bluuebunny/crossref_metadata_2025_split huggingface dataset:
Experimental investigation of the impact of liquid carbon dioxide injection on temperature in pulverized coal
Authors: Yu Zhijin , Yang Song , Wen Hu , Deng Jun 
Published: January 2020

AbstractUsing liquid carbon dioxide (LCO2) as a medium for underground coal fires prevention and control, while reducing the emissions of CO2, is a promising option for CO2 utilization worldwide. However, the mechanism of LCO2 flow with phase transition on coal temperature is still not clear. In this work, an experimental system was designed and fabricated to investigate the phase transition behavior and temperature variation during injecting LCO2 into pulverized coal and the impact of mass flow rate, nozzle diameter, and injection pressure on cooling effect. The results indicate that when LCO2 was injected into the pulverized coal, the instantaneous phase change into solid and vapor occurred just after leaving the release port. An intensive heat transfer process occurred because of the throttling effect, flashing effect, and sublimation and thereby formed a cooling area (<−56.6°C), which was the main area of cooling effect and phase transition; as injection time increases, the range of this area increases in the form of logarithmic function. In addition, the cooling area exhibited a strong dependence on the injection conditions, and its correlation with mass flow rate, nozzle diameter, and injection pressure are identified as exponential, logarithmic, and linear relationship by dimensionless analysis, respectively. Meanwhile, an empirical formula was developed for calculating the cooling effect under various injection conditions. In summary, the experiments provided fundamental data and regime for predicting the effect of LCO2 injection on the temperature of pulverized coal, which can be used to guide the utilization of LCO2 for coal fires prevention. © 2020 Society of Chemical Industry and John Wiley & Sons, Ltd.
Engineering a collagen matrix for cell‐instructive regenerative angiogenesis
Authors: Minor Alicia J. , Coulombe Kareen L. K. 
Published: January 2020

AbstractEngineering an angiogenic material for regenerative medicine requires knowledge of native extracellular matrix remodeling by cellular processes in angiogenesis. Vascularization remains a key challenge in the field of tissue engineering, one that can be mitigated by developing platforms conducive to guiding dynamic cell‐matrix interactions required for new vessel formation. In this review, we highlight nuanced processes of angiogenesis and demonstrate how materials engineering is being used to interface with dynamic type I collagen remodeling, Notch and VEGF signaling, cell migration, and tissue morphogenesis. Because α1(I)‐collagen is secreted by endothelial tip cells during sprouting angiogenesis and required for migration, collagen is a very useful natural biomaterial and its angiogenic modifications are described. The balance between collagen types I and IV via secretion and degradation is tightly controlled by proteinases and other cell types that are capable of internalizing collagen to maintain tissue integrity. Thus, we provide examples in skin and cardiac tissue engineering of collagen tailoring in diverse cellular microenvironments for tissue regeneration. As our understanding of how to drive collagen remodeling and cellular phenotype through angiogenic pathways grows, our capabilities to model and manipulate material systems must continue to expand to develop novel applications for wound healing, angiogenic therapy, and regenerative medicine.
Theoretical analysis of the kinetic isotope effect on carboxylation in RubisCO
Authors: Jiang Tianlong , Moriwaki Kenta , Kobayashi Osamu , Ishimura Kazuya , Danielache Sebastian O. , Nanbu Shinkoh 
Published: January 2020

AbstractRibulose‐1,5‐bisphosphate carboxylase/oxygenase (RubisCO) fixes atmospheric carbon dioxide into bioavailable sugar molecules. It is also well known that a kinetic isotope effect (KIE; CO2 carbon atoms) accompanies the carboxylation process. To describe the reaction and the KIE α, two different types of molecular dynamics (MD) simulations (ab initio MD and classical MD) have been performed with an Own N‐layered Integrated molecular Orbitals and molecular Mechanics (ONIOM)‐hybrid model. A channel structure for CO2 transport has been observed during the MD simulation in RubisCO, and assuming the reaction path from the inlet to the product through the coordinate complex with Mg2+, simulations have been performed on several molecular configuration models fixing several distances between CO2 and ribulose‐1,5‐bisphosphate along the channel. Free energy analysis and diffusion coefficient analysis have been evaluated for different phases of the process. It is confirmed that the isotopic fractionation effect for CO2 containing either 13C or 12C would appear through the transiting path in the channel structure identified in RubisCO. The estimated isotope fractionation constant was quite close to the experimental value.
Comprehensive analysis of pseudogene HSPB1P1 and its potential roles in hepatocellular carcinoma
Authors: Tang Dongyang , Zhao Xin , Zhang Li , Wang Cheng 
Published: January 2020

AbstractThe incidence and mortality rate of hepatocellular carcinoma (HCC) nowadays is still at high levels. The regulatory roles of pseudogene in cancers have been gradually recognized in recent years. However, comprehensive investigation of abnormally expressed pseudogene and related mechanisms in HCC remains lacking. GSE124535 dataset was used to identify differentially expressed pseudogenes in HCC tissues compared with normal tissues. Prognostic value of these differentially expressed pseudogenes was analyzed at GEPIA. StarBase used to analyze microRNAs (miRNAs) can bind with pseudogene, while the targets for these miRNAs were analyzed at miRTarBase. Protein–protein interaction (PPI) network was then established for miRNA targets, after that hub genes were selected. Expression correlation of pseudogene and hub genes was analyzed at StarBase. In total, 16 upregulated and 17 downregulated pseudogenes were identified. Pseudogene HSPB1P1 was identified abnormally expressed in 20 types of human cancers and could be used as an indicator for poorer overall survival of patients with HCC. Functional analyses showed that HSPB1P1 was strongly correlated with signaling pathways related to cancer progression. Further studied revealed that HSPB1P1 could direct regulate the EZH2 expression in HCC. In summary, our study indicated that HSPB1P1 was a predictor for poorer overall survival of patients with HCC and may be potential therapeutic target against HCC.
CDC6 regulates both G2/M transition and metaphase‐to‐anaphase transition during the first meiosis of mouse oocytes
Authors: Yi Zi‐Yun , Meng Tie‐Gang , Ma Xue‐Shan , Li Jian , Zhang Chun‐Hui , Ouyang Ying‐Chun , Schatten Heide , Qiao Jie , Sun Qing‐Yuan , Qian Wei‐Ping 
Published: January 2020

AbstractCell division cycle protein, CDC6, is essential for the initiation of DNA replication. CDC6 was recently shown to inhibit the microtubule‐organizing activity of the centrosome. Here, we show that CDC6 is localized to the spindle from pro‐metaphase I (MI) to MII stages of oocytes, and it plays important roles at two critical steps of oocyte meiotic maturation. CDC6 depletion facilitated the G2/M transition (germinal vesicle breakdown [GVBD]) through regulation of Cdh1 and cyclin B1 expression and CDK1 (CDC2) phosphorylation in a GVBD‐inhibiting culture system containing milrinone. Furthermore, GVBD was significantly decreased after knockdown of cyclin B1 in CDC6‐depleted oocytes, indicating that the effect of CDC6 loss on GVBD stimulation was mediated, at least in part, by raising cyclin B1. Knockdown of CDC6 also caused abnormal localization of γ‐tubulin, resulting in defective spindles, misaligned chromosomes, cyclin B1 accumulation, and spindle assembly checkpoint (SAC) activation, leading to significant pro‐MI/MI arrest and PB1 extrusion failure. These phenotypes were also confirmed by time‐lapse live cell imaging analysis. The results indicate that CDC6 is indispensable for maintaining G2 arrest of meiosis and functions in G2/M checkpoint regulation in mouse oocytes. Moreover, CDC6 is also a key player regulating meiotic spindle assembly and metaphase‐to‐anaphase transition in meiotic oocytes.
Sphingosine kinase 1 promotes cerebral ischemia‐reperfusion injury through inducing ER stress and activating the NF‐κB signaling pathway
Authors: Zhang Mingming , Zhou Dingzhou , Ouyang Zhu , Yu Mengqiang , Jiang Yugang 
Published: January 2020

AbstractEndoplasm reticulum stress and inflammation response have been found to be linked to cerebral ischemia‐reperfusion (IR) injury. Sphingosine kinase 1 (SPHK1) has been reported to be a novel endoplasm reticulum regulator. The aim of our study is to figure out the role of SPHK1 in cerebral IR injury and verify whether it has an ability to regulate inflammation and endoplasm reticulum stress. Hydrogen peroxide was used to induce cerebral IR injury. Enzyme‐linked immunosorbent assay, quantitative polymerase chain reaction, western blots, and immunofluorescence were used to measure the alterations of cell viability, inflammation response, and endoplasm reticulum stress. The results demonstrated that after exposure to hydrogen peroxide, cell viability was reduced whereas SPHK1 expression was significantly elevated. Knockdown of SPHK1 attenuated hydrogen peroxide‐mediated cell death and reversed cell viability. Our data also demonstrated that SPHK1 deletion reduced endoplasm reticulum stress and alleviated inflammation response in hydrogen peroxide‐treated cells. In addition, we also found that SHPK1 modulated endoplasm reticulum stress and inflammation response to through the NF‐κB signaling pathway. Inhibition of NF‐κB signaling pathway has similar results when compared with the cells with SPHK1 deletion. Altogether, our results demonstrated that SPHK1 upregulation, induced by hydrogen peroxide, is responsible for cerebral IR injury through inducing endoplasm reticulum stress and inflammation response in a manner working through the NF‐κB signaling pathway. This finding provides new insight into the molecular mechanism to explain the neuron death induced by cerebral IR injury.
Circular RNA; a new biomarker for breast cancer: A systematic review
Authors: Jahani Shima , Nazeri Elahe , Majidzadeh‐A Keivan , Jahani Mona , Esmaeili Rezvan 
Published: January 2020

AbstractCircular RNAs (circRNAs) were recently discovered as a looped subset of competing endogenous RNAs, with an ability to regulate gene expression by microRNA sponging. There are several studies on their potential roles in cancer development, such as colorectal cancer and basal cell carcinoma. However, there is still a significant gap in the knowledge about circRNA functions in breast cancer (BC) progression. The current study systematically reviewed circRNA biogenesis and their potential roles as a novel biomarker in BC on published studies of the MEDLINE®/PubMed, Cochrane®, and Scopus® databases. The obtained results showed a general dysregulation of circRNAs expression in BC cells with a cell‐type and stage‐specific manner. The potential connection between circRNAs and BC cell proliferation, apoptosis, metastasis, and chemotherapy sensitivity and resistance were discussed.
Ferroptotic agent‐induced endoplasmic reticulum stress response plays a pivotal role in the autophagic process outcome
Authors: Lee Young‐Sun , Kalimuthu Kalishwaralal , Seok Park Yong , Makala Hima , Watkins Simon C. , Choudry M. Haroon A. , Bartlett David L. , Tae Kwon Yong , Lee Yong J. 
Published: January 2020

AbstractFerroptosis has been reported as a unique form of cell death. However, in recent years, researchers have increasingly challenged the uniqueness of ferroptosis compared to other types of cell death. In this study, we examined whether ferroptosis shares cell death pathways with other types of cell death, especially autophagy, via the autophagic process. Here, we observed that ferroptosis inducers (artesunate [ART] and erastin [ERA]) and autophagy inducers (bortezomib [BOR] and XIE62‐1004) led to autophagosome formation via the endoplasmic reticulum (ER) stress response. Unlike XIE62‐1004, ART, ERA, and BOR, which affect glutathione production or utilization, induced oxidative stress responses—an increase in the levels of heme oxygenase‐1 and lipid peroxidation. Oxidative stress responses were attenuated by deletion of autophagy‐related gene‐5 or treatment with autophagy inhibitors (bafilomycin and chloroquine). Our studies provide an overview of common death pathways—the ER stress response‐associated autophagic process in ferroptosis and autophagy. We also highlight the role played by glutathione redox system in the outcome of the autophagic process.
(Curcumin+sildenafil) enhances the efficacy of 5FU and anti‐PD1 therapies in vivo
Authors: Dent Paul , Booth Laurence , Roberts Jane L. , Poklepovic Andrew , Hancock John F. 
Published: January 2020

AbstractWe have extended our analyses of (curcumin+sildenafil) biology. The drug combination caused vascularization and degradation of mutant K‐RAS that correlated with reduced phosphorylation of ERK1/2, AKT T308, mTORC1, mTORC2, ULK1 S757, STAT3, STAT5, and NFκB and increased phosphorylation of eIF2α, ATM, AMPKα, ULK1 S317; all concomitant with elevated ATG13 S318 phosphorylation and autophagosome formation. Prior studies with drug combinations utilizing sildenafil have delineated an ATM‐AMPK‐ULK1 S317 pathway and an AKT‐mTOR‐ULK1 S757 pathway as modules which control ATG S318 phosphorylation and autophagosome formation. The knockdown of PKG reduced cell killing as well as reducing drug‐enhanced phosphorylation of ATM, AMPKα, and ATG13. In the absence of PKG, no significant increase in ULK1 S317 phosphorylation was observed. In a Beclin1‐dependent fashion, the drug combination reduced the expression of multiple histone deacetylase (HDAC) proteins, including HDAC2 and HDAC3. Molecular knockdown of HDAC2, HDAC3, and especially (HDAC2+HDAC3) significantly reduced the expression of PD‐L1 and elevated expression of Class I human major histocompatibility complex. In vivo, (curcumin+sildenafil) enhanced the efficacy of 5‐flurouracil against CT26 colorectal tumors. Prior exposure of established CT26 tumors to (curcumin+sildenafil) significantly enhanced the efficacy of a subsequently administered anti‐PD‐1 antibody. Collectively our data argue that (curcumin+sildenafil) has the potential in several settings to be an efficacious neoadjuvant therapy for colon cancer.
Ribonuclease A modification with poly[N‐(2‐hydroxypropyl)methacrylamide] copolymers: new route of synthesis and purification
Authors: Sánchez‐Trasviña Calef , Mayolo‐Deloisa Karla , Rito‐Palomares Marco 
Published: January 2020

AbstractBACKGROUNDN‐(2‐Hydroxypropyl)methacrylamide (HPMA), a synthetic polymer, has biocompatible features that allow it to be used as a drug carrier and used in drug delivery systems; however, its potential as a protein drug carrier has not been completely exploited. This study provides a new conjugation pathway to obtain HPMA–protein conjugates and, the use of hydrophobic interaction chromatography (HIC) to separate polymer–protein conjugates exploiting the hydrophobicity change on the protein surface due to the conjugation. In this work, Ribonuclease A (RNase A, EC 3.1.27.5), with recognized therapeutic properties, was used as a model protein.RESULTSHPMA was copolymerized with N‐(3‐aminopropyl)methacrylamide (APMA) and then activated with glutaraldehyde. The activation process raises copolymer hydrophobicity. Additionally, the HPMA–RNase A conjugation reaction was carried out at pH 5.1 through reductive amination. At higher copolymer molecular weight (> 50 kDa), the conjugation does not occur whereas molecular weights between 30 and 50 kDa promote the conjugation reaction. The native protein was separated from modified protein using HIC and conjugates with a narrow molecular weight were obtained.CONCLUSIONSRNase A can be conjugated with HPMA–APMA copolymer, activated with glutaraldehyde, through reductive amination. This represents an alternative to previous conjugation reactions. Moreover, the molecular size of the copolymer impacts strongly in the conjugation reaction. The HPMA–RNase A conjugates can be separated employing HIC and, it is possible to obtain conjugates with a narrow molecular weight dispersion. This work proposes a new conjugation pathway and purification process in route to developing chromatographic alternatives to efficiently separate HPMA–protein conjugates. © 2020 Society of Chemical Industry
Retracted: Design and synthesis of a bismethylsulfanyl‐steroid‐azetyl butanol derivative from 2‐nitroestradiol
Authors: Lauro Figueroa‐Valverde , Francisco Diaz C. , Maria Lopez‐Ramos , Rolando Garcia‐Martinez , Marcela Rosas‐Nexticapa , Virginia Mateu‐Armand , Alejandra Garcimarero‐Espino E. , Yaritza Borges‐Ballote , Yazmin Ortiz‐Ake 
Published: January 2020

AbstractSeveral studies for the synthesis of polycyclic derivatives have been reported; however, there is little information on the preparation of steroid‐polycyclic derivatives. In this way, the aim of this study was to synthesize a bismethylsulfanyl‐steroid‐azetyl butanol derivative (compound 10) from 2‐nitroestrone. The chemical structure was evaluated through both 1H NMR and 13C NMR or spectroscopic analysis. The results showed a good yielding from 10. It is noteworthy that the reagents used in this investigation are not expensive and do not require special conditions for handling.
RIP1 kinase activity is critical for skin inflammation but not for viral propagation
Authors: Webster Joshua D. , Kwon Youngsu C. , Park Summer , Zhang Hua , Corr Nick , Ljumanovic Nina , Adedeji Adeyemi O. , Varfolomeev Eugene , Goncharov Tatiana , Preston Jessica , Santagostino Sara F. , Patel Snahel , Xu Min , Maher Jonathan , McKenzie Brent S. , Vucic Domagoj 
Published: January 2020

Abstract
Receptor interacting protein kinase 1 (RIP1) is a critical effector of inflammatory responses and cell death activation. Cell death pathways regulated by RIP1 include caspase-dependent apoptosis and caspase-independent necroptosis. The kinase activity of RIP1 has been associated with a number of inflammatory, neurodegenerative, and oncogenic diseases. In this study, we use the RIP1 kinase inhibitor GNE684 to demonstrate that RIP1 inhibition can effectively block skin inflammation and immune cell infiltrates in livers of Sharpin mutant (Cpdm; chronic proliferative dermatitis) mice in an interventional setting, after disease onset. On the other hand, genetic inactivation of RIP1 (RIP1 KD) or ablation of RIP3 (RIP3 KO) or MLKL (MLKL KO) did not affect testicular pathology of aging male mice. Likewise, infection with vaccinia virus or with mouse gammaherpesvirus MHV68 resulted in similar viral clearance in wild-type, RIP1 KD, and RIP3 KO mice. In summary, this study highlights the benefits of inhibiting RIP1 in skin inflammation, as opposed to its lack of relevance for testicular longevity and the response to certain viral infections.
The embryo of the silky shrew opossum, Caenolestes fuliginosus (Tomes, 1863): First description of the embryo of Paucituberculata
Authors: González Baltazar , Soria‐Escobar Ana M. , Rojas‐Díaz Vladimir , Pustovrh María Carolina , Salazar Monsalve Liliana , Rougier Guillermo W. 
Published: January 2020

AbstractThe development of caenolestid marsupials (order Paucituberculata) is virtually unknown. We provide here the first description of Caenolestes fuliginosus embryos collected in the Colombian Central Andes. Our sample of four embryos comes from a single female caught during a fieldtrip at Río Blanco (Manizales, Caldas), in 2014. The sample was processed for macroscopic description using a Standard Event System and for histological descriptions (sectioning and staining). The grade of development of the lumbar flexure and coelomic closure differed between embryos, two of them being more advanced than the others (similar to McCrady's stages 30 and 29, respectively). The pericardial and peritoneal cavities were present, the hepatic anlage was organized in hepatic cords, the heart was in its final position, and the mesonephros was functional. Compared to other Neotropical marsupials, an early appearance of the frontonasal‐maxillary fusion and the cervical growth (thickness) was observed; however, absorption of the pharyngeal arches into the body and lung development was delayed. Besides these differences, embryos were similar to equivalent stages in Didelphis virginiana and Monodelphis domestica. Previous proposals of litter size of four for C. fuliginosus are supported.
Variation in the formation of crista sellaris and basisphenoid in the skull of the grass snake Natrix natrix embryos (Serpentes, Colubridae)
Authors: Sheverdyukova Hanna V. , Kovtun Michail F. 
Published: January 2020

AbstractThe crista sellaris is one of the basic structures of the snake chondrocranium. In embryogenesis it ossifies, forming the basisphenoid. This article describes variations of the crista sellaris, which, in turn, leads to variation in the formation of the basisphenoid in the skull of grass snake Natrix natrix (Serpentes, Colubridae) embryos. Several embryos at different developmental stages are investigated. Embryos from one developmental stage are taken simultaneously from one clutch. Thus, variation of the crista sellaris and basisphenoid in the skull of embryos is discovered, including those from one clutch. In several embryos, the crista sellaris is absent or partially formed. The absence of the crista sellaris does not preclude the formation of the basisphenoid. Based on the observed variations of the crista sellaris, the basisphenoid may have a different origin. In embryos with formed crista sellaris, the basisphenoid develops as a complex endochondral bone from three ossification centers (paired—in the polar cartilages and unpaired in the crista sellaris). In embryos without fully formed crista sellaris the basisphenoid develops as a paired bone of mixed origin: endochondral ossification appears in the polar cartilages, but where the crista sellaris is absent, it is formed by dermal ossification. In general, we observed the absence of the crista sellaris in 15% of studied embryos. We assume that it may be due to a reduction of the orbital‐temporal region of the chondrocranium in N. natrix embryos.Research highlightsThe variation of the crista sellaris and basisphenoid formation in grass snake embryos is revealed. Depending on the presence or absence of the crista sellaris, basisphenoid is formed as a complex chondral bone or as a paired bone of mixed origin.