bluuebunny/crossref_metadata_2025_split huggingface dataset:
Extracellular CIRP decreases Siglec-G expression on B-1a cells skewing them towards a pro-inflammatory phenotype in sepsis
Authors: Royster William , Jin Hui , Wang Ping , Aziz Monowar 
Published: May 2021

Abstract
Background
Sepsis is a life-threatening disease syndrome caused by a dysregulated host response to infection and injury. Extracellular cold-inducible RNA-binding protein (eCIRP) acts as a damage-associated molecular pattern. Peritoneal cavity (PerC) B-1a cells attenuate inflammation and tissue injury by spontaneous releasing natural IgM and IL-10. Sialic acid-binding immunoglobulin-type lectin-G (Siglec-G) is a CD33-related receptor highly expressed in B-1a cells to serve critical immunoregulatory functions. In sepsis, B-1a cell numbers in PerC are decreased. We hypothesized that eCIRP causes the reduction of PerC B-1a cells and alters their function during sepsis.

Methods
Sepsis was induced in WT and CIRP−/− mice by cecal ligation and puncture (CLP). PerC washout cells were collected and B-1a cells and Siglec-G were assessed by flow cytometry. Mice were i.p. injected with recombinant murine (rm) CIRP and after 20 h, Siglec-G expression in PerC B-1a cells were assessed. PerC B-1a cells were treated with rmCIRP for 4 h and Siglec-G expression was assessed. PerC B-1a cells were pre-treated with anti-Siglec-G Ab and then after stimulated with rmCIRP for 24 h, IL-6 levels in the culture supernatants were assessed.

Results
eCIRP levels in the PerC were elevated in septic mice. In WT mice, the frequencies and numbers of total and Siglec-G+ B-1a cells in the PerC were significantly decreased in the CLP group compared to sham group, whereas in CIRP−/− mice, their frequencies and numbers in sepsis were significantly rescued compared to WT septic mice. Mice injected with rmCIRP showed decreased frequencies and numbers of total and Siglec-G+ PerC B-1a cells compared to PBS-injected mice. In vitro treatment of PerC B-1a cells with rmCIRP demonstrated significant reduction in Siglec-G mRNA and protein compared to PBS group. PerC B-1a cells treated with anti-Siglec-G Ab had significantly higher production of IL-6 in response to rmCIRP compared to IgG control. Anti-Siglec-G Ab treated B-1a cells co-cultured with macrophages produced significantly higher levels of IL-6, and TNF-α, and lower levels of IL-10 compared to IgG-treated B-1a cells and macrophage co-cultures stimulated with rmCIRP.

Conclusion
eCIRP reduces PerC B-1a cell pool and skews them to a pro-inflammatory phenotype by downregulating Siglec-G expression. Targeting eCIRP will retain Siglec-G expressing B-1a cells in the PerC and preserve their anti-inflammatory function in sepsis.
Simulation Research on Dynamic Characteristics of Hydraulic Mount
Authors: Liu Yanhua , Guan Xin , Lu Pingping , Guo Rui 
Published: May 2021

AbstractAt present, research on hydraulic mounts has mainly focused on the prediction of the dynamic stiffness and loss angle. Compared to the traditional finite element analysis method, the programming method can be used to analyze hydraulic mounts for a rapid and accurate understanding of the influence of the different mounting parameters on the dynamic stiffness and loss angle. The aims of this study were to investigate the nonlinear dynamic characteristics of a hydraulic mount, and to identify the parameters that affect the dynamic stiffness and loss angle using MATLAB software programs to obtain the influence curves of the parameters, so as to use suitable parameters as the basis for vibration analysis. A nonlinear mechanical model of a hydraulic mount was established according to the basic principles of fluid dynamics. The dynamic stiffness and loss angle of the dimensionless expression were proposed. A numerical calculation method for the dynamic performance evaluation index of the hydraulic mount was derived. A one-to-one correspondence was established between the structural parameters and peak frequency of the evaluation index. The accuracy and applicability of the mechanical model were verified by the test results. The results demonstrated the accuracy of the nonlinear mechanical model of the hydraulic mount, and the vehicle driving comfort was greatly improved by the optimization of the structural parameters.
Design and Performance Study of Clutch Disc Assembly of Wide-Angle, Large-Hysteresis, Multistage Damper
Authors: Xie Maoqing , Wang Leigang , Huang Yao 
Published: May 2021

AbstractThe clutch is an important component of the vehicle driveline system. One of its major functions is to attenuate or eliminate the torsional vibration and noise of the driveline system caused by the engine. Based on experiments of vibration damping under different vehicle conditions, the structure and functional principle of a clutch-driven disc assembly for a wide-angle, large-hysteresis, multistage damper is investigated in this study using an innovative combined approach. Furthermore, a systematic integration of key technologies, including wide-angle low-stiffness damping technology, large-hysteresis clutch technology, a novel split pre-damping structure technology, damping structure technology for component cushioning, and multistage damping structure technology, is proposed. The results show that the total torsional angle of the wide-angle large-hysteresis, multistage damper is more than twice that of the traditional clutch damper. The multistage damping design allows a better consideration of various damping requirements under different vehicle conditions, which can effectively address problems of severe idle vibrations and torsional resonance that occur under idled and accelerated conditions. Meanwhile, the use of a large-hysteresis structure and wear-resistant materials not only improves the vibration damping performance, but also prolongs the product service life, consequently resulting in multi-faceted optimization and innovative products.
Industrial Internet-enabled Resilient Manufacturing Strategy in the Wake of COVID-19 Pandemic: A Conceptual Framework and Implementations in China
Authors: Peng Tao , He Qiqi , Zhang Zheng , Wang Baicun , Xu Xun 
Published: May 2021

AbstractCOVID-19 pandemic has accelerated the re-shaping of globalized manufacturing industry. Achieving a high level of resilience is thereby a recognized, essential ability of future manufacturing systems with the advances in smart manufacturing and Industry 4.0. In this work, a conceptual framework for resilient manufacturing strategy enabled by Industrial Internet is proposed. It is elaborated as a four-phase, closed-loop process that centered on proactive industry assessment. Key enabling technologies for the proposed framework are outlined in data acquisition and management, big data analysis, intelligent services, and others. Industrial Internet-enabled implementations in China in response to COVID-19 have then been reviewed and discussed from 3Rs’ perspective, i.e. manufacturer capacity Recovery, supply chain Resilience and emergency Response. It is suggested that an industry-specific and comprehensive selection coordinated with the guiding policy and supporting regulations should be performed at the national, at least regional level.
Teaching evolution in U.S. public middle schools: results of the first national survey
Authors: Branch Glenn , Reid Ann , Plutzer Eric 
Published: May 2021

AbstractBackgroundDespite substantial research on the teaching of evolution in the public high schools of the United States, we know very little about evolution teaching in the middle grades. In this paper, we rely on a 2019 nationally representative sample of 678 middle school science teachers to investigate how much time they report devoting to evolution and the key messages they report conveying about it, using this information to assess the state of middle school evolution education today. Throughout these analyses, we provide comparative data from high school biology teachers to serve as a baseline.ResultsWe find that, compared to high school biology teachers, middle school science teachers report themselves as less well-equipped to teach evolution, devoting less class time to evolution, and more likely to avoid taking a stand on the scientific standing of evolution and creationism. We show that middle school science teachers with extensive pre-service coursework in evolution and in states that have adopted the Next Generation Science Standards are more likely to report devoting more class time to evolution. Similarly, we show that middle school teachers in states that have adopted the Next Generation Science Standards and who are newer to the profession are more likely to report themselves as presenting evolution as settled science.ConclusionOur findings suggest avenues for the improvement of middle school evolution education through teacher preparation and public policy; in addition, a degree of improvement through retirement and replacement is likely to occur naturally in the coming years. More generally, our results highlight the need for further research on middle school education. Our broad statistical portrait provides an overview that merits elaboration with more detailed research on specific topics.
In-hospital cardiac arrest incidence and outcomes in the era of COVID-19: an observational study in a Singapore hospital
Authors: Lyu Ting , Khan Faheem Ahmed , Sajeed Shanaz Matthew , Kansal Amit , Kansal Monika Gulati , Dhanvijay Shekhar , Tan Rou An , D’Souza Jared , Cendana Ian , Leong Patricia , Tan Chee Keat 
Published: May 2021

Abstract
Background
COVID-19 pandemic has resulted in significant strain on healthcare resources and this requires diligent resource re-allocation. We aim to describe the incidence and outcomes of in-hospital cardiac arrest (IHCA) during this period as compared to non-pandemic period.

Methods
We conducted a retrospective study in a tertiary care hospital in Singapore. The study compared the incidence and outcomes of code blue activations over a 3-month period from March to May 2020 (COVID-19 period) with the same months in 2019 (pre-COVID-19 period). The primary outcome of the study was the rate of survival to hospital discharge for IHCA. The secondary outcomes included incidence of all code blue activation per 1000 hospital admissions, incidence of IHCA per 1000 hospital admissions.

Outcomes
The rate of survival to hospital discharge for IHCA was 5.88% in the COVID-19 period as compared to 10.0% in the pre-COVID-19 period [odds ratio (OR), 0.72; 95% confidence interval (CI), 0.26-1.95]. Compared to pre-COVID-19 period, there were more IHCA incidences per 1000 hospital admissions in the COVID-19 period (1.86 vs 1.03; OR, 1.81; 95% CI, 0.78-4.41).

Conclusions
The study observed a trend towards higher incidence of IHCA and lower rate of survival to hospital discharge during COVID-19 pandemic compared to pre-COVID-19 period.
Transgene behavior in genetically modified teosinte hybrid plants: transcriptome expression, insecticidal protein production and bioactivity against a target insect pest
Authors: Lohn André Felipe , Trtikova Miluse , Chapela Ignacio , Binimelis Rosa , Hilbeck Angelika 
Published: May 2021

Abstract
Background
In 2009, Spanish farmers reported a novel weed, now identified as a relative of maize’s ancestor, teosinte, in their maize fields. Introgression of the insect resistance transgene cry1Ab from genetically modified (GM) maize into populations of this weedy Spanish teosinte could endow it with additional defense mechanisms. The aims of this study were: (1) to test if hybridization between GM maize and weedy plants from Spain is possible; (2) to understand the relationship between transgene transcription activity, concentrations of the expected transgene product (Cry1Ab protein) and the bioactivity of the latter on target insect pests following transgene flow from GM maize into Spanish teosinte plants.

Results
We demonstrated that hybridization between GM maize and the weedy Spanish teosinte is possible, with no observable barrier to the formation of crop/weed hybrids when teosinte served as pollen donor. When GM maize plants were used as pollen donors, significant crossing incompatibility was observed: hybrid plants produced only few “normal” seeds. Nevertheless, viable F1 seeds from GM pollen crossed onto teosinte were indeed obtained. The cry1Ab transgene was stably expressed as mRNA in all crossings and backgrounds. Similarly, toxicity on neonate Ostrinia nubilalis, presumably due to Cry1Ab protein, was consistently expressed in teosinte hybrids, with mortality rates 95% or higher after only 4 days exposure, similar to rates on parental GM maize plants. Nevertheless, no strong correlations were observed between transgene transcription levels and Cry1Ab concentrations, nor between Cry1Ab concentrations and insect mortality rates across all of the different genetic backgrounds.

Conclusions
Our results establish fundamental parameters for environmental risk assessments in the European context: first, we show that crop/weed hybridization in fields where maize and teosinte exist sympatrically can lead to potentially catastrophic transfer of resistance traits into an already noxious weed; second, our results question the viability of using gene dosage to model and predict ecological performance in either the intended crop plant or the undesired teosinte weed. Significant questions remain that should be addressed in order to provide a scientific, sound approach to the management of this novel weed.
Post-traumatic exogenous endophthalmitis caused by Nocardia farcinica
Authors: Burdová Marie Česká , Donátová Kateřina , Mahelková Gabriela , Chrenková Vanda , Dotřelová Dagmar 
Published: May 2021

AbstractA case report of post-traumatic exogenous endophthalmitis caused by Nocardia farcinica, including treatment procedures, microbiology examination, and systemic medications. A 23-year-old male suffered a penetrating corneal injury that was treated with sutures. On the thirteenth day after the final suture was removed, an anterior uveitis developed and progressed to whitish, plump, nodular, and tufted exudates within the anterior chamber over the next 10 days; this led to an indication for intraocular surgery. Anterior chamber lavage and resection of solid fibrinous exudates (using a vitrectomy knife) for a complete microbiological examination were performed. Nocardia farcinica was identified. Systemic medications were chosen according to sensitivity, and a fixed combination of sulfamethoxazole 400 mg/trimethoprim 80 mg was administered long-term (months). In this case, accurate, early detection of an atypical infectious agent and determination of its sensitivity to antibiotic treatment enabled effective treatment that achieved the best functional and anatomical results under the circumstances.
Genomic prediction using a reference population of multiple pure breeds and admixed individuals
Authors: Karaman Emre , Su Guosheng , Croue Iola , Lund Mogens S. 
Published: May 2021

Abstract
Background
In dairy cattle populations in which crossbreeding has been used, animals show some level of diversity in their origins. In rotational crossbreeding, for instance, crossbred dams are mated with purebred sires from different pure breeds, and the genetic composition of crossbred animals is an admixture of the breeds included in the rotation. How to use the data of such individuals in genomic evaluations is still an open question. In this study, we aimed at providing methodologies for the use of data from crossbred individuals with an admixed genetic background together with data from multiple pure breeds, for the purpose of genomic evaluations for both purebred and crossbred animals. A three-breed rotational crossbreeding system was mimicked using simulations based on animals genotyped with the 50 K single nucleotide polymorphism (SNP) chip.

Results
For purebred populations, within-breed genomic predictions generally led to higher accuracies than those from multi-breed predictions using combined data of pure breeds. Adding admixed population’s (MIX) data to the combined pure breed data considering MIX as a different breed led to higher accuracies. When prediction models were able to account for breed origin of alleles, accuracies were generally higher than those from combining all available data, depending on the correlation of quantitative trait loci (QTL) effects between the breeds. Accuracies varied when using SNP effects from any of the pure breeds to predict the breeding values of MIX. Using those breed-specific SNP effects that were estimated separately in each pure breed, while accounting for breed origin of alleles for the selection candidates of MIX, generally improved the accuracies. Models that are able to accommodate MIX data with the breed origin of alleles approach generally led to higher accuracies than models without breed origin of alleles, depending on the correlation of QTL effects between the breeds.

Conclusions
Combining all available data, pure breeds’ and admixed population’s data, in a multi-breed reference population is beneficial for the estimation of breeding values for pure breeds with a small reference population. For MIX, such an approach can lead to higher accuracies than considering breed origin of alleles for the selection candidates, and using breed-specific SNP effects estimated separately in each pure breed. Including MIX data in the reference population of multiple breeds by considering the breed origin of alleles, accuracies can be further improved. Our findings are relevant for breeding programs in which crossbreeding is systematically applied, and also for populations that involve different subpopulations and between which exchange of genetic material is routine practice.
TrancriptomeReconstructoR: data-driven annotation of complex transcriptomes
Authors: Ivanov Maxim , Sandelin Albin , Marquardt Sebastian 
Published: May 2021

Abstract
Background
The quality of gene annotation determines the interpretation of results obtained in transcriptomic studies. The growing number of genome sequence information calls for experimental and computational pipelines for de novo transcriptome annotation. Ideally, gene and transcript models should be called from a limited set of key experimental data.

Results
We developed TranscriptomeReconstructoR, an R package which implements a pipeline for automated transcriptome annotation. It relies on integrating features from independent and complementary datasets: (i) full-length RNA-seq for detection of splicing patterns and (ii) high-throughput 5′ and 3′ tag sequencing data for accurate definition of gene borders. The pipeline can also take a nascent RNA-seq dataset to supplement the called gene model with transient transcripts.
We reconstructed de novo the transcriptional landscape of wild type Arabidopsis thaliana seedlings and Saccharomyces cerevisiae cells as a proof-of-principle. A comparison to the existing transcriptome annotations revealed that our gene model is more accurate and comprehensive than the most commonly used community gene models, TAIR10 and Araport11 for A.thaliana and SacCer3 for S.cerevisiae. In particular, we identify multiple transient transcripts missing from the existing annotations. Our new annotations promise to improve the quality of A.thaliana and S.cerevisiae genome research.

Conclusions
Our proof-of-concept data suggest a cost-efficient strategy for rapid and accurate annotation of complex eukaryotic transcriptomes. We combine the choice of library preparation methods and sequencing platforms with the dedicated computational pipeline implemented in the TranscriptomeReconstructoR package. The pipeline only requires prior knowledge on the reference genomic DNA sequence, but not the transcriptome. The package seamlessly integrates with Bioconductor packages for downstream analysis.
Characterizing the oligogenic architecture of plant growth phenotypes informs genomic selection approaches in a common wheat population
Authors: DeWitt Noah , Guedira Mohammed , Lauer Edwin , Murphy J. Paul , Marshall David , Mergoum Mohamed , Johnson Jerry , Holland James B. , Brown-Guedira Gina 
Published: May 2021

Abstract
Background
Genetic variation in growth over the course of the season is a major source of grain yield variation in wheat, and for this reason variants controlling heading date and plant height are among the best-characterized in wheat genetics. While the major variants for these traits have been cloned, the importance of these variants in contributing to genetic variation for plant growth over time is not fully understood. Here we develop a biparental population segregating for major variants for both plant height and flowering time to characterize the genetic architecture of the traits and identify additional novel QTL.

Results
We find that additive genetic variation for both traits is almost entirely associated with major and moderate-effect QTL, including four novel heading date QTL and four novel plant height QTL. FT2 and Vrn-A3 are proposed as candidate genes underlying QTL on chromosomes 3A and 7A, while Rht8 is mapped to chromosome 2D. These mapped QTL also underlie genetic variation in a longitudinal analysis of plant growth over time. The oligogenic architecture of these traits is further demonstrated by the superior trait prediction accuracy of QTL-based prediction models compared to polygenic genomic selection models.

Conclusions
In a population constructed from two modern wheat cultivars adapted to the southeast U.S., almost all additive genetic variation in plant growth traits is associated with known major variants or novel moderate-effect QTL. Major transgressive segregation was observed in this population despite the similar plant height and heading date characters of the parental lines. This segregation is being driven primarily by a small number of mapped QTL, instead of by many small-effect, undetected QTL. As most breeding populations in the southeast U.S. segregate for known QTL for these traits, genetic variation in plant height and heading date in these populations likely emerges from similar combinations of major and moderate effect QTL. We can make more accurate and cost-effective prediction models by targeted genotyping of key SNPs.