bluuebunny/crossref_metadata_2025_split huggingface dataset:
Efficient chromatin profiling of H3K4me3 modification in cotton using CUT&Tag
Authors: Tao Xiaoyuan , Feng Shouli , Zhao Ting , Guan Xueying 
Published: August 2020

Abstract
Background
In 2019, Kaya-Okur et al. reported on the cleavage under targets and tagmentation (CUT&Tag) technology for efficient profiling of epigenetically modified DNA fragments. It was used mainly for cultured cell lines and was especially effective for small samples and single cells. This strategy generated high-resolution and low-background-noise chromatin profiling data for epigenomic analysis. CUT&Tag is well suited to be used in plant cells, especially in tissues from which small samples are taken, such as ovules, anthers, and fibers.

Results
Here, we present a CUT&Tag protocol step by step using plant nuclei. In this protocol, we quantified the nuclei that can be used in each CUT&Tag reaction, and compared the efficiency of CUT&Tag with chromatin immunoprecipitation with sequencing (ChIP-seq) in the leaves of cotton. A general workflow for the bioinformatic analysis of CUT&Tag is also provided. Results indicated that, compared with ChIP-seq, the CUT&Tag procedure was faster and showed a higher-resolution, lower-background signal than did ChIP.

Conclusion
A CUT&Tag protocol has been refined for plant cells using intact nuclei that have been isolated.
Wrist movements induce torque and lever force in the scaphoid: an ex vivo study
Authors: Erhart Jochen , Unger Ewald , Schefzig Philip , Varga Peter , Hagmann Michael , Ristl Robin , Hajdu Stefan , Gormasz Anna , Sadoghi Patrick , Mayr Winfried 
Published: August 2020

Abstract
Purpose
We hypothesised that intercarpal K-wire fixation of adjacent carpal bones would reduce torque and lever force within a fractured scaphoid bone.

Methods
In eight cadaver wrists, a scaphoid osteotomy was stabilised using a locking nail, which also functioned as a sensor to measure isometric torque and lever forces between the fragments. The wrist was moved through 80% of full range of motion (ROM) to generate torque and force within the scaphoid. Testing was performed with and without loading of the wrist and K-wire stabilisation of the adjacent carpal bones.

Results
Average torque and lever force values were 49.6 ± 25.1 Nmm and 3.5 ± 0.9 N during extension and 41 ± 26.7 Nmm and 8.1 ± 2.8 N during flexion. Torque and lever force did not depend on scaphoid size, individual wrist ROM, or deviations of the sensor versus the anatomic axis. K-wire fixation did not produce significant changes in average torque and lever force values except with wrist radial abduction (P = 0.0485). Other than wrist extension, torque direction was not predictable.

Conclusion
In unstable scaphoid fractures, we suggest securing rotational stability with selected implants for functional postoperative care. Wrist ROM within 20% extension and radial abduction to 50% flexion limit torque and lever force exacerbation between scaphoid fragments.
The MAPK and AMPK signalings: interplay and implication in targeted cancer therapy
Authors: Yuan Jimin , Dong Xiaoduo , Yap Jiajun , Hu Jiancheng 
Published: August 2020

AbstractCancer is characterized as a complex disease caused by coordinated alterations of multiple signaling pathways. The Ras/RAF/MEK/ERK (MAPK) signaling is one of the best-defined pathways in cancer biology, and its hyperactivation is responsible for over 40% human cancer cases. To drive carcinogenesis, this signaling promotes cellular overgrowth by turning on proliferative genes, and simultaneously enables cells to overcome metabolic stress by inhibiting AMPK signaling, a key singular node of cellular metabolism. Recent studies have shown that AMPK signaling can also reversibly regulate hyperactive MAPK signaling in cancer cells by phosphorylating its key components, RAF/KSR family kinases, which affects not only carcinogenesis but also the outcomes of targeted cancer therapies against the MAPK signaling. In this review, we will summarize the current proceedings of how MAPK-AMPK signalings interplay with each other in cancer biology, as well as its implications in clinic cancer treatment with MAPK inhibition and AMPK modulators, and discuss the exploitation of combinatory therapies targeting both MAPK and AMPK as a novel therapeutic intervention.
Comprehensive analysis of the mechanism and treatment significance of Mucins in lung cancer
Authors: Ning Yue , Zheng Hongmei , Zhan Yuting , Liu Sile , yang Yang , Zang Hongjing , Luo Jiadi , Wen Qiuyuan , Fan Songqing 
Published: August 2020

AbstractAberrant expression of mucin proteins has played a complex and essential role in cancer development and metastasis. Members of the mucin family have been intimately implicated in lung cancer progression, metastasis, survival and chemo-resistance. During the progression of lung cancer, mucin proteins have involved all of the procession of lung cancer, which is interacted with many receptor tyrosine kinases signal pathways and mediated cell signals for tumor cell growth and survival. Mucins thus have been considerable as the indicator of negative prognosis and desirable therapeutic targets of lung cancers. In this review, we comprehensively analyzed the role of each member of the mucin family in lung cancer by combining open-accessed database analysis and assembling cutting-edge information about these molecules.
Cancer-derived exosomal TRIM59 regulates macrophage NLRP3 inflammasome activation to promote lung cancer progression
Authors: Liang Manman , Chen Xingwu , Wang Lijing , Qin Lilong , Wang Hanli , Sun Zhengui , Zhao Wenying , Geng Biao 
Published: August 2020

Abstract
Background
Exosomes are emerging as important mediators of the cross-talk between tumor cells and the microenvironment. The communication between tumor-derived exosomes and macrophages has a critical role in facilitating tumor progression. However, the mechanisms by which exosomes modulate tumor development in lung cancer are not fully understood.

Methods
Short hairpin RNA mediated knockdown or exogenous expression of TRIM59 combined with in vitro and in vivo assays were performed to prove the functional significance of TRIM59. Western blotting, real-time PCR, co-immunoprecipitation, immunofluorescence (IF) staining assays, proximity ligation assay (PLA), ubiquitination assays, lactate secretion and lipid droplets content measurement, and rescue experiments were used to evaluate the mechanism. Lewis lung carcinoma (LLC) cells were injected via subcutaneously or tail vein into C57BL/6 wild-type (WT) and transgenic mice to assess the role of TRIM59 in vivo.

Results
We demonstrated that tripartite motif-containing 59 (TRIM59) was expressed in lung cancer cells-derived exosomes, and can be transferred to macrophages through the exosomes. Activated macrophages by TRIM59 promote lung cancer progression in vitro and in vivo. Mechanistic investigations revealed that TRIM59 physically interacts with abhydrolase domain containing 5 (ABHD5) and directly induced the ubiquitination of ABHD5 and led to its proteasome-dependent degradation. ABHD5, an lipolytic co-activator, deficiency induced metabolic reprogramming and enabled NLRP3 inflammasome activation in macrophages. Further studies showed that the exacerbation of NLRP3 inflammasome activation by ABHD5 deficiency, provides a positive feedback loop to promote cancer progression by preferentially secrete the proinflammatory cytokine IL-1β.

Conclusions
Collectively, these data indicate that tumor-derived exosomal TRIM59 converts macrophages to tumor-promoting functions of macrophages via regulating ABHD5 proteasomal degradation, to activate NLRP3 inflammasome signaling pathway to promote lung cancer progression by IL-1β secretion. Our findings also indicate that tumor-derived exosomal TRIM59 has an important role in intercellular communication for fostering an inflammatory microenvironment and promoting lung metastasis.
Knockdown of ribosomal protein S6 suppresses proliferation, migration, and invasion in epithelial ovarian cancer
Authors: Yang Xueqing , Xu Luxi , Yang Yu-e , Xiong Chang , Yu Jinjin , Wang Yuan , Lin Yaying 
Published: August 2020

Abstract
Background
Ovarian cancer typically is diagnosed late because insensitivity and lack of specificity of current biomarkers prior to its clinical detection. Ribosomal protein S6 (RPS6) is a ribosomal protein involved in the ribosomal 40S subunit, but its biological role in epithelial ovarian cancer (EOC) is still unknown.

Results
RPS6 was elevated in EOC compared to normal ovarian tissues and adenomas. Higher expression of RPS6 predicted worse prognosis in EOC. The level of RPS6 was correlated with clinical stage, histological type and pathological grade. Knockdown of RPS6 reduced the proliferation of ovarian cancer cell lines SKOV-3 and HO8910, and inhibit the migration and invasion ability. It revealed that cells arrested at G0G1 phase after knockdown of RPS6, and the expressions of CyclinD1, Cyclin E, CDK2, CDK4, CDK6 and pRb were also reduced.

Conclusions
RPS6 is involved in EOC and knockdown of RPS6 could inhibit the proliferation, invasion and migration ability of EOC in vitro by inducing G0/G1 phase arrest. RPS6 is expected to be a novel biomarker and molecular target to the EOC.
Transcriptome analysis of Aedes aegypti Aag2 cells in response to dengue virus-2 infection
Authors: Li Man-jin , Lan Ce-jie , Gao He-ting , Xing Dan , Gu Zhen-yu , Su Duo , Zhao Tong-yan , Yang Hui-ying , Li Chun-xiao 
Published: August 2020

Abstract
Background
Dengue virus (DENV) is a flavivirus transmitted by mosquitoes that is prevalent in tropical and subtropical countries and has four serotypes (DENV1-4). Aedes aegypti, as the main transmission vector of DENV, exhibits strong infectivity and transmission. With the aim of obtaining a better understanding of the Ae. aegypti-DENV interaction, the transcriptome changes in DENV-2-infected Aag2 cells were studied to describe the immune responses of mosquitoes using the Ae. aegypti Aag2 cell line as a model.

Methods
RNAseq technology was used to sequence the transcripts of the Ae. aegypti Aag2 cell line before and after infection with DENV-2. A bioinformatics analysis was then performed to assess the biological functions of the differentially expressed genes, and the sequencing data were verified by quantitative reverse transcription-polymerase chain reaction (qRT-PCR).

Results
The transcriptome analysis generated 8866 unigenes that were found in both groups, 225 unigenes that were only found in the infection group, and 683 unigenes that only existed in the control group. A total of 1199 differentially expressed genes, including 1014 upregulated and 185 downregulated genes, were identified. The bioinformatics analysis showed that the differentially expressed genes were mainly involved in the longevity regulating pathway, circadian rhythm, DNA replication, and peroxisome, purine, pyrimidine, and drug metabolism. The qRT-PCR verification results showed the same trend, which confirmed that the expression of the differentially expressed genes had changed, and that the transcriptome sequencing data were reliable.

Conclusions
This study investigated the changes in the transcriptome levels in the DENV-2-infected Ae. aegypti Aag2 cell line, which provides a faster and effective method for discovering genes related to Ae. aegypti pathogen susceptibility. The findings provide basic data and directions for further research on the complex mechanism underlying host-pathogen interactions.
Diminished expression of major histocompatibility complex facilitates the use of human induced pluripotent stem cells in monkey
Authors: Wang Xiaokai , Lu Meng , Tian Xiaoyu , Ren Yansong , Li Yijun , Xiang Meng , Chen Sifeng 
Published: August 2020

Abstract
Background
Stem cells, including induced pluripotent stem cells (iPSCs), have tremendous potential in health care, though with several significant limitations. Each of the limitations, including immunogenicity, may block most of the therapeutic potentials. Beta2 microglobulin (B2M) and MHC II transactivator (CIITA) are critical for MHC I and II, respectively. MHCs are responsible for immunogenic recognition.

Methods
B2M and CIITA were knocked out from human iPSCs, either separately or simultaneously. The effects of single or dual knockout of B2M and CIITA on iPSC properties were evaluated in a xenogeneic model of human-to-monkey transplantation.

Results
B2M or CIITA knockout in human induced pluripotent stem cells (iPSCs) diminishes the expression of MHC I or II alleles, respectively, without changing iPSC pluripotency. Dual knockout was better than either single knockout in preserving the ability of human iPSCs to reduce infiltration of T and B lymphocytes, survive, and promote wound healing in monkey wound lesions. The knockouts did not affect the xenogeneic iPSC-induced infiltration of macrophages and natural killer cells. They, however, decreased the iPSC-promoted proliferation of allogeneic peripheral blood mononuclear cells and T lymphocytes in vitro, although not so for B lymphocytes isolated from healthy human donors. Although the dual knockout cells survived long enough for suiting therapeutic needs, the cells eventually died, possibly due to innate immune response against them, thereby eliminating long-term risks.

Conclusions
Having these iPSCs with diminished immunogenicity-recognizable to allogeneic recipient may provide unlimited reproducible, universal, standardized “ready-to-use” iPSCs and relevant derivatives for clinical applications.
Vagal α7nAChR signaling regulates α7nAChR+Sca1+ cells during lung injury repair
Authors: Chen Xiaoyan , Chen Jie , Song Yuanlin , Su Xiao 
Published: August 2020

AbstractBackgroundThe distal airways of the lung and bone marrow are innervated by the vagus nerve. Vagal α7nAChR signaling plays a key role in regulating lung infection and inflammation; however, whether this pathway regulates α7nAChR+Sca1+cells during lung injury repair remains unknown. We hypothesized that vagal α7nAChR signaling controls α7nAChR+Sca1+cells, which contribute to the resolution of lung injury.MethodsPneumonia was induced by intratracheal challenge withE. coli. The bone marrow mononuclear cells (BM-MNCs) were isolated from the bone marrow of pneumonia mice for immunofluorescence. The bone marrow, blood, BAL, and lung cells were isolated for flow cytometric analysis by labeling with anti-Sca1, VE-cadherin, p-Akt1, or Flk1 antibodies. Immunofluorescence was also used to examine the coexpression of α7nAChR, VE-cadherin, and p-Akt1. Sham, vagotomized, α7nAChR knockout, and Akt1 knockout mice were infected withE. colito study the regulatory role of vagal α7nAChR signaling and Akt1 in Sca1+cells.ResultsDuring pneumonia, BM-MNCs were enriched with α7nAChR+Sca1+cells, and this cell population proliferated. Transplantation of pneumonia BM-MNCs could mitigate lung injury and increase engraftment in recipient pneumonia lungs. Activation of α7nAChR by its agonist could boost α7nAChR+Sca1+cells in the bone marrow, peripheral blood, and bronchoalveolar lavage (BAL) in pneumonia. Immunofluorescence revealed that α7nAChR, VE-cadherin, and p-Akt1 were coexpressed in the bone marrow cells. Vagotomy could reduce α7nAChR+VE-cadherin+and VE-cadherin+p-Akt1+cells in the bone marrow in pneumonia. Knockout of α7nAChR reduced VE-cadherin+cells and p-Akt1+cells in the bone marrow. Deletion of Akt1 reduced Sca1+cells in the bone marrow and BAL. More importantly, 91.3 ± 4.9% bone marrow and 77.8 ± 4.9% lung α7nAChR+Sca1+VE-cadherin+cells expressed Flk1, which is a key marker of endothelial progenitor cells (EPCs). Vagotomy reduced α7nAChR+Sca1+VE-cadherin+p-Akt1+cells in the bone marrow and lung from pneumonia mice. Treatment with cultured EPCs reduced ELW compared to PBS treatment inE. colipneumonia mice at 48 h. The ELW was further reduced by treatment with EPCs combining with α7nAChR agonist-PHA568487 compared to EPC treatments only.ConclusionsVagal α7nAChR signaling regulates α7nAChR+Sca1+VE-cadherin+EPCs via phosphorylation of Akt1 during lung injury repair in pneumonia.
spyrmsd: symmetry-corrected RMSD calculations in Python
Authors: Meli Rocco , Biggin Philip C. 
Published: August 2020

AbstractRoot mean square displacement (RMSD) calculations play a fundamental role in the comparison of different conformers of the same ligand. This is particularly important in the evaluation of protein-ligand docking, where different ligand poses are generated by docking software and their quality is usually assessed by RMSD calculations. Unfortunately, many RMSD calculation tools do not take into account the symmetry of the molecule, remain difficult to integrate flawlessly in cheminformatics and machine learning pipelines—which are often written in Python—or are shipped within large code bases. Here we present a new open-source RMSD calculation tool written in Python, designed to be extremely lightweight and easy to integrate into existing software.
Fermented Astragalus in diet improved laying performance, egg quality, antioxidant and immunological status and intestinal microbiota in laying hens
Authors: Shi Hong-Tao , Wang Bai-Yu , Bian Chuan-Zhou , Han Ying-Qian , Qiao Hong-Xing 
Published: August 2020

AbstractIn the era of increased antibiotic resistance and ever-stricter control on antibiotic use, it is urgent to develop green, safe, and non-residue alternatives to antibiotics applied to the poultry industry. To this end, we supplied the potential Lactobacillus plantarum (L. plantarum) fermented Astragalus in the diet of laying hens, with a final addition of 3‰. Its effects have been assessed on laying performance, egg quality, antioxidant and immunological status, and intestinal microbiota, and are compared to the control group, to the Astragalus group containing 3‰ unfermented Astragalus, and to the L. plantarum group containing 2% L. plantarum [5 × 108 colony-forming unit (CFU) per milliliter (mL)]. During the second half of the experimental period (15 to 28 days), the egg production rate was considerably higher in the fermented Astragalus group than that in the other groups, with the fermented Astragalus group having the lowest feed conversion ratio. No significant difference (P > 0.05) was noted among treatments on egg quality. Fermented Astragalus-treated hens exhibited significantly increased catalase (CAT), glutathione peroxidase (GSH-Px), superoxide dismutase (SOD) and total antioxidant capacity (T-AOC) in serum, and reduced malondialdehyde (MDA) in serum. Furthermore, fermented Astragalus supplementation resulted in a significant increase in ileal microbiota abundance relative to control. In conclusion, feeding laying hens with L. plantarum fermented Astragalus has beneficial effects on production, antioxidant potential, immunity, and ileal microbiota. L. plantarum fermented Astragalus is expected to be a novel feed additive used in poultry production.
Application of seismic multi-attribute inversion based on wireless network sensor in Dongying delta foreset
Authors: YuanyuanWang  , CuiWang  
Published: August 2020

AbstractSeismic attributes, which are extracted from seismic information, are physical indexes used specifically for the measurement of geometric, dynamic, or statistical characteristics of seismic data. Current methods for seismic multi-attribute inversion include linear and nonlinear methods. By adopting the wireless module of NFC24l01, combined with the seismic data acquisition sensor, constitutes an intelligent network sensor, and then it sends the collected data to the topmost machine for analysis. Methods for the nonlinear inversion of seismic multi-attributes usually employ tools such as neural networks and support vector machines (SVMs) for mapping. Hence, inversion results obtained via nonlinear methods are more accurate than those obtained via linear methods. In this work, with spontaneous-potential (SP) curves as the objective of nonlinear inversion, an optimized seismic attribute combination for the inversion of SP curves was identified, and the nonlinear inversion of seismic multi-attributes was achieved via the use of a deep neural network (DNN) to obtain 3D SP data. Finally, the foresetting process of a sand body of the intermediate section in Member 3 of the Shahejie Formation in the Dongying Delta was illustrated via the horizon slice of the SP data.
Market development and consequences on end-of-life management of photovoltaic implementation in Europe
Authors: Franz Manuela , Piringer Gerhard 
Published: August 2020

Abstract
Background
The 2018 European Renewables Directive sets a binding target of 32% of renewable energy generation by 2030. Free-field photovoltaic plants are characterised by significant land use and material flows. Although country-level data on installed power is available, information about the spatial distribution of PV plants is rare. When the first photovoltaic systems will reach their end-of-life on a large scale in 2035, economic, technological and ecological challenges will arise.

Methods
The study explores the market development of photovoltaic power in the EU countries from 2008 to 2017 by preparing statistical data and Google mapping of free-field PV plants. Different approaches to assessing the land use of free-field PV systems compared to other energy systems are investigated. A comprehensive literature review addresses key issues of PV module waste treatment, hazardous constituents and their leakage in case of module breakage as well as financial issues of decommissioning and recycling and re-use of used modules.

Results
Most of the European PV electrical energy is generated by approximately 17,000 widely distributed free-field plants predominantly installed in lowlands. A local in-depth study shows that roof-top plants contribute less than 5% to the total PV energy generation in an area without extensive expansion to industrial buildings. Small amounts of hazardous substances that are typically present in PV modules are unlikely to affect the environment during normal operation of the system, but the question of leakage from broken end-of-life modules is not sufficiently clarified. While in the EU, the recycling and disposal costs are covered by producer fees and expected raw material profits; the financing of the decommissioning of thousands of PV free-field plants is still an open issue.

Conclusions
The land use of free-field PV systems should be analysed in more detail. Concerning hazardous substances, there seems to be an emerging consensus in literature that the leaching behaviour of metals from broken PV module pieces is inadequately simulated by current waste characterisation protocols. It is recommended to pay greater attention to financing the decommissioning of free-field commercial and industrial scale PV systems.
Coupled Effect of Temperature and Strain Rate on Mechanical Properties of Steel Fiber-Reinforced Concrete
Authors: Huang Ruiyuan , Li Shichao , Meng Long , Jiang Dong , Li Ping 
Published: August 2020

AbstractThe dynamic mechanical properties of steel fiber-reinforced concrete (SFRC) under high temperature and high strain rate were studied using a split Hopkinson pressure bar (SHPB) of 74 mm in diameter. As it is difficult to achieve constant strain rate loading in SHPB experiments with high temperature and high strain rate, this paper first presents a method for determining the strain rate under non-constant strain rate loading conditions. This method is proposed to deal with experimental data under non-constant strain rate loading conditions. Then, the influences of temperature on the ultimate compressive strength, peak strain, and failure modes of SFRC under different strain rates were analyzed and the results show that SFRC has a strain rate hardening effect. This paper also points out that there is a strain rate threshold for SFRC. If the strain rate is less than the strain rate threshold, there is a temperature softening effect. Conversely, if the strain rate is greater than the strain rate threshold, there is a temperature hardening effect. Finally, the relationship between the ultimate compressive strength and fiber volume fraction, strain rate, and temperature is presented and the prediction results are consistent with the experimental data.