bluuebunny/crossref_metadata_2025 huggingface dataset:
Screening of Acetic Acid Bacteria Isolated from Various Sources for Use in Kombucha Production
Authors: Lee Dong-Hun , Kim Su-Hwan , Lee Chae-Yun , Jo Hyeong-Woo , Lee Won-Hee , Kim Eun-Hye , Choi Byung-Kuk , Huh Chang-Ki
Published: December 2023

The objective of this study was to isolate and identify strains of Acetobacter suitable for use in the development of a complex microbial culture for producing Kombucha and to examine the fermentation characteristics for selection of suitable strains. A medium supplemented with calcium carbonate was used for isolation of acetic acid bacteria from 22 various sources. Colonies observed in the clear zone resulting from decomposition of calcium carbonate by acid produced by microorganisms were collected. Identification of the collected strains was based on biological and morphological characteristics, and the results of base sequence analysis. A total of 37 strains were identified, including six species in the Acetobacter genus: Acetobacter pasteurianus, Acetobacter orientalis, Acetobacter cibinongensis, Acetobacter pomorum, Acetobacter ascendens, and Acetobacter malorum, as well as one species in the Gluconobacter genus, Gluconobacter oxydans. Among thirty-seven strains, seven strains of acetic acid bacteria with exceptional acid and alcohol tolerance were selected, and an evaluation of their fermentation characteristics according to fermentation temperature and period was performed. The results showed a titratable acidity of 1.68% for the Acetobacter pasteurianus SFT-18 strain, and an acetic acid bacteria count of 9.52 log CFU/mL at a fermentation temperature of 35 °C. The glucuronic acid and gluconate contents for the Gluconobacter oxydans SFT-27 strain were 10.32 mg/mL and 25.49 mg/mL, respectively.
Multiple Steady States in Laminar Rayleigh–Bénard Convection of Air
Authors: Carlier Julien , Papalexandris Miltiadis V.
Published: December 2023

In this article, we report on numerical simulations of laminar Rayleigh–Bénard convection of air in cuboids. We provide numerical evidence of the existence of multiple steady states when the aspect ratio of the cuboid is sufficiently large. In our simulations, the Rayleigh number is fixed at Ra=1.7×104. The gas in the cube is initially at rest but subject to random small-amplitude velocity perturbations and an adverse temperature gradient. When the flow domain is a cube, i.e., the aspect ratio is equal to unity, there is only one steady state. This state is characterized by the development of a single convective roll and by a symmetric normalized temperature profile with respect to the mid-height. On the contrary, when the aspect ratio is equal to 2, there are five different steady states. Only one of them exhibits a symmetric temperature profile and flow structure. The other four steady states are characterized by two-roll configurations and asymmetric temperature profiles.
Effect of Combined Chitosan and Hyperbranched Poly-L-Lysine Based Coating on Prolonging the Shelf Life of Oyster Mushroom (Pleurotus ostreatus)
Authors: Sun Jianrui , Ren Ruirui , Yao Linlin , Li Jinglan , Tong Li , Yuan Jiangfeng , Wang Dahong
Published: December 2023

To extend the shelf life of oyster mushroom (Pleurotus ostreatus), the effects of chitosan (CS) and hyperbranched poly-L-lysine (HBPL) combined treatment on quality characteristics, nutritional quality, storage characteristics, and enzyme activity of oyster mushroom during postharvest storage at 4 °C were investigated. The results showed that CS-HBPL combined treatment could significantly reduce rot degree and weight loss and significantly inhibit the browning of oyster mushroom. At the same time, the loss of reducing sugar, vitamin C, soluble protein, and total phenolic was significantly reduced. Compared with the control, CS-HBPL combined treatment could also significantly inhibit an increase in malondialdehyde (MDA) and significantly decrease the relative electrolyte leakage of oyster mushroom. In addition, the activities of catalase (CAT), superoxide dismutase (SOD), phenylalnine ammonialyase (PAL), and peroxidase (POD) were significantly improved, and the activity of polyphenol oxidase (PPO) was significantly inhibited in oyster mushroom. In conclusion, CS-HBPL combined treatment had a good protective effect on the membrane permeability damage of oyster mushroom and could effectively delay the oxidation of phenolic substances and browning of oyster mushroom. Therefore, CS-HBPL combined treatment can be used as a potential strategy to extend the storage time of oyster mushroom.
Screening and Characteristics Analysis of Polysaccharides from Orah Mandarin (Citrus reticulata cv. Orah)
Authors: Liu Guoming , Wei Ping , Tang Yayuan , Li Jiemin , Yi Ping , Deng Zhonglin , He Xuemei , Ling Dongning , Sun Jian , Zhang Lan
Published: December 2023

This study aimed to screen out polysaccharides with the ability to activate NK cells. Ten polysaccharides (OP) were isolated from orah mandarin (Citrus reticulata cv. Orah) peel using hot-water extraction combined with the alcohol precipitation method and the ultrafiltration-membrane separation method. After measuring the effects of 10 OPs on NK-92MI cell proliferation and cytotoxicity, it was found that the polysaccharide OP5 had the highest activity in vitro. OP5 can significantly promote the proliferation of and increase the gene expression of perforin, granzyme B and IFN-γ in NK-92MI cells. Its molecular weight was between 50 and 70 kDa. The identification results of monosaccharide composition indicated that OP5 was composed of arabinose (31.52%), galacturonic acid (22.35%), galactose (16.72%), glucose (15.95%), mannose (7.67%), rhamnose (2.39%), fucose (1.41%), xylose (1.30%), glucuronic acid (0.42%) and ribose (0.27%). The sugar ring of the β-configuration was the main, and that of the α-configuration was the auxiliary. These results would provide a foundation for the functional product development of OPs.
Red Cabbage Modulates Composition and Co-Occurrence Networks of Gut Microbiota in a Rodent Diet-Induced Obesity Model
Authors: Wu Yanbei , Xin Mengmeng , Pham Quynhchi , Gao Yu , Huang Haiqiu , Jiang Xiaojing , Li Robert W. , Yu Liangli , Luo Yaguang , Wang Jing , Wang Thomas T. Y.
Published: December 2023

Red cabbage (RC), a cruciferous vegetable rich in various bioactive substances, can significantly reduce the risk factors of several non-communicable diseases, but the mechanism underlying the biological effects of RC remains unclear. Furthermore, mechanisms that operate through the regulation of gut microbiota also are not known. Given the relationships between diet, gut microbiota, and health, a diet-induced mice obesity model was used to elucidate the influence of RC on gut microbial composition and bacteria–bacteria interactions in mice. After 24 h of dietary intervention, a high-fat (HF) diet with the intake of RC led to increased Firmicutes/Bacteroidetes (F/B) ratios in the feces of mice. RC also reduced the relative abundance of Bifidobacteria, Lactobacillus, and Akkermansia muciniphila in mice fed a low-fat (LF) diet. After 8-weeks of dietary intervention, RC significantly changed the structure and the ecological network of the gut microbial community. Particularly, RC inhibited an HF-diet-induced increase in AF12 in mice, and this genus was positively correlated with body weight, low-density lipoprotein level, and fecal bile acid of mice. Unclassified Clostridiales, specifically increased via RC consumption, were also found to negatively correlate with hepatic free cholesterol levels in mice. Overall, our results demonstrated that RC modulating gut microbial composition and interactions are associated with the attenuation of HF-diet-induced body weight gain and altered cholesterol metabolism in mice.
Electronic Nose and Gas Chromatograph Devices for the Evaluation of the Sensory Quality of Green Coffee Beans
Authors: Cascos Gema , Lozano Jesús , Montero-Fernández Ismael , Marcía-Fuentes Jhunior Abrahan , Aleman Ricardo S. , Ruiz-Canales Antonio , Martín-Vertedor Daniel
Published: December 2023

The aim of this work is to discriminate between the volatile org9anic compound (VOC) characteristics of different qualities of green coffee beans (Coffea arabica) using two analysis approaches to classify the fresh product. High-quality coffee presented the highest values for positive attributes, the highest of which being fruity, herbal, and sweet. Low-quality samples showed negative attributes related to roasted, smoky, and abnormal fermentation. Alcohols and aromatic compounds were most abundant in the high-quality samples, while carboxylic acids, pyrazines, and pyridines were most abundant in the samples of low quality. The VOCs with positive attributes were phenylethyl alcohol, nonanal and 2-methyl-propanoic acid, and octyl ester, while those with negative attributes were pyridine, octanoic acid, and dimethyl sulfide. The aroma quality of fresh coffee beans was also discriminated using E-nose instruments. The PLS-DA model obtained from the E-nose data was able to classify the different qualities of green coffee beans and explained 96.9% of the total variance. A PLS chemometric approach was evaluated for quantifying the fruity aroma of the green coffee beans, obtaining an RP2 of 0.88. Thus, it can be concluded that the E-nose represents an accurate, inexpensive, and non-destructive device for discriminating between different coffee qualities during processing.
Numerical Investigation of the Fractional Diffusion Wave Equation with the Mittag–Leffler Function
Authors: Shafiq Madiha , Abbas Muhammad , El-Shewy Emad K. , Abdelrahman Mahmoud A. E. , Abdo Noura F. , El-Rahman Ali A.
Published: December 2023

A spline is a sufficiently smooth piecewise curve. B-spline functions are powerful tools for obtaining computational outcomes. They have also been utilized in computer graphics and computer-aided design due to their flexibility, smoothness and accuracy. In this paper, a numerical procedure dependent on the cubic B-spline (CuBS) for the time fractional diffusion wave equation (TFDWE) is proposed. The standard finite difference (FD) approach is utilized to discretize the Atangana–Baleanu fractional derivative (ABFD), while the derivatives in space are approximated through the CuBS with a θ-weighted technique. The stability of the propounded algorithm is analyzed and proved to be unconditionally stable. The convergence analysis is also studied, and it is of the order O(h2+(Δt)2). Numerical solutions attained by the CuBS scheme support the theoretical solutions. The B-spline technique gives us better results as compared to other numerical techniques.
The Effects of Nonlinear Noise on the Fractional Schrödinger Equation
Authors: Xie Jin , Yang Han , Li Dingshi , Ming Sen
Published: December 2023

The aim of this work is to investigate the influence of nonlinear multiplicative noise on the Cauchy problem of the nonlinear fractional Schrödinger equation in the non-radial case. Local well-posedness follows from estimates related to the stochastic convolution and deterministic non-radial Strichartz estimates. Furthermore, the blow-up criterion is presented. Then, with the help of Itô’s lemma and stopping time arguments, the global solution is constructed almost surely. The main innovation is that the non-radial global solution is given under fractional-order derivatives and a nonlinear noise term.
Effect of Firewood Moisture Content on Quality, Yield, and Economic Gain during Charcoal Production in a Modified Half-Orange Kiln
Authors: García-Quezada Juan , Musule-Lagunes Ricardo , Wehenkel Christian , Prieto-Ruíz José Angel , Núñez-Retana Víctor , Carrillo-Parra Artemio
Published: December 2023

Tropical firewood species are of foremost importance for charcoal production worldwide. The objective of this study was to evaluate the impact of the moisture content of tropical fuelwood on charcoal production in modified Argentinean half-orange kilns in terms of yield, quality, and economic viability. Ten tropical species from the state of Quintana Roo, Mexico, were selected for charcoal production. The data were analyzed using a completely randomized design. The moisture content of the firewood was 48.99–79.31%. Temperatures close to 500 °C were obtained in the three kilns, as well as production yields of 28% with a consumption of 6.4 m3 of firewood and 38% with a consumption of 4.5–5 m3. Charcoal moisture values of less than 8%, volatile material of 20–30%, ash < 8%, fixed carbon of 60–70%, and higher heating values of 28–30 MJ kg−1 were obtained. Burn I obtained the highest energy yield of 54%, with a production of 20.87 MWh of charcoal recovered. The production cost of the kiln for the producer is USD 0.00825 (MXN 0.16) per MJ.
Formation of Transitional cE/UCD Galaxies through Massive/Dwarf Disc Galaxy Mergers
Authors: Khoperskov Alexander V. , Khrapov Sergey S. , Sirotin Danila S.
Published: December 2023

The dynamics of the merger of a dwarf disc galaxy with a massive spiral galaxy of the Milky Way type were studied in detail. The remnant of such interaction after numerous crossings of the satellite through the disc of the main galaxy was a compact stellar core, the characteristics of which were close to small compact elliptical galaxies (cEs) or large ultra-compact dwarfs (UCDs). Such transitional cE/UCD objects with an effective radius of 100–200 pc arise as a result of stripping the outer layers of the stellar core during the destruction of a dwarf disc galaxy. Numerical models of the satellite before interaction included baryonic matter (stars and gas) and dark mass. We used N-body to describe the dynamics of stars and dark matter, and we used smoothed-particle hydrodynamics to model the gas components of both galaxies. The direct method of calculating the gravitational force between all particles provided a qualitative resolution of spatial structures up to 10 pc. The dwarf galaxy fell onto the gas and stellar discs of the main galaxy almost along a radial trajectory with a large eccentricity. This ensured that the dwarf crossed the disc of the main galaxy at each pericentric approach over a time interval of more than 9 billion years. We varied the gas mass and the initial orbital characteristics of the satellite over a wide range, studying the features of mass loss in the core. The presence of the initial gas component in a dwarf galaxy significantly affects the nature of the formation and evolution of the compact stellar core. The gas-rich satellite gives birth to a more compact elliptical galaxy compared to the merging gas-free dwarf galaxy. The initial gas content in the satellite also affects the internal rotation in the stripped nucleus. The simulated cE/UCD galaxies contained very little gas and dark matter at the end of their evolution.
Comparative Transcriptome Analysis of Gene Expression and Regulatory Characteristics Associated with Different Bolting Periods in Spinacia oleracea
Authors: Wu Hao , Zhang Zhilong , Liu Zhiyuan , Meng Qing , Xu Zhaosheng , Zhang Helong , Qian Wei , She Hongbing
Published: December 2023

Bolting is a symbol of the transition from vegetative to reproductive growth in plants. Late bolting can effectively prolong the commercial value of spinach and is of great importance for spinach breeding. Bolting has complex regulatory networks, and current research on spinach bolting is relatively weak, with specific regulatory pathways and genes unclear. To clarify the regulatory characteristics and key genes related to bolting in spinach, we conducted a comparative transcriptome analysis. In this study, 18 samples from three periods of bolting-tolerant spinach material 12S3 and bolting-susceptible material 12S4 were analyzed using RNA-seq on, resulting in 10,693 differentially expressed genes (DEGs). Functional enrichment and co-expression trend analysis indicated that most DEGs were enriched in the photoperiod pathway, the hormone signaling pathway, and the cutin, suberin, and wax biosynthetic pathways. According to the weighted gene co-expression network analysis (WGCNA), SpFT (SOV4g003400), SOV4g040250, and SpGASA1 (SOV6g017600) were likely to regulate bolting through the gibberellin and photoperiod pathways, and SpELF4 (SOV1g028600) and SpPAT1 (SOV4g058860) caused differences in early and late bolting among different cultivars. These results provide important insights into the genetic control of bolting in spinach and will help elucidate the molecular mechanisms of bolting in leafy vegetables.
Doenjang in the Air: Maangchi and the Mediation of Korean Cultural Authenticity
Authors: Sprague Justin
Published: December 2023

In this article, I explore the ways that women of the Korean diaspora engage in cultural meaning-making through material culture in efforts to redefine what it means for people, things, and ideas to be considered “authentically Korean”. Using the case study of famous internet chef Maangchi, I examine one of her best-selling cookbooks and her digital presence to identify the tactics she uses to exert agency in the meaning-making and community-building process, using Korean food and her role as a maternal figure as vehicles for analysis. Due to her roles as a mother and her positioning as a quintessential immigrant subject in the US context, I argue that Maangchi challenges colonial and Eurocentric models of cultural authenticity as part of a long history of women of color that actively disrupt social perceptions of value, expertise, and knowledge production. By exploring her business ventures, I consider how embedded pieces of knowledge, racialization, perceived expertise, and cultural assumptions are all connected to challenge the historical concepts and applications of authenticity in favor of a more inclusive, radical, and politically potent understanding of what truly makes something “Korean”.
Psychometric Properties of the Slovenian Version of Brief Sensation Seeking Scale
Authors: Kastrin Andrej
Published: December 2023

Sensation seeking (SS) is a psychobiological personality trait characterized by an individual’s propensity to engage in various forms of risk-taking behavior. The Brief Sensation Seeking Scale (BSSS-8) is a widely used instrument for assessing SS that has been translated into several languages. However, only outdated and non-validated questionnaires have been used to measure SS in the Slovenian population. The aim of this study was to translate and psychometrically validate the Slovenian version of the BSSS-8. A total of 363 participants aged between 14 and 65 years completed the translated BSSS-8 and the questionnaire on drug abuse. The scale demonstrated good reliability (Cronbach’s α=0.81) and a unidimensional factorial structure as revealed by confirmatory factor analysis (CFA). The multigroup CFA showed gender-specific measurement invariance. In the nomological network, SS was positively associated with drug-related variables. The Slovenian version of the BSSS-8 scale is a short and simple instrument to assess SS for research and epidemiological purposes.
Lily Database: A Comprehensive Genomic Resource for the Liliaceae Family
Authors: Biswas Manosh Kumar , Natarajan Sathishkumar , Biswas Dhiman , Howlader Jewel , Park Jong-In , Nou Ill-Sup
Published: December 2023

The Lily database is an online genomic resource which is composed of a Korean Lily germplasm collection, transcriptome sequences, molecular markers, transcription factors (TFs) and DEGs (Differentially Expressed Genes) data. A total of ~0.23 gb of RNA-sequencing data were used for gene identification, marker development and gene expression analysis. As a result, 103,929 genomic, 47,863 EST-SSR, 20,929 SNP and 1213 COS-marker were developed. A total of 1327 TF genes were identified and characterized. This is the first unique, user-friendly, genomic resource database for Lilium species. It is a relational database based on a ‘three-tier architecture’ that catalogs all the information in a MySQL table and a user-friendly query interface and data visualization page developed using JavaScript, PHP and HTML code. The search parameters are highly flexible; users can retrieve data by using either single or multiple search parameters. Data present in this database can be used for germplasm characterization, gene discovery, population structure analysis, QTL mapping, and accelerating lily variety improvements.
Enhancing Soil Fertility and Elevating Pecan Fruit Quality through Combined Chemical and Organic Fertilization Practices
Authors: Tong Yinhao , Wang Zhaocheng , Gong Duxin , Huang Cheng , Ma Xiaomin , Ma Xiaoxiang , Yuan Feiyang , Fu Songling , Feng Chun
Published: December 2023

This study focused on 6-year-old ‘Pawnee’ pecan trees to elucidate the differential responses of physicochemical properties of orchard soil and pecan fruit quality when combining chemical and organic fertilizers. The aim was to unveil the mechanisms that underlie the effects of different fertilization treatments on soil fertility, soil enzyme activities, and pecan fruit quality. Four treatments were established: sole chemical fertilizer (CF; N:P2O5:K2O is 15:15:15), chemical fertilizer combined with cake fertilizer (CF+CC), chemical fertilizer combined with manure fertilizer (CF+M), and chemical fertilizer combined with cake and manure fertilizer (CF+CC+M). Measurements were taken to assess the soil nutrient content, soil enzyme activities, and fruit growth quality in some orchards under different fertilization treatments. The results revealed that the combined application could increase yield and enhance pecan quality. Among these, the CF+M+CC treatment demonstrated the most favorable outcomes, with the pecan kernel oil and unsaturated fatty acid contents reaching 72.33% and 97.54%, respectively. The combined fertilization treatments had no significant impacts on soil trace elements such as Mg, Cu, and Mn; however, it significantly increased the Available Phosphorus (AP), Total Nitrogen (TN), Soil Organic Matter (SOM) and S-ACP (soil acid phosphatase) activities. In summary, the combined application of chemical and organic fertilizers can significantly increase the soil nutrient content and enzyme activities in pecan orchards, to promote the enhancement of fruit quality and economic aspects.
Spatial Estimation of Snow Water Equivalent for Glaciers and Seasonal Snow in Iceland Using Remote Sensing Snow Cover and Albedo
Authors: Gunnarsson Andri , Gardarsson Sigurdur M.
Published: December 2023

Efficient water resource management in glacier- and snow-dominated basins requires accurate estimates of the snow water equivalent (SWE) in late winter and spring and melt onset timing and intensity. To understand the high spatio-temporal variability of snow and glacier ablation, a spatially distributed energy balance model combining satellite-based retrievals of albedo and snow cover was applied. Incoming short-wave energy, contributing to daily estimates of melt energy, was constrained by remotely sensed surface albedo for snow-covered surfaces. Fractional snow cover was used for non-glaciated areas, as it provides estimates of snow cover for each pixel to better constrain snow melt. Thus, available daily estimates of melt energy in a given area were the product of the possible melt energy and the fractional snow cover of the area or pixel for non-glaciated areas. This provided daily estimates of melt water to determine seasonal snow and glacier ablation in Iceland for the period 2000–2019. Observations from snow pits on land and glacier summer mass balance were used for evaluation, and observations from land and glacier-based automatic weather stations were used to evaluate model inputs for the energy balance model. The results show that the interannual SWE variability was generally high both for seasonal snow and glaciers. For seasonal snow, the largest SWE (>1000 mm) was found in mountainous and alpine areas close to the coast, notably in the East- and Westfjords, Tröllaskaga, and in the vicinity of glacier margins. Lower SWE values were observed in the central highlands, flatter inland areas, and at lower elevations. For glaciers, more SWE (glacier ablation) was associated with lower glacier elevations while less melt was observed at higher elevations. For the impurity-rich bare-ice areas that are exposed annually, observed SWE was more than 3000 mm.
Being Pregnant during COVID-19: Exploring the COVID-19 Related Beliefs, Behaviors, and Birth Outcome among Users of a Pregnancy App
Authors: Huang Hui , Ceavers Olivia , Iregui Maria Pinzon , Howard Melissa M.
Published: December 2023

Being pregnant during COVID-19 increases the risk of experiencing severe COVID-19 symptoms, which in turn increases the risk of complications. This study aimed to examine COVID-19-related beliefs, behaviors, and birth outcomes among users of Count the Kicks (CTK), a fetal movement tracking app. This study used the End of Pregnancy Survey data from 1037 CTK users. We used descriptive analyses to analyze COVID-19-related beliefs and behaviors and used the chi-square statistic and Z statistic to examine factors associated with vaccination and birth outcome. Nearly half of the survey respondents reported not being concerned that in-person prenatal visits might lead to COVID-19 exposure. Most respondents (65.9%) had already received the COVID-19 vaccine at the time of the survey. The vaccination rate was statistically significantly lower among African Americans than the remaining race/ethnicity groups (mostly white). The healthy birth rate is lower among respondents with high-risk pregnancies, while the stillbirth rate is highest among Hispanics. Vaccination status was not associated with the likelihood of a healthy birth. Our findings confirmed that vaccination does not compromise birth outcomes, further contributing to the existing evidence of COVID vaccine safety during pregnancy. This study also demonstrates an example of using data from a pregnancy app to facilitate research on app users in real-time.
Research on the Evolution and Driving Factors of the Economic Spatial Pattern of the Guangdong–Hong Kong–Macao Greater Bay Area in the Context of the COVID-19 Epidemic
Authors: Huang Xiaojin , Guo Renzhong , Li Xiaoming , Li Minmin , Fan Yong , Li Yaxing
Published: December 2023

Understanding the economic impact of COVID-19 is the foundation for formulating targeted policies promoting economic recovery. This study uses panel data of the county economy in the Guangdong–Hong Kong–Macao Greater Bay Area (GBA) from 2017 to 2022. Firstly, the evolution characteristics of the economic structure in the GBA were analyzed using the standard deviation ellipse, geographical concentration, and spatial autocorrelation methods. Then, we revealed the changes in various economic indicators. Finally, a spatial Durbin model was constructed to study the factors affecting economic growth and spatial spillover effects in different periods. The results reveal that the economic distribution in the GBA presents a “core–edge” structure. The FDI, consumption, and exports of the Greater Bay Area fluctuate greatly, while investment growth is relatively stable. There is a significant spatial spillover effect in the county economy of the GBA. Investment, consumption, exports, labor, and innovation all have significant positive effects on economic growth, with investment having the greatest impact, while FDI has a significant negative impact. The impact of COVID-19 on the economy of the GBA is mainly reflected in the weakening of spatial spillovers, the strengthening of economic agglomeration, the decline in factor growth, and the change in the driving effect of factors on the economy. These findings can provide a reference for formulating targeted economic development policies.
RanBP2/Nup358 Mediates Sumoylation of STAT1 and Antagonizes Interferon-α-Mediated Antiviral Innate Immunity
Authors: Li Jiawei , Su Lili , Jiang Jing , Wang Yifan E. , Ling Yingying , Qiu Yi , Yu Huahui , Huang Yucong , Wu Jiangmin , Jiang Shan , Zhang Tao , Palazzo Alexander F. , Shen Qingtang
Published: December 2023

Type I interferon (IFN-I)-induced signaling plays a critical role in host antiviral innate immune responses. Despite this, the mechanisms that regulate this signaling pathway have yet to be fully elucidated. The nucleoporin Ran Binding Protein 2 (RanBP2) (also known as Nucleoporin 358 KDa, Nup358) has been implicated in a number of cellular processes, including host innate immune signaling pathways, and is known to influence viral infection. In this study, we documented that RanBP2 mediates the sumoylation of signal transducers and activators of transcription 1 (STAT1) and inhibits IFN-α-induced signaling. Specifically, we found that RanBP2-mediated sumoylation inhibits the interaction of STAT1 and Janus kinase 1 (JAK1), as well as the phosphorylation and nuclear accumulation of STAT1 after IFN-α stimulation, thereby antagonizing the IFN-α-mediated antiviral innate immune signaling pathway and promoting viral infection. Our findings not only provide insights into a novel function of RanBP2 in antiviral innate immunity but may also contribute to the development of new antiviral therapeutic strategies.
Polyploid Genome Assembly Provides Insights into Morphological Development and Ascorbic Acid Accumulation of Sauropus androgynus
Authors: Xia Fagang , Li Bin , Song Kangkang , Wang Yankun , Hou Zhuangwei , Li Haozhen , Zhang Xiaohua , Li Fangping , Yang Long
Published: December 2023

Sauropus androgynus (S. androgynus) (2n = 4x = 52) is one of the most popular functional leafy vegetables in South and Southeast Asia. With its rich nutritional and pharmaceutical values, it has traditionally had widespread use for dietary and herbal purposes. Here, the genome of S. androgynus was sequenced and assembled, revealing a genome size of 1.55 Gb with 26 pseudo-chromosomes. Phylogenetic analysis traced back the divergence of Sauropus from Phyllanthus to approximately 29.67 million years ago (Mya). Genome analysis revealed that S. androgynus polyploidized around 20.51 Mya and shared a γ event about 132.95 Mya. Gene function analysis suggested that the expansion of pathways related to phloem development, lignin biosynthesis, and photosynthesis tended to result in the morphological differences among species within the Phyllanthaceae family, characterized by varying ploidy levels. The high accumulation of ascorbic acid in S. androgynus was attributed to the high expression of genes associated with the L-galactose pathway and recycling pathway. Moreover, the expanded gene families of S. androgynus exhibited multiple biochemical pathways associated with its comprehensive pharmacological activity, geographic adaptation and distinctive pleasurable flavor. Altogether, our findings represent a crucial genomic asset for S. androgynus, casting light on the intricate ploidy within the Phyllanthaceae family.
PCR Array Profiling of miRNA Expression Involved in the Differentiation of Amniotic Fluid Stem Cells toward Endothelial and Smooth Muscle Progenitor Cells
Authors: Iordache Florin , Petcu Adriana (Ionescu) , Pisoschi Aurelia Magdalena , Stanca Loredana , Geicu Ovidiu Ionut , Bilteanu Liviu , Curuțiu Carmen , Amuzescu Bogdan , Serban Andreea Iren
Published: December 2023

Differentiation of amniotic fluid stem cells (AFSCs) into multiple lineages is controlled by epigenetic modifications, which include DNA methylation, modifications of histones, and the activity of small noncoding RNAs. The present study investigates the role of miRNAs in the differentiation of AFSCs and addresses how their unique signatures contribute to lineage-specific differentiation. The miRNA profile was assessed in AFSCs after 4 weeks of endothelial and muscular differentiation. Our results showed decreased expression of five miRNAs (miR-18a-5p, miR-125b-5p, miR-137, miR-21-5p, and let-7a) and increased expression of twelve miRNAs (miR-134-5p, miR-103a-3p, let-7i-5p, miR-214-3p, let-7c-5p, miR-129-5p, miR-210-3p, let-7d-5p, miR-375, miR-181-5p, miR-125a-5p, and hsa-let-7e-5p) in endothelial progenitor cells (EPCs) compared with undifferentiated AFSCs. AFSC differentiation into smooth muscle revealed notable changes in nine out of the 84 tested miRNAs. Among these, three miRNAs (miR-18a-5p, miR-137, and sa-miR-21-5p) were downregulated, while six miRNAs (miR-155-5p, miR-20a-5p, let-7i-5p, hsa-miR-134-5p, hsa-miR-214-3p, and hsa-miR-375) exhibited upregulation. Insights from miRNA networks promise future advancements in understanding and manipulating endothelial and muscle cell dynamics. This knowledge has the potential to drive innovation in areas like homeostasis, growth, differentiation, and vascular function, leading to breakthroughs in biomedical applications and therapies.
Serpin-4 Negatively Regulates Prophenoloxidase Activation and Antimicrobial Peptide Synthesis in the Silkworm, Bombyx mori
Authors: Qie Xingtao , Yan Xizhong , Wang Wentao , Liu Yaya , Zhang Lijun , Hao Chi , Lu Zhiqiang , Ma Li
Published: December 2023

The prophenoloxidase (PPO) activation and Toll antimicrobial peptide synthesis pathways are two critical immune responses in the insect immune system. The activation of these pathways is mediated by the cascade of serine proteases, which is negatively regulated by serpins. In this study, we identified a typical serpin, BmSerpin-4, in silkworms, whose expression was dramatically up-regulated in the fat body and hemocytes after bacterial infections. The pre-injection of recombinant BmSerpin-4 remarkably decreased the antibacterial activity of the hemolymph and the expression of the antimicrobial peptides (AMPs) gloverin-3, cecropin-D, cecropin-E, and moricin in the fat body under Micrococcus luteus and Yersinia pseudotuberculosis serotype O: 3 (YP III) infection. Meanwhile, the inhibition of systemic melanization, PO activity, and PPO activation by BmSerpin-4 was also observed. Hemolymph proteinase 1 (HP1), serine protease 2 (SP2), HP6, and SP21 were predicted as the candidate target serine proteases for BmSerpin-4 through the analysis of residues adjacent to the scissile bond and comparisons of orthologous genes in Manduca sexta. This suggests that HP1, SP2, HP6, and SP21 might be essential in the activation of the serine protease cascade in both the Toll and PPO pathways in silkworms. Our study provided a comprehensive characterization of BmSerpin-4 and clues for the further dissection of silkworm PPO and Toll activation signaling.
Suppression of Neuroinflammation by Coffee Component Pyrocatechol via Inhibition of NF-κB in Microglia
Authors: Murata Taisuke , Tago Kenji , Miyata Kota , Moriwaki Yasuhiro , Misawa Hidemi , Kobata Kenji , Nakazawa Yosuke , Tamura Hiroomi , Funakoshi-Tago Megumi
Published: December 2023

According to numerous studies, it has been epidemiologically suggested that habitual coffee intake seems to prevent the onset of neurodegenerative diseases. In this study, we hypothesized that coffee consumption suppresses neuroinflammation, which is closely related to the development of neurodegenerative diseases. Using microglial BV-2 cells, we first found that the inflammatory responses induced by lipopolysaccharide (LPS) stimulation was diminished by both coffee and decaffeinated coffee through the inhibition of an inflammation-related transcription factor, nuclear factor-κB (NF-κB). Pyrocatechol, a component of roasted coffee produced by the thermal decomposition of chlorogenic acid, also exhibited anti-inflammatory activity by inhibiting the LPS-induced activation of NF-κB. Finally, in an inflammation model using mice injected with LPS into the cerebrum, we observed that intake of pyrocatechol as well as coffee decoctions drastically suppressed the accumulation of microglia and the expression of interleukin-6 (IL-6), tumor necrosis factor α (TNFα), CCL2, and CXCL1 in the inflammatory brain. These observations strongly encourage us to hypothesize that the anti-inflammatory activity of pyrocatechol as well as coffee decoction would be useful for the suppression of neurodegeneration and the prevention of the onsets of Alzheimer’s (AD) and Perkinson’s diseases (PD).
Calcium Signaling and the Response to Heat Shock in Crop Plants
Authors: Kang Xinmiao , Zhao Liqun , Liu Xiaotong
Published: December 2023

Climate change and the increasing frequency of high temperature (HT) events are significant threats to global crop yields. To address this, a comprehensive understanding of how plants respond to heat shock (HS) is essential. Signaling pathways involving calcium (Ca2+), a versatile second messenger in plants, encode information through temporal and spatial variations in ion concentration. Ca2+ is detected by Ca2+-sensing effectors, including channels and binding proteins, which trigger specific cellular responses. At elevated temperatures, the cytosolic concentration of Ca2+ in plant cells increases rapidly, making Ca2+ signals the earliest response to HS. In this review, we discuss the crucial role of Ca2+ signaling in raising plant thermotolerance, and we explore its multifaceted contributions to various aspects of the plant HS response (HSR).
Comparative 4D Label-Free Quantitative Proteomic Analysis of Bombus terrestris Provides Insights into Proteins and Processes Associated with Diapause
Authors: Liu Yan , Su Long , Wang Ruijuan , Dai Xiaoyan , Li Xiuxue , Chang Yuqing , Zhao Shan , Chen Hao , Yin Zhenjuan , Wu Guang’an , Zhou Hao , Zheng Li , Zhai Yifan
Published: December 2023

Diapause, an adaptative strategy for survival under harsh conditions, is a dynamic multi-stage process. Bombus terrestris, an important agricultural pollinator, is declining in the wild, but artificial breeding is possible by imitating natural conditions. Mated queen bees enter reproductive diapause in winter and recover in spring, but the regulatory mechanisms remain unclear. Herein, we conducted a comparative 4D label-free proteomic analysis of queen bees during artificial breeding at seven timepoints, including pre-diapause, diapause, and post-diapause stages. Through bioinformatics analysis of proteomic and detection of substance content changes, our results found that, during pre-diapause stages, queen bees had active mitochondria with high levels of oxidative phosphorylation, high body weight, and glycogen and TAG content, all of which support energy consumption during subsequent diapause. During diapause stages, body weight and water content were decreased but glycerol increased, contributing to cold resistance. Dopamine content, immune defense, and protein phosphorylation were elevated, while fat metabolism, protein export, cell communication, signal transduction, and hydrolase activity decreased. Following diapause termination, JH titer, water, fatty acid, and pyruvate levels increased, catabolism, synaptic transmission, and insulin signaling were stimulated, ribosome and cell cycle proteins were upregulated, and cell proliferation was accelerated. Meanwhile, TAG and glycogen content decreased, and ovaries gradually developed. These findings illuminate changes occurring in queen bees at different diapause stages during commercial production.
IPSC-Derived Astrocytes Contribute to In Vitro Modeling of Parkinson’s Disease Caused by the GBA1 N370S Mutation
Authors: Yarkova Elena S. , Grigor’eva Elena V. , Medvedev Sergey P. , Pavlova Sophia V. , Zakian Suren M. , Malakhova Anastasia A.
Published: December 2023

Parkinson’s disease (PD) is a neurodegenerative disorder that ranks second in prevalence after Alzheimer’s disease. The number of PD diagnoses increases annually. Nevertheless, modern PD treatments merely mitigate symptoms rather than preventing neurodegeneration progression. The creation of an appropriate model to thoroughly study the mechanisms of PD pathogenesis remains a current challenge in biomedicine. Recently, there has been an increase in data regarding the involvement of not only dopaminergic neurons of the substantia nigra but also astrocytes in the pathogenesis of PD. Cell models based on induced pluripotent stem cells (iPSCs) and their differentiated derivatives are a useful tool for studying the contribution and interaction of these two cell types in PD. Here, we generated two iPSC lines, ICGi034-B and ICGi034-C, by reprogramming peripheral blood mononuclear cells of a patient with a heterozygous mutation c.1226A>G (p.N370S) in the GBA1 gene by non-integrating episomal vectors encoding OCT4, KLF4, L-MYC, SOX2, LIN28, and mp53DD. The iPSC lines demonstrate the expression of pluripotency markers and are capable of differentiating into three germ layers. We differentiated the ICGi034-B and ICGi034-C iPSC lines into astrocytes. This resulting cell model can be used to study the involvement of astrocytes in the pathogenesis of GBA-associated PD.
Studying the Roles of the Renin–Angiotensin System in Accelerating the Disease of High-Fat-Diet-Induced Diabetic Nephropathy in a db/db and ACE2 Double-Gene-Knockout Mouse Model
Authors: Chen Cheng-Yi , Lin Meng-Wei , Xie Xing-Yang , Lin Cheng-Han , Yang Chung-Wei , Wu Pei-Ching , Liu Dung-Huan , Wu Chih-Jen , Lin Chih-Sheng
Published: December 2023

Diabetic nephropathy (DN) is a crucial metabolic health problem. The renin–angiotensin system (RAS) is well known to play an important role in DN. Abnormal RAS activity can cause the over-accumulation of angiotensin II (Ang II). Angiotensin-converting enzyme inhibitor (ACEI) administration has been proposed as a therapy, but previous studies have also indicated that chymase, the enzyme that hydrolyzes angiotensin I to Ang II in an ACE-independent pathway, may play an important role in the progression of DN. Therefore, this study established a model of severe DN progression in a db/db and ACE2 KO mouse model (db and ACE2 double-gene-knockout mice) to explore the roles of RAS factors in DNA and changes in their activity after short-term (only 4 weeks) feeding of a high-fat diet (HFD) to 8-week-old mice. The results indicate that FD-fed db/db and ACE2 KO mice fed an HFD represent a good model for investigating the role of RAS in DN. An HFD promotes the activation of MAPK, including p-JNK and p-p38, as well as the RAS signaling pathway, leading to renal damage in mice. Blocking Ang II/AT1R could alleviate the progression of DN after administration of ACEI or chymase inhibitor (CI). Both ACE and chymase are highly involved in Ang II generation in HFD-induced DN; therefore, ACEI and CI are potential treatments for DN.
Consideration of SHP-1 as a Molecular Target for Tumor Therapy
Authors: Lim Seyeon , Lee Ki Won , Kim Jeong Yoon , Kim Kwang Dong
Published: December 2023

Abnormal activation of receptor tyrosine kinases (RTKs) contributes to tumorigenesis, while protein tyrosine phosphatases (PTPs) contribute to tumor control. One of the most representative PTPs is Src homology region 2 (SH2) domain-containing phosphatase 1 (SHP-1), which is associated with either an increased or decreased survival rate depending on the cancer type. Hypermethylation in the promoter region of PTPN6, the gene for the SHP-1 protein, is a representative epigenetic regulation mechanism that suppresses the expression of SHP-1 in tumor cells. SHP-1 comprises two SH2 domains (N-SH2 and C-SH2) and a catalytic PTP domain. Intramolecular interactions between the N-SH2 and PTP domains inhibit SHP-1 activity. Opening of the PTP domain by a conformational change in SHP-1 increases enzymatic activity and contributes to a tumor control phenotype by inhibiting the activation of the Janus kinase/signal transducer and activator of transcription (JAK/STAT3) pathway. Although various compounds that increase SHP-1 activation or expression have been proposed as tumor therapeutics, except sorafenib and its derivatives, few candidates have demonstrated clinical significance. In some cancers, SHP-1 expression and activation contribute to a tumorigenic phenotype by inducing a tumor-friendly microenvironment. Therefore, developing anticancer drugs targeting SHP-1 must consider the effect of SHP-1 on both cell biological mechanisms of SHP-1 in tumor cells and the tumor microenvironment according to the target cancer type. Furthermore, the use of combination therapies should be considered.
Intracranial Assessment of Androgen Receptor Antagonists in Mice Bearing Human Glioblastoma Implants
Authors: Zalcman Nomi , Larush Liraz , Ovadia Haim , Charbit Hanna , Magdassi Shlomo , Lavon Iris
Published: December 2023

The median survival time of patients with an aggressive brain tumor, glioblastoma, is still poor due to ineffective treatment. The discovery of androgen receptor (AR) expression in 56% of cases offers a potential breakthrough. AR antagonists, including bicalutamide and enzalutamide, induce dose-dependent cell death in glioblastoma and glioblastoma-initiating cell lines (GIC). Oral enzalutamide at 20 mg/kg reduces subcutaneous human glioblastoma xenografts by 72% (p = 0.0027). We aimed to further investigate the efficacy of AR antagonists in intracranial models of human glioblastoma. In U87MG intracranial models, nude mice administered Xtandi (enzalutamide) at 20 mg/kg and 50 mg/kg demonstrated a significant improvement in survival compared to the control group (p = 0.24 and p < 0.001, respectively), confirming a dose–response relationship. Additionally, we developed a newly reformulated version of bicalutamide, named “soluble bicalutamide (Bic-sol)”, with a remarkable 1000-fold increase in solubility. This reformulation significantly enhanced bicalutamide levels within brain tissue, reaching 176% of the control formulation’s area under the curve. In the U87MG intracranial model, both 2 mg/kg and 4 mg/kg of Bic-sol exhibited significant efficacy compared to the vehicle-treated group (p = 0.0177 and p = 0.00364, respectively). Furthermore, combination therapy with 8 mg/kg Bic-sol and Temozolomide (TMZ) demonstrated superior efficacy compared to either Bic-sol or TMZ as monotherapies (p = 0.00706 and p = 0.0184, respectively). In the ZH-161 GIC mouse model, the group treated with 8 mg/kg Bic-sol as monotherapy had a significantly longer lifespan than the groups treated with TMZ or the vehicle (p < 0.001). Our study demonstrated the efficacy of androgen receptor antagonists in extending the lifespan of mice with intracranial human glioblastoma, suggesting a promising approach to enhance patient outcomes in the fight against this challenging disease.
Sandwich ELISA for the Quantification of Nucleocapsid Protein of SARS-CoV-2 Based on Polyclonal Antibodies from Two Different Species
Authors: Mladenovic Stokanic Maja , Simovic Ana , Jovanovic Vesna , Radomirovic Mirjana , Udovicki Bozidar , Krstic Ristivojevic Maja , Djukic Teodora , Vasovic Tamara , Acimovic Jelena , Sabljic Ljiljana , Lukic Ivana , Kovacevic Ana , Cujic Danica , Gnjatovic Marija , Smiljanic Katarina , Stojadinovic Marija , Radosavljevic Jelena , Stanic-Vucinic Dragana , Stojanovic Marijana , Rajkovic Andreja , Cirkovic Velickovic Tanja
Published: December 2023

In this study, a cost-effective sandwich ELISA test, based on polyclonal antibodies, for routine quantification SARS-CoV-2 nucleocapsid (N) protein was developed. The recombinant N protein was produced and used for the production of mice and rabbit antisera. Polyclonal N protein-specific antibodies served as capture and detection antibodies. The prototype ELISA has LOD 0.93 ng/mL and LOQ 5.3 ng/mL, with a linear range of 1.52–48.83 ng/mL. N protein heat pretreatment (56 °C, 1 h) decreased, while pretreatment with 1% Triton X-100 increased analytical ELISA sensitivity. The diagnostic specificity of ELISA was 100% (95% CI, 91.19–100.00%) and sensitivity was 52.94% (95% CI, 35.13–70.22%) compared to rtRT-PCR (Ct < 40). Profoundly higher sensitivity was obtained using patient samples mostly containing Wuhan-similar variants (Wuhan, alpha, and delta), 62.50% (95% CI, 40.59 to 81.20%), in comparison to samples mostly containing Wuhan-distant variants (Omicron) 30.00% (6.67–65.25%). The developed product has relatively high diagnostic sensitivity in relation to its analytical sensitivity due to the usage of polyclonal antibodies from two species, providing a wide repertoire of antibodies against multiple N protein epitopes. Moreover, the fast, simple, and inexpensive production of polyclonal antibodies, as the most expensive assay components, would result in affordable antigen tests.