Miracle-dz/UniFAR-FTUs huggingface dataset:
Evaluation of tracer kinetic parameters in cervical cancer using dynamic contrast-enhanced MRI as biomarkers in terms of biological relevance, diagnostic performance and inter-center variability

Objectives This study assessed the clinical value of parameters derived from dynamic contrast-enhanced (DCE) MRI with respect to correlation with angiogenesis and proliferation of cervical cancer, performance of diagnosis and reproducibility of DCE-MRI parameters across MRI scanners. Materials and Methods A total of 113 patients with cervical carcinoma from two centers were included in this retrospective study. The DCE data were centralized and processed using five tracer kinetic models (TKMs) (Tofts, Ex-Tofts, ATH, SC, and DP), yielding the following parameters: volume transfer constant (Ktrans), extravascular extracellular volume (Ve), fractional volume of vascular space (Vp), blood flow (Fp), and permeability surface area product (PS). CD34 counts and Ki-67 PI (proliferation index) of cervical cancer and normal cervix tissue were obtained using immunohistochemical staining in Center 1. Results CD34 count and Ki-67 PI in cervical cancer were significantly higher than in normal cervix tissue (p<0.05). Parameter Ve from each TKM was significantly smaller in cervical cancer tissue than in normal cervix tissue (p<0.05), indicating the higher proliferation of cervical cancer cells. Ve of each TKM attained the largest AUC to diagnose cervical cancer. The distributions of DCE parameters for both cervical cancer and normal cervix tissue were not significantly different between two centers (P>0.05). Conclusion Parameter Ve was similar to the expression of Ki-67 in revealing the proliferation of tissue cells, attained good performance in diagnosis of cervical cancer, and demonstrated consistent findings on measured values across centers.
Past, present, and future perspectives of biodegradable films for soil: A 30-year systematic review

Based on the Web of Science Core Collection (WOSCC) database, the academic works published in the past 30 years on biodegradable films for soil were analyzed. In order to ensure the rigor of this experiment, this paper is based on the mathematical double matrix model VOS Viewer software and CiteSpace software. This work shows that publications of biodegradable films for soil are increasing year by year; polymer science is the hottest subject in the field of biodegradable films for soil; China and the United States are the countries with the most significant number of publications in this field, has an important position; Washington State University is the most published institution. This study further identifies and reveals the essential characteristics, research strength, knowledge structure, main research fields, and research hotspots in the late stage of the field of biodegradable films for soil and introduces the Activity Index (AI) and the Attractive Index (AAI), thereby assessing trends and performance in different countries. The paper also further illustrates the importance of biodegradable films by presenting field trials using biodegradable films on different plants. The research in the field of biodegradable films for soil is divided into four categories: “The research field of degradation,” “The effect of biodegradable film on soil,” “Performance and mechanism of the biodegradable film,” and “Effects of biodegradable film on crop growth and development. ”. The study can be seen as a microcosm of the development of biodegradable films for soils, which will help researchers quickly identify their general patterns. Readers can better understand the changes and development trends in this field in the past 30 years and provide references for future research.
A novel elicitor MoVcpo is necessary for the virulence of Magnaporthe oryzae and triggers rice defense responses

Rice blast caused by Magnaporthe oryzae is one of the most important diseases of rice. Elicitors secreted by M. oryzae play important roles in the interaction with rice to facilitate fungal infection and disease development. In recent years, several elicitor proteins have been identified in M. oryzae, and their functions and importance are increasingly appreciated. In this study, we purified a novel elicitor-activity protein from M. oryzae, which was further identified as a vanadium chloroperoxidase (MoVcpo) by MAIDL TOF/TOF MS. The purified MoVcpo induced reactive oxygen species (ROS) accumulation in host cells, up-regulated the expression of multiple defense-related genes, thus significantly enhancing rice resistance against M. oryzae. These results suggested that MoVcpo functions as a pathogen-associated molecular pattern (PAMP) to trigger rice immunity. Furthermore, MoVcpo was highly expressed in the early stage of M. oryzae infection. Deletion of MoVcpo affected spore formation, conidia germination, cell wall integrity, and sensitivity to osmotic stress, but not fungal growth. Interestingly, compared with the wild-type, inoculation with MoVcpo deletion mutant on rice led to markedly induced ROS accumulation, increased expression of defense-related genes, but also lower disease severity, suggesting that MoVcpo acts as both an elicitor activating plant immune responses and a virulence factor facilitating fungal infection. These findings reveal a novel role for vanadium chloroperoxidase in fungal pathogenesis and deepen our understanding of M. oryzae-rice interactions.
Recent developments in evaluation methods and characteristics of comfort environment in underground subway

In recent years, due to the rapid progress of urbanization, the subway system with the advantages of large transport capacity, punctuality, efficiency, convenience and safety has become one of the main transportation modes in metropolitan areas. With the increase in passenger flow, the comfort of subway passengers has attracted extensive attention from the academic community. In this paper, we begin by analyzing the characteristics of the subway environment and sort out six environmental elements that affect passengers’ comfort, including thermal environment, vibration, noise, lighting, air quality, and air pressure. In addition, the measurement scheme, calculation model, and evaluation method of each element are outlined based on relevant norms and literature. Through reviewing the studies in the past 2 decades, it is found that the in-depth research is still in demand for a comprehensive comfort evaluation model with multi-element coupling. A deep understanding of the subway passengers’ comfort is the basis for the design, development, and operation regulation of the subway environmental control system. Measures to improve comfort, especially the exploitation of energy-saving air conditioning systems, will provide strong support for the sustainable and sound growth of the rail transit industry.
Transcriptomic profile analysis of the left atrium in spontaneously hypertensive rats in the early stage

Left atrial remodeling, characterized by enlargement and hypertrophy of the left atrium and increased fibrosis, was accompanied by an increased incidence of atrial fibrillation. While before morphological changes at the early stage of hypertension, how overloaded hypertension influences the transcriptomic profile of the left atrium remains unclear. Therefore, RNA-sequencing was performed to define the RNA expressing profiles of left atrium in spontaneously hypertensive rats (SHRs) and normotensive Wistar-Kyoto (WKY) rats as a control group. We also compared the changes in the RNA expression profiles in SHRs treated with an angiotensin receptor blocker (ARB) and angiotensin receptor-neprilysin inhibitor (ARNI) to assess the distinct effects on the left atrium. In total, 1,558 differentially expressed genes were found in the left atrium between WKY rats and SHRs. Bioinformatics analysis showed that these mRNAs could regulate upstream pathways in atrial remodeling through atrial fibrosis, inflammation, electrical remodeling, and cardiac metabolism. The regulated transcripts detected in the left atrial tissue in both the ARB-treated and ARNI-treated groups were related to metabolism. In contrast to the ARB-treated rates, the transcripts in ARNI-treated rats were mapped to the cyclic guanosine monophosphate-protein kinase G signaling pathway.
Vector meson spectral function and dilepton rate in the presence of strong entanglement effect between the chiral and the Polyakov loop dynamics

In this work we have re-explored our earlier study on the vector meson spectral function and its spectral property in the form of dilepton rate in a two-flavour Polyakov loop extended Nambu-Jona-Lasinio (PNJL) model in presence of a strong entanglement between the chiral and Polyakov loop dynamics. The entanglement considered here is generated through the four-quark scalar type interaction in which the coupling strength depends on the Polyakov loop and runs with temperature and chemical potential. The entanglement effect is also considered for the four-quark vector type interaction in the same manner. We observe that the entanglement effect relatively enhances the color degrees of freedom due to the running of the both scalar and vector couplings. This modifies the vector meson spectral function and thus the spectral property such as the dilepton production rate in low invariant mass also gets modified.
Comparison of grain sorghum and alfalfa for providing heavy metal remediation of sandy soil with different soil amendments and salt stress

Soil salinity and heavy metal (HM) pollution of soil is an ongoing threat to the plants’ survival that adversely affect the crop productivity and global food security. Therefore, an eco-friendly solution is highly desirable for mitigating the adverse affect of toxic pollutants in plants and soils. This study was aimed to explore how municipal solid waste compost (CO) or farmyard manure (M) supplementation regulates biomass yield, mineral nutritions under salinity, and distribution profile of toxic pullutants of (Medicago sativa L.) and sorghum [Sorghum bicolor (L.) Moench]. The CO and M were supplemented with saline (NaCl) soils, the total experiments were conducted for the three consecutive harvestings (H1, H2 and H3) of sorghum and alfalfa. In this study, the CO supplementation highly enhanced biomas yield (dry weight basis in sorghum during H2, while it showed higher in alfalfa during H3., Interestingly, the M significantly increased nitrogen (N2) and potassium (K+) but reduced sodium (Na+) in alfalfa, while the higher Na+ and phosphorus (P) were accumulated in sorghum fertilizer. As a consequence of these finding, a positive correlation was observed among the plant biomass yield, N and K+ content in alfalfa. Conversely, the high Na+ present in soil declined plant biomass in surghum, indicating that CO supplemetaton was not fully effective under high saline soil conditions. However, the N-P-K distribution improved due to CO and/or M supplementation in saline soils, while Cd accumulation was higher in sorghum compared to alfalfa. Therefore, sorghum can be used to clean up contaminated environments. The PCA results showed the same clusters of treatments and amedments were grouped in same plot, which indicated positive correlation beteween the treatment groups and plants, repectively. These results suggest that M supplementation is useful to mitigate saline stress compared to CO in alfalfa, while sorghum can be recommended as to clean up heavy metals (HMs) from soils. This study further suggest a correlation of minerals (N-P-K) boosting and salinity stress reduction in plants. Therefore, organic amendment-based ecofriendly approach can be useful to mitigate salinity stress in plants as well as effective for clean environment and smart agriculture.
Genome-wide association study for systemic lupus erythematosus in an egyptian population

Systemic lupus erythematosus (SLE) susceptibility has a strong genetic component. Genome-wide association studies (GWAS) across trans-ancestral populations show both common and distinct genetic variants of susceptibility across European and Asian ancestries, while many other ethnic populations remain underexplored. We conducted the first SLE GWAS on Egyptians–an admixed North African/Middle Eastern population–using 537 patients and 883 controls. To identify novel susceptibility loci and replicate previously known loci, we performed imputation-based association analysis with 6,382,276 SNPs while accounting for individual admixture. We validated the association analysis using adaptive permutation tests (n = 109). We identified a novel genome-wide significant locus near IRS1/miR-5702 (Pcorrected = 1.98 × 10−8) and eight novel suggestive loci (Pcorrected < 1.0 × 10−5). We also replicated (Pperm < 0.01) 97 previously known loci with at least one associated nearby SNP, with ITGAM, DEF6-PPARD and IRF5 the top three replicated loci. SNPs correlated (r 2 > 0.8) with lead SNPs from four suggestive loci (ARMC9, DIAPH3, IFLDT1, and ENTPD3) were associated with differential gene expression (3.5 × 10−95 < p < 1.0 × 10−2) across diverse tissues. These loci are involved in cellular proliferation and invasion—pathways prominent in lupus and nephritis. Our study highlights the utility of GWAS in an admixed Egyptian population for delineating new genetic associations and for understanding SLE pathogenesis.
Therapeutic modulation of gene expression in the disease state: Treatment strategies and approaches for the development of next-generation of the epigenetic drugs

Epigenetic dysregulation is an important determinant of many pathological conditions and diseases. Designer molecules that can specifically target endogenous DNA sequences provide a means to therapeutically modulate gene function. The prokaryote-derived CRISPR/Cas editing systems have transformed our ability to manipulate the expression program of genes through specific DNA and RNA targeting in living cells and tissues. The simplicity, utility, and robustness of this technology have revolutionized epigenome editing for research and translational medicine. Initial success has inspired efforts to discover new systems for targeting and manipulating nucleic acids on the epigenetic level. The evolution of nuclease-inactive and RNA-targeting Cas proteins fused to a plethora of effector proteins to regulate gene expression, epigenetic modifications and chromatin interactions opened up an unprecedented level of possibilities for the development of “next-generation” gene therapy therapeutics. The rational design and construction of different types of designer molecules paired with viral-mediated gene-to-cell transfers, specifically using lentiviral vectors (LVs) and adeno-associated vectors (AAVs) are reviewed in this paper. Furthermore, we explore and discuss the potential of these molecules as therapeutic modulators of endogenous gene function, focusing on modulation by stable gene modification and by regulation of gene transcription. Notwithstanding the speedy progress of CRISPR/Cas-based gene therapy products, multiple challenges outlined by undesirable off-target effects, oncogenicity and other virus-induced toxicities could derail the successful translation of these new modalities. Here, we review how CRISPR/Cas—based gene therapy is translated from research-grade technological system to therapeutic modality, paying particular attention to the therapeutic flow from engineering sophisticated genome and epigenome-editing transgenes to delivery vehicles throughout efficient and safe manufacturing and administration of the gene therapy regimens. In addition, the potential solutions to some of the obstacles facing successful CRISPR/Cas utility in the clinical research are discussed in this review. We believe, that circumventing these challenges will be essential for advancing CRISPR/Cas-based tools towards clinical use in gene and cell therapies.
The role of macrophage scavenger receptor 1 (MSR1) in inflammatory disorders and cancer

Macrophage scavenger receptor 1 (MSR1), also named CD204, holds key inflammatory roles in multiple pathophysiologic processes. Present primarily on the surface of various types of macrophage, this receptor variably affects processes such as atherosclerosis, innate and adaptive immunity, lung and liver disease, and more recently, cancer. As highlighted throughout this review, the role of MSR1 is often dichotomous, being either host protective or detrimental to the pathogenesis of disease. We will discuss the role of MSR1 in health and disease with a focus on the molecular mechanisms influencing MSR1 expression, how altered expression affects disease process and macrophage function, the limited cell signalling pathways discovered thus far, the emerging role of MSR1 in tumour associated macrophages as well as the therapeutic potential of targeting MSR1.
Silent pheochromocytoma and paraganglioma: Systematic review and proposed definitions for standardized terminology

Pheochromocytomas and paragangliomas (PPGLs) are rare neuroendocrine tumors with heterogeneous clinical presentations and potential lethal outcomes. The diagnosis is based on clinical suspicion, biochemical testing, imaging and histopathological confirmation. Increasingly widespread use of imaging studies and surveillance of patients at risk of PPGL due to a hereditary background or a previous tumor is leading to the diagnosis of these tumors at an early stage. This has resulted in an increasing use of the term “silent” PPGL. This term and other variants are now commonly found in the literature without any clear or unified definition. Among the various terms, “clinically silent” is often used to describe the lack of signs and symptoms associated with catecholamine excess. Confusion arises when these and other terms are used to define the tumors according to their ability to synthesize and/or release catecholamines in relation to biochemical test results. In such cases the term “silent” and other variants are often inappropriately and misleadingly used. In the present analysis we provide an overview of the literature and propose standardized terminology in an attempt at harmonization to facilitate scientific communication.
Frailty and long-term survival of patients with ovarian cancer: A systematic review and meta-analysis

Background Frailty has been related with poor prognosis of various diseases, including ovarian cancer. We performed a systematic review and meta-analysis to evaluate the association between frailty and long-term survival of patients with ovarian cancer. Methods Relevant cohort studies were retrieved by search of PubMed, Embase, Cochrane’s Library, and Web of Science electronic databases. Two authors independently performed literature search, data collection, and statistical analyses. A random-effect model incorporating the possible influence of heterogeneity was used to pool the results. Results Nine cohort studies including 2497 women with confirmed diagnosis of ovarian cancer contributed to the meta-analysis, and 536 (21.5%) of them were with high frailty. The median follow-up durations varied between 24 and 69 months. Compared to patients with low or non-frailty, OC patients with high frailty were associated with poor overall survival (risk ratio [RR]: 1.61, 95% confidence interval [CI]: 1.41 to 1.85, p < 0.001; I2 = 0%) and progression-free survival (RR: 1.51, 95% CI: 1.20 to 1.89, p < 0.001; I2 = 0%). Subgroup analyses according to study design, cancer stage, age of patients, scales for frailty evaluation, follow-up duration, and quality score of the included study showed consistent association between high frailty and poor overall survival in women with ovarian cancer (p for subgroup effects all < 0.05). After considering GRADE criteria for strength of the evidence, it was rated low for both the two outcomes. Conclusion High frailty may be an independent risk factor of poor survival in women with ovarian cancer. Evaluating frailty may be important for predicting the prognosis and determining the optimal anticancer treatments in women with ovarian cancer. Systematic Review Registration https://inplasy.com/, identifier INPLASY202290028.
Effects of captive and primate-focused tourism on the gut microbiome of Tibetan macaques

Documenting the effects of anthropogenic activities on the gut microbiome of wild animals is important to their conservation practices. Captivity and ecotourism are generally considered two common anthropogenic disturbances on the health of nonhuman primates. Here, we examined the divergences of gut microbiome in different environments of Tibetan macaques. Our results showed that there were no significant differences in the alpha diversity, predominant families and genera of gut microbiomes between wild and tourist groups. However, these indexes decreased significantly in the captive individuals. In addition, the significant differences of beta diversity and community compositions between wild and tourism groups also were detected. In particular, higher potential pathogenic and predicted KEGG pathway of drug resistance (antimicrobial) were detected in the gut microbiome of individuals in captive environment. Our results indicated that living in the wild are beneficial to maintaining gut microbial diversity of Tibetan macaques, while captivity environment is harmful to the health of this macaque. Exploring ways to restore the native gut microbiome and its diversity of captive individual should pay more attention to in the future studies.
Editorial: From bench to bedside, targeting secondary brain damage following intracerebral hemorrhage

COPYRIGHT © 2022 Gao and Wang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. Editorial: From bench to bedside, targeting secondary brain damage following intracerebral hemorrhage
Survival virulent characteristics and transcriptomic analyses of Vibrio mimicus exposed to starvation

Vibrio mimicus is a global causative agent of vibriosis in a variety of aquatic animals and causes major economic losses to aquaculture. It could survive in water for extended periods of time under environmental stress, but its survival strategy remains unknow. This study described the survival, virulent and gene expression changes of V. mimicus cells undergoing starvation stress. After 4 weeks’ cultivation in media without nutrients, V. mimicus Y4 showed reduced rates of activity with marked changes in morphology and physiological activities. The culturable cell counts declined gradually to 104 CFU/mL and the shape changed from rod-shaped to coccoid with short rods or spherical. The motility of starved cells decreased after starvation and the biofilm production was significantly lower than wild cells. The starved cells still produced β-hemolysis, lecithinase and caseinase, but its infectivity to Macrobrachium nipponense was weakened. To investigate the mechanism behind morphological and physiological changes, we further analyzed differently expressed genes (DEGs) between starved and wild cells at the whole transcriptional level. The RNA-seq analysis demonstrated that large-scale DEGs were involved in transferase, membrane, dehydrogenase, synthase, flagellar, hemolysin, pilus assembly, and starvation, etc. Among them, the well-known virulence-related genes were downregulated significantly, including vmh, pilA, vipA, capB, tadC, huvX, ompA, etc. These data provide a key resource to understand the regulatory mechanisms of V. mimicus to starvation stress.