increased to 21%; 60% more than lived in a VOC-limited regime. Aerosol-inhibited chemistry suppressed surface O3 concentrations in North America and Europe in the 1970s and is currently suppressing surface O3 over Asia. This third photochemical O3 regime leads to potential trade-off tensions between reducing particle pollution in Asia (a key current health policy and priority) and increasing surface O3, should O3 precursors emissions not be reduced in tandem.
Fisheries dataset on moulting patterns and shell quality of American lobsters H. americanus in Atlantic Canada
Authors: Koepper Svenja , Scott-Tibbetts Shannon , Lavallée Jean , Revie Crawford W. , Thakur Krishna K.
Published: July 2022

Monitoring the moulting phenology of American lobsters (Homarus americanus) is important for maintaining sustainable lobster stocks. Changes in lobster landings can affect reproduction and disease susceptibility. Data on lobster moult indicators and on life-history traits (sex, size) were collated from a twelve-year monitoring program (2004–2015) in six lobster fishing areas in Atlantic Canada. A total of 141,659 lobsters were sampled over 1,195 sampling events using a standardized protocol and commercial lobster fishing traps. The dataset contains pleopod stages, estimated hemolymph protein levels (°Brix values) and shell hardness as well as lobster sex and size. Evaluation of sex ratio dynamics is also possible but existing biases in sampling males and females needs to be noted. This dataset is valuable in terms of inferring spatio-temporal trends in the life history of lobsters, as well as in the analysis of their moult cycle, and hence more generally for fisheries science and marine ecology.
Muscle coordination retraining inspired by musculoskeletal simulations reduces knee contact force
Authors: Uhlrich Scott D. , Jackson Rachel W. , Seth Ajay , Kolesar Julie A. , Delp Scott L.
Published: July 2022

Humans typically coordinate their muscles to meet movement objectives like minimizing energy expenditure. In the presence of pathology, new objectives gain importance, like reducing loading in an osteoarthritic joint, but people often do not change their muscle coordination patterns to meet these new objectives. Here we use musculoskeletal simulations to identify simple changes in coordination that can be taught using electromyographic biofeedback, achieving the therapeutic goal of reducing joint loading. Our simulations predicted that changing the relative activation of two redundant ankle plantarflexor muscles—the gastrocnemius and soleus—could reduce knee contact force during walking, but it was unclear whether humans could re-coordinate redundant muscles during a complex task like walking. Our experiments showed that after a single session of walking with biofeedback of summary measures of plantarflexor muscle activation, healthy individuals reduced the ratio of gastrocnemius-to-soleus muscle activation by 25 ± 15% (p = 0.004, paired t test, n = 10). Participants who walked with this “gastrocnemius avoidance” gait pattern reduced late-stance knee contact force by 12 ± 12% (p = 0.029, paired t test, n = 8). Simulation-informed coordination retraining could be a promising treatment for knee osteoarthritis and a powerful tool for optimizing coordination for a variety of rehabilitation and performance applications.
Relationship between Thoroughbred workloads in racing and the fatigue life of equine subchondral bone
Authors: Morrice-West Ashleigh V. , Hitchens Peta L. , Walmsley Elizabeth A. , Tasker Kate , Lim Ser Lin , Smith Ariel D. , Whitton R. Chris
Published: July 2022

Fatigue life (FL) is the number of cycles of load sustained by a material before failure, and is dependent on the load magnitude. For athletes, ‘cycles’ translates to number of strides, with load proportional to speed. To improve previous investigations estimating workload from distance, we used speed (m/s, x) per stride collected using 5 Hz GPS/800 Hz accelerometer sensors as a proxy for limb load to investigate factors associated with FL in a Thoroughbred race start model over 25,234 race starts, using a combination of mathematical and regression modelling. Fore-limb vertical force (NKg-1) was estimated using a published equation: Vertical force = 2.778 + 2.1376x − 0.0535x2. Joint load (σ) was estimated based on the vertical force, scaled according to the maximum speed and defined experimental loads for the expected variation in load distribution across a joint surface (54-90 MPa). Percentage FL (%FL) was estimated using a published equation for cycles to failure (Nf) summed across each race start: Nf = 10(σ-134.2)/−14.1.Multivariable mixed-effects linear regression models were generated on %FL, adjusting for horse-level clustering, presented as coefficients; 95%CI. Scaled to the highest joint load, individual starts accrued a mean of 9.34%FL (sd. 1.64). Older age (coef. 0.03; 0.002–0.04), longer race-distances (non-linear power transformed), and firmer track surfaces (ref. Heavy 10: Good 3 coef. 2.37; 2.26–2.48) were associated with greater %FL, and males accrued less than females (p < 0.01). Most variables associated with %FL are reported risk factors for injury. Monitoring strides in racehorses may therefore allow identification of horses at risk, enabling early detection of injury.
Nasal microbiota evolution within the congregate setting imposed by military training
Authors: Blum Faith C. , Whitmire Jeannette M. , Bennett Jason W. , Carey Patrick M. , Ellis Michael W. , English Caroline E. , Law Natasha N. , Tribble David R. , Millar Eugene V. , Merrell D. Scott
Published: July 2022

The human microbiome is comprised of a complex and diverse community of organisms that is subject to dynamic changes over time. As such, cross-sectional studies of the microbiome provide a multitude of information for a specific body site at a particular time, but they fail to account for temporal changes in microbial constituents resulting from various factors. To address this shortcoming, longitudinal research studies of the human microbiome investigate the influence of various factors on the microbiome of individuals within a group or community setting. These studies are vital to address the effects of host and/or environmental factors on microbiome composition as well as the potential contribution of microbiome members during the course of an infection. The relationship between microbial constituents and disease development has been previously explored for skin and soft tissue infections (SSTIs) within congregate military trainees. Accordingly, approximately 25% of the population carries Staphylococcus aureus within their nasal cavity, and these colonized individuals are known to be at increased risk for SSTIs. To examine the evolution of the nasal microbiota of U.S. Army Infantry trainees, individuals were sampled longitudinally from their arrival at Fort Benning, Georgia, until completion of their training 90 days later. These samples were then processed to determine S. aureus colonization status and to profile the nasal microbiota using 16S rRNA gene-based methods. Microbiota stability differed dramatically among the individual trainees; some subjects exhibited great stability, some subjects showed gradual temporal changes and some subjects displayed a dramatic shift in nasal microbiota composition. Further analysis utilizing the available trainee metadata suggests that the major drivers of nasal microbiota stability may be S. aureus colonization status and geographic origin of the trainees. Nasal microbiota evolution within the congregate setting imposed by military training is a complex process that appears to be affected by numerous factors. This finding may indicate that future campaigns to prevent S. aureus colonization and future SSTIs among high-risk military trainees may require a ‘personalized’ approach.
Effects of organic fertilizer proportion on the distribution of soil aggregates and their associated organic carbon in a field mulched with gravel
Authors: Du Shaoping , Ma Zhongming , Chen Juan , Xue Liang , Tang Chaonan , Shareef Tawheed M. E. , Siddique Kadambot H. M.
Published: July 2022

Gravel and sand mulching is an indigenous technology that has been used for increasing soil temperature and improving crop yield and water use efficiency for at least 300 years in northwestern China. However, long-term application of inorganic fertilizer with gravel and sand mulch could decrease the soil organic carbon content, and how to improve soil fertility under gravel and sand mulching remains largely unknown. Thus, we evaluated the effects of the application of inorganic (chemical) and organic (manure) fertilizers on the distribution of soil aggregates and their associated organic carbon in a field mulched with gravel and sand. A 5-year (2014–2018) field experiment was conducted in the arid region of northwestern China. Total organic carbon (TOC), permanganate oxidizable carbon (POC), TOC reserves in soil aggregates with different particle sizes, and watermelon (Citrullus lanatus) productivity in gravel-mulched fields were analysed for the following six fertilization modes: no N fertilizer input as a control (CK), N fertilizer without organic fertilizer (CF), and organic fertilizer replacing 25%, 50%, 75%, and 100% of mineral nitrogen (recorded as OF-25%, OF-50%, OF-75% and OF-100%, respectively). The results showed that, higher manure to nitrogen fertilizer ratios were positively correlated with the percentage of soil macroaggregates (> 0.25 mm), mean weight diameter (MWD), TOC and POC concentrations, and their ratios in different particle sizes. Compared with CF, the treatments with 50% to 100% organic fertilizer significantly increased TOC storage (5.91–7.84%) in the soil profile (0–20 cm). Moreover, the CF treatment did not increase SOC concentrations or TOC storage, compared with CK. The fruit yield (2014–2018) of watermelon significantly increased by an average of 31.38% to 45.70% in the treatments with 50% to 100% organic fertilizer, respectively, compared with CF. Our results suggest that the partial replacement of chemical fertilizer with organic manure (OF-50%, OF-75% and OF-100%) could increase the proportion of macroaggregates, POC and TOC concentrations, and TOC stock in aggregates with different particle size and improve the yield of watermelon in the gravel fields of arid northwestern China mulched with gravel and sand.
Impact of the temperature on the interactions between common variants of the SARS-CoV-2 receptor binding domain and the human ACE2
Authors: Forest-Nault Catherine , Koyuturk Izel , Gaudreault Jimmy , Pelletier Alex , L’Abbé Denis , Cass Brian , Bisson Louis , Burlacu Alina , Delafosse Laurence , Stuible Matthew , Henry Olivier , De Crescenzo Gregory , Durocher Yves
Published: July 2022

Several key mutations in the Spike protein receptor binding domain (RBD) have been identified to influence its affinity for the human Angiotensin-Converting Enzyme 2 (ACE2). Here, we perform a comparative study of the ACE2 binding to the wild type (Wuhan) RBD and some of its variants: Alpha B.1.1.7, Beta B.1.351, Delta B.1.617.2, Kappa B.1.617.1, B.1.1.7 + L452R and Omicron B.1.1.529. Using a coiled-coil mediated tethering approach of ACE2 in a novel surface plasmon resonance (SPR)-based assay, we measured interactions at different temperatures. Binding experiments at 10 °C enhanced the kinetic dissimilarities between the RBD variants and allowed a proper fit to a Langmuir 1:1 model with high accuracy and reproducibility, thus unraveling subtle differences within RBD mutants and ACE2 glycovariants. Our study emphasizes the importance of SPR-based assay parameters in the acquisition of biologically relevant data and offers a powerful tool to deepen our understanding of the role of the various RBD mutations in ACE2 interaction binding parameters.
Untargeted lipidomic analysis of plasma from obese women submitted to combined physical exercise
Authors: San Martin Rocio , Brandao Camila Fernanda Cunha , Junqueira-Franco Márcia Varella Morandi , Junqueira Gizela Pedroso , de Freitas Ellen Cristini , de Carvalho Flavia Giolo , Rodrigues Caio Henrique Pinke , Aguesse Audrey , Billon-Crossouard Stéphanie , Krempf Michel , Croyal Mikaël , Marchini Julio Sergio
Published: July 2022

This study aimed to determine the changes of lipidome in obese women undergoing combined physical exercise training. Fourteen adult women with obesity (mean BMI and age, 33 kg/m2 and 34 ± 5 years), were submitted to combined physical training (aerobic and strength exercises, alternately, 55 min at 75–90% of the maximum heart rate, 3 times a week) for 8 weeks. All participants were evaluated before and after the training intervention for lipidome, anthropometric measurements, muscle strength, and maximum oxygen consumption (VO2max). Untargeted liquid chromatography-mass spectrometry analyses allowed the identification of 1252 variables, of which 160 were significant (p < 0.05), and 61 were identified as molecular species of lipids. Volcano plot analysis revealed LPC(16:0p), LPC(18:0p), LPC(20:2), and arachidonic acid upregulated and PC(38:1p), PC(40:4), PC(40:4p) downregulated after combined physical exercise. From the results of the overall Principal component analysis (PCA), the major finding was SM(d18:1/20:0), arachidonic acid, and PC(40:6) species. Other changes included a reduction in waist circumference (Δ = − 2 cm) (p < 0.05), with no weight loss. In conclusion, 8-week of combined exercise training in obese women brought changes in different classes of lipids. This study provides further information to understand the effect of combined physical exercise on lipids related to obesity.
Shifts in rhizosphere microbial communities in Oplopanax elatus Nakai are related to soil chemical properties under different growth conditions
Authors: Li Wanying , Lei Xiujuan , Zhang Rui , Cao Qingjun , Yang He , Zhang Nanqi , Liu Shuangli , Wang Yingping
Published: July 2022

Plant growth environment plays an important role in shaping soil microbial communities. To understand the response of soil rhizosphere microbial communities in Oplopanax elatus Nakai plant to a changed growth conditions from natural habitation to cultivation after transplant. Here, a comparative study of soil chemical properties and microbial community using high-throughput sequencing was conducted under cultivated conditions (CT) and natural conditions (WT), in Changbai Mountain, Northeast of China. The results showed that rhizosphere soil in CT had higher pH and lower content of soil organic matter (SOM) and available nitrogen compared to WT. These changes influenced rhizosphere soil microbial communities, resulting in higher soil bacterial and fungi richness and diversity in CT soil, and increased the relative abundance of bacterial phyla Acidobacteria, Chloroflexi, Gemmatimonadetes, Firmicutes and Patescibacteria, and the fungi phyla Mortierellomycota and Zoopagomycota, while decreased bacterial phyla Actinobacteria, WPS-2, Gemmatimonadetes, and Verrucomicrobia, and the fungi phyla Ascomycota, and Basidiomycota. Redundancy analysis analysis indicated soil pH and SOM were the primarily environmental drivers in shaping the rhizosphere soil microbial community in O. elatus under varied growth conditions. Therefore, more attention on soil nutrition management especially organic fertilizer inputs should be paid in O. elatus cultivation.
Role of cohesion in the flow of active particles through bottlenecks
Authors: Knippenberg Timo , Lüders Anton , Lozano Celia , Nielaba Peter , Bechinger Clemens
Published: July 2022

We experimentally and numerically study the flow of programmable active particles (APs) with tunable cohesion strength through geometric constrictions. Similar to purely repulsive granular systems, we observe an exponential distribution of burst sizes and power-law-distributed clogging durations. Upon increasing cohesion between APs, we find a rather abrupt transition from an arch-dominated clogging regime to a cohesion-dominated regime where droplets form at the aperture of the bottleneck. In the arch-dominated regime the flow-rate only weakly depends on the cohesion strength. This suggests that cohesion must not necessarily decrease the group’s efficiency passing through geometric constrictions or pores. Such behavior is explained by “slippery” particle bonds which avoids the formation of a rigid particle network and thus prevents clogging. Overall, our results confirm the general applicability of the statistical framework of intermittent flow through bottlenecks developed for granular materials also in case of active microswimmers whose behavior is more complex than that of Brownian particles but which mimic the behavior of living systems.
Role of an RNA pseudoknot involving the polyA tail in replication of Pepino mosaic potexvirus and related plant viruses
Authors: Olsthoorn René C. L. , Owen Carolyn A. , Livieratos Ioannis C.
Published: July 2022

Pepino mosaic virus (PepMV) is a potexvirus of the family Alphaflexiviridae within the order of Tymovirales that threatens tomato production worldwide. PepMV possesses a positive-strand RNA genome with a 5′-methylguanosine cap and a 3′-polyA tail. Previously, using partially-purified viral RNA polymerase important secondary structures within the 3′-untranslated region (UTR) of PepMV RNA were identified. Here we show that an RNA pseudoknot can be formed in the 3′-UTR that includes part of the polyA tail. Using protoplasts, we demonstrate that the pseudoknot is required for replication of PepMV RNA. Mutational analysis and native gel electrophoresis further show that the pseudoknot is stabilized by UAU base triples, as is the human telomerase RNA pseudoknot. The presence of a pseudoknot in several other members of the Alpha- and Betaflexiviridae is supported by covariance analysis and native gel electrophoresis of other potexvirus, capillovirus and trichovirus RNAs. The ubiquitous presence of the pseudoknot in viruses of the Betaflexiviridae, suggests that the pseudoknot is a typical trait of the Betaflexiviridae that may have been adopted by many potexviruses during evolution.
Properties of poly(lactic acid)/walnut shell/hydroxyapatite composites prepared with fused deposition modeling
Authors: Song Xiaohui , Guan Wenfang , Qin Huadong , Han Xingguo , Wu Lingfang , Ye Yishen
Published: July 2022

In this work, fused deposition modeling (FDM) technology was used to prepare poly(lactic acid)/walnut shell/hydroxyapatite (PLA/WS/HA) composite filaments. HA was treated with silane and characterized by Fourier transform infrared spectroscopy (FTIR). The composites were investigated by using simultaneous thermal analyzer, scanning electron microscopy (SEM) and a universal mechanical testing machine. The results showed that incorporating either HA or WS improved the thermal stability and water absorption of PLA, but lowered the tensile and compression strength. Fillers toughened the PLA matrix, resulting in higher tensile elongation and compressive strain. The tensile and compressive strengths of samples significantly dropped after water-immersion for 6 weeks. Finally, scaffolds were manufactured by using FDM. The compression modulus and structural feature of scaffolds indicated that the PLA/WS/HA composites have the potential to be applied in structural parts, such as bone implants.
Circulating N-Acetylaspartate does not track brain NAA concentrations, cognitive function or features of small vessel disease in humans
Authors: Rebelos Eleni , Daniele Giuseppe , Campi Beatrice , Saba Alessandro , Koskensalo Kalle , Ihalainen Jukka , Saukko Ekaterina , Nuutila Pirjo , Backes Walter H. , Jansen Jacobus F. A. , Dagnelie Pieter C. , Köhler Sebastian , de Galan Bastiaan E. , van Sloten Thomas T. , Stehouwer Coen D. A. , Ferrannini Ele
Published: July 2022

N-acetylaspartate (NAA) is the second most abundant metabolite in the human brain; although it is assumed to be a proxy for a neuronal marker, its function is not fully elucidated. NAA is also detectable in plasma, but its relation to cerebral NAA levels, cognitive performance, or features of cerebral disease has not been investigated. To study whether circulating NAA tracks cerebral NAA levels, and whether circulating NAA correlates with cognitive function and features of cerebral small vessel disease (SVD). Two datasets were analyzed. In dataset 1, structural MRI was acquired in 533 subjects to assess four features of cerebral SVD. Cognitive function was evaluated with standardized test scores (N = 824). In dataset 2, brain 1H-MRS from the occipital region was acquired (N = 49). In all subjects, fasting circulating NAA was measured with mass spectrometry. Dataset 1: in univariate and adjusted for confounders models, we found no correlation between circulating NAA and the examined features of cerebral SVD. In univariate analysis, circulating NAA levels were associated inversely with the speed in information processing and the executive function score, however these associations were lost after accounting for confounders. In line with the negative findings of dataset 1, in dataset 2 there was no correlation between circulating and central NAA or total NAA levels. This study indicates that circulating NAA levels do not reflect central (occipital) NAA levels, cognitive function, or cerebral small vessel disease in man.
RETRACTED ARTICLE: Solar energy optimization in solar-HVAC using Sutterby hybrid nanofluid with Smoluchowski temperature conditions: a solar thermal application
Authors: Jamshed Wasim , Eid Mohamed R. , Safdar Rabia , Pasha Amjad Ali , Mohamed Isa Siti Suzilliana Putri , Adil Mohammad , Rehman Zulfiqar , Weera Wajaree
Published: July 2022

In solar heating, ventilation, and air conditioning (HVAC), communications are designed to create new 3D mathematical models that address the flow of rotating Sutterby hybrid nanofluids exposed to slippery and expandable seats. The heat transmission investigation included effects such as copper and graphene oxide nanoparticles, as well as thermal radiative fluxing. The activation energy effect was used to investigate mass transfer with fluid concentration. The boundary constraints utilized were Maxwell speed and Smoluchowksi temperature slippage. With the utilization of fitting changes, partial differential equations (PDEs) for impetus, energy, and concentricity can be decreased to ordinary differential equations (ODEs). To address dimensionless ODEs, MATLAB’s Keller box numerical technique was employed. Graphene oxide Copper/engine oil (GO-Cu/EO) is taken into consideration to address the performance analysis of the current study. Physical attributes, for example, surface drag coefficient, heat move, and mass exchange are mathematically processed and shown as tables and figures when numerous diverse factors are varied. The temperature field is enhanced by an increase in the volume fraction of copper and graphene oxide nanoparticles, while the mass fraction field is enhanced by an increase in activation energy.
Surgical treatment and muscle protein analysis of V-pattern exotropia in craniosynostosis
Authors: Liu Qingyu , Li Yuan , Wang Siying , Zheng Wenjing , Ye Han , Li Wen , Qiao Tong
Published: July 2022

The purpose of this study was to compare the differences of V-pattern exotropia in craniosynostosis and normal children. 39 children were included in this study, 19 craniosynostosis and 20 children in control group. They underwent comprehensive ocular examinations and received strabismus surgery. The extraocular muscle samples were analysed. Compared with the control group, craniosynostosis group had larger deviation in primary and up gaze, larger V pattern, and more severe inferior oblique overaction. For 20–40, and 50–60 prism diopter exotropia, the lateral recession in the craniosynostosis group was larger than that in the control group, 7.13 ± 0.44 mm vs 6.71 ± 0.47 mm, 8.90 ± 0.21 mm vs 7.75 ± 0.46 mm (p = 0.025, 0.000). The anterior transposition of craniosynostosis group was more anterior than that of control group, posterior 1.03 ± 1.24 vs 2.68 ± 0.94 mm (p = 0.000). Compared with the control group, the extraocular muscle abnormality in craniosynostosis was significant, 32% vs 5% (p = 0.031). There were 40 proteins in craniosynostosis group, which were different from those in control group. A larger V pattern and larger deviation is common in craniosynostosis children. For the same PD of deviation, it usually needs more recession in craniosynostosis because of the thinner and weaker extraocular muscles. Collagen related proteins were increased in craniosynostosis, and decreased contraction related protein tropomodulin might play key role for the weakness of EOMs.
A millimeter-scale insight into formation mechanism of lacustrine black shale in tephra deposition background
Authors: Lin Senhu , Hou Lianhua , Luo Xia , Wu Yiwen
Published: July 2022

To reveal the role of tephra in the deposition of black shale during periods of volcanic activity, we performed lithostratigraphic and geochemical analyses on 14 horizontally sliced samples drilled from a 2-cm-thick black shale interval in the lower Ch7 Member of the Upper Triassic Yanchang Formation, southern Ordos Basin. Results indicate that fewer plankton is preserved during tephra deposition than during periods of volcanic quiescence. With the decrease of volcanic activities and tephra deposition, the abundance of redox-sensitive trace elements (RSTEs) and biolimiting elements increases, while terrigenous elements gradually decrease, resulting in the improvement of organic matter (OM) preservation. Paleoenvironmental proxies suggest that the climate during the Late Triassic was generally warm and humid. However, subsequent intense volcanic eruptions may have caused climatic cooling that affected the water column, resulting in enhanced salinity, primary production, water stratification, and bottom water anoxia, leading to enhanced organic carbon production and preservation. Primary productivity and redox conditions controlled the accumulation of organic carbon. Although physical and chemical reactions relating to the deposition of tephra into water are short-lived, climate change induced by volcanic eruptions is the critical cause of black shale formation.
Relationship between drug holiday of the antiresorptive agents and surgical outcome of medication-related osteonecrosis of the jaw in osteoporosis patients
Authors: Morishita Kota , Soutome Sakiko , Otsuru Mitsunobu , Hayashida Saki , Murata Maho , Sasaki Miho , Takagi Yukinori , Sumi Misa , Umeda Masahiro
Published: July 2022

A drug holiday of 3 months does not promote separation of sequestra and is not correlated with treatment outcomes after surgical therapy in osteoporosis patients who receive antiresorptive agents and who have medication-related osteonecrosis of the jaw. Medication-related osteonecrosis of the jaw (MRONJ) is a serious adverse effect of antiresorptive agents alone or in combination with immune modulators or antiangiogenic medications, in the absence of radiation exposure to the head and neck region. The effectiveness of surgical treatment for MRONJ has been reported, but the timing of the operation remains controversial. The purpose of this study was to clarify whether preoperative drug holidays of antiresorptive agents promote sequestrum separation and improve treatment outcomes in patients who receive low doses of antiresorptive agents. This retrospective study included 173 patients who received low-dose antiresorptive agents and underwent surgical therapy. The effects of a drug holiday on the separation of sequestra and treatment outcomes were analyzed using logistic and Cox regression analyses. Multivariate analysis revealed that administration of an antiresorptive agent for more than 4 years, a high number of lymphocytes, and an extensive osteolytic area were significantly correlated with separation of sequestra, but drug holiday did not promote sequestrum separation. Furthermore, a drug holiday of 90, 120 or 180 days did not show any improvement in treatment outcomes. The drug holiday of the antiresorptive agents for the treatment of MRONJ is unnecessary, and surgical therapy should be performed early.
Characterization of regulatory transcriptional mechanisms in hepatocyte lipotoxicity
Authors: Pérez-Schindler Joaquín , Vargas-Fernández Elyzabeth , Karrer-Cardel Bettina , Ritz Danilo , Schmidt Alexander , Handschin Christoph
Published: July 2022

Non-alcoholic fatty liver disease is a continuum of disorders among which non-alcoholic steatohepatitis (NASH) is particularly associated with a negative prognosis. Hepatocyte lipotoxicity is one of the main pathogenic factors of liver fibrosis and NASH. However, the molecular mechanisms regulating this process are poorly understood. The main aim of this study was to dissect transcriptional mechanisms regulated by lipotoxicity in hepatocytes. We achieved this aim by combining transcriptomic, proteomic and chromatin accessibility analyses from human liver and mouse hepatocytes. This integrative approach revealed several transcription factor networks deregulated by NASH and lipotoxicity. To validate these predictions, genetic deletion of the transcription factors MAFK and TCF4 was performed, resulting in hepatocytes that were better protected against saturated fatty acid oversupply. MAFK- and TCF4-regulated gene expression profiles suggest a mitigating effect against cell stress, while promoting cell survival and growth. Moreover, in the context of lipotoxicity, some MAFK and TCF4 target genes were to the corresponding differentially regulated transcripts in human liver fibrosis. Collectively, our findings comprehensively profile the transcriptional response to lipotoxicity in hepatocytes, revealing new molecular insights and providing a valuable resource for future endeavours to tackle the molecular mechanisms of NASH.