Comprehensive analysis of differentially expressed circRNAs and ceRNA regulatory network in porcine skeletal muscle

BACKGROUND

Circular RNA (circRNA), a novel class of non-coding RNA, has a closed-loop structure with important functions in skeletal muscle growth. The purpose of this study was to investigate the role of differentially expressed circRNAs (DEcircRNAs), as well as the DEcircRNA-miRNA-mRNA regulatory network, at different stages of porcine skeletal muscle development. Here, we present a panoramic view of circRNA expression in porcine skeletal muscle from Large White and Mashen pigs at 1, 90, and 180 days of age.

RESULTS

We identified a total of 5819 circRNAs. DEcircRNA analysis at different stages showed 327 DEcircRNAs present in both breeds. DEcircRNA host genes were concentrated predominately in TGF-β, MAPK, FoxO, and other signaling pathways related to skeletal muscle growth and fat deposition. Further prediction showed that 128 DEcircRNAs could bind to 253 miRNAs, while miRNAs could target 945 mRNAs. The constructed ceRNA network plays a vital role in skeletal muscle growth and development, and fat deposition. Circ_0015885/miR-23b/SESN3 in the ceRNA network attracted our attention. miR-23b and SESN3 were found to participate in skeletal muscle growth regulation, also playing an important role in fat deposition. Using convergent and divergent primer amplification, RNase R digestion, and qRT-PCR, circ_0015885, an exonic circRNA derived from Homer Scaffold Protein 1 (HOMER1), was confirmed to be differentially expressed during skeletal muscle growth. In summary, circ_0015885 may further regulate SESN3 expression by interacting with miR-23b to function in skeletal muscle.

CONCLUSIONS

This study not only enriched the circRNA library in pigs, but also laid a solid foundation for the screening of key circRNAs during skeletal muscle growth and intramural fat deposition. In addition, circ_0015885/miR-23b/SESN3, a new network regulating skeletal muscle growth and fat deposition, was identified as important for increasing the growth rate of pigs and improving meat quality.

Effect of selenium on the dysfunction of rat salivary glands induced by 131I and expression of insulin-like growth factors and aquaporins

OBJECTIVES

To investigate the effects of selenium on functional and histopathological changes and mRNA expression levels of insulin-like growth factors 1 and 2 (IGF-1 and -2) and aquaporins 4 and 5 (AQP-4 and -5) in 131 I-induced damaged rat parotid glands.

METHODS

Rats were divided into three groups: iodotherapy-with-selenium, iodotherapy-only, and control. Rats in the iodotherapy-with-selenium group were intragastrically administered 131 I on the first day and selenomethionine through drinking water. Rats in the iodotherapy-only group were only administered 131 I. Changes in parotid gland function were evaluated using the functional parameters of salivary gland dynamics imaging pre-experiment and on days 7, 30, and 90 post-treatment. Immunofluorescence and quantitative real-time PCR analyses detected IGF-1, IGF-2, AQP-4, and AQP-5 expression levels in tissues.

RESULTS

The gland-to background ratio at a maximum count (G/BG max ), T max /T min , and S max values were significantly impacted over time in the iodotherapy-with-selenium group; on day 30, the G/BG max value was significantly higher than that in the iodotherapy-only group. Histopathological analysis revealed that on days 30 and 90, the iodotherapy-with-selenium group displayed greater parotid gland repair than the iodotherapy-only group. In the iodotherapy-with-selenium group, fluorescence intensity and mRNA levels of AQP-5 increased with the selenium supplementation period, reaching significantly higher levels on days 30 and 90 than in the iodotherapy-only group. Whereas the fluorescence intensity and mRNA levels of IGF-1 in the iodotherapy-with-selenium group were significantly higher on day 7 than on day 30 in the iodotherapy-only group.

CONCLUSION

Selenium may repair 131 I-induced tissue and functional damage in rat salivary glands by upregulating AQP-5 and IGF-1 expression.

Design and antiviral assessment of a panel of fusion proteins targeting human papillomavirus type 16

Cervical cancer ranks as the third most prevalent malignancy in women worldwide. The persistence of Human papillomavirus (HPV) infection stands out as the foremost risk factor for cervical cancer development. Among the numerous HPV subtypes, HPV16 infection emerges as the primary pathogenic determinant of cervical cancer. To date, no specific drugs have been approved. In this study, we engineered two high-affinity fusion protein targeting HPV16 L1 protein based on the alpaca-derived single-domain antibody 2C12 previously obtained in our laboratory. These two fusion proteins exhibited potent neutralizing activity against HPV16 pseudovirus with IC50 values of 7.8 nM and 6.5 nM, respectively. Molecular docking analysis revealed that 2C12 formed ten pairs of hydrogen bonds with HPV16 L1, among which Arg39 and Thr100 established multiple pairs of hydrogen bonds with HPV16 L1, indicating their crucial roles in antigen-antibody binding process. These structural and biological findings underscore the effective binding capacity of these fusion proteins to HPV16, leading to reduced viral load and providing valuable insights into therapeutic antibody and vaccine development against HPV 16 infection.

Exploration and Validation of Potential Biomarkers and Therapeutic Targets in Ferroptosis of Asthma

Purpose

Asthma is a chronic inflammatory airway disease involving multiple mechanisms, of which ferroptosis is a form of programmed cell death. Recent studies have shown that ferroptosis may play a crucial role in the pathogenesis of asthma, but no specific ferroptosis gene has been found in asthma, and the exact mechanism is still unclear. The present study aimed to screen ferroptosis genes associated with asthma and find therapeutic targets, in order to contribute a new clue for the diagnosis and therapy of asthma.

Methods

Ferroptosis-related differentially expressed genes (FR-DEGs) in asthma were selected by the GSE41861, GSE43696 and ferroptosis datasets. Next, the FR-DEGs were subjected by GO and KEGG enrichment, and the mRNA-miRNA network was constructed. Then, GSEA and GSVA enrichment analysis and Immune infiltration analysis were performed, followed by targeted drug prediction. Finally, the expression of FR-DEGs was confirmed using GSE63142 dataset and RT-PCR assay.

Results

We found 13 FR-DEGs by the GSE41861, GSE43696 and ferroptosis database. Functional enrichment analysis revealed that the 13 FR-DEGs were enriched in oxidative stress, immune response, ferroptosis, lysosome, necrosis, apoptosis etc. Moreover, our results revealed the mRNA-miRNA network of the FR-DEGs and identified candidate drugs. Also, immune infiltration revealed that ELAVL1, CREB5, CBR1 and NR1D2 are associated with the immune cells and may be potential targets in asthma. Finally, 10 FR-DEGs were validated by the GSE63142 database. It was verified that 7 FR-DEGs were differentially expressed by collecting asthma patients and healthy controls.

Conclusion

This study ultimately identified 7 FR-DEGs for the diagnosis and therapy of asthma. These 7 FR-DEGs contribute to oxidative stress and immune responses. This study provides potential therapeutic targets and biomarkers for asthma patients, shedding further light on the pathogenesis of asthma as well as providing new insights into the treatment of asthma.

Exploring the Therapeutic Potential of Glycyrrhiza Compounds in Alzheimer's Disease: A Comprehensive Review

Alzheimer's disease (AD) is a progressive neurodegenerative disorder. Research shows that the development of AD is linked to neuroinflammation, endoplasmic reticulum stress, mitochondrial dysfunction, cell death, and abnormal cholinergic signaling. Glycyrrhiza compounds contain active ingredients and extracts that offer multiple benefits, including targeting various pathways, high efficacy with low toxicity, and long-lasting therapeutic effects. These benefits highlight the significant potential of Glycyrrhiza compounds for preventing and treating AD. This review summarizes recent advancements in Glycyrrhiza compounds for preventing and treating AD. It focuses on their inhibitory effects on key signaling pathways, such as Toll-like receptor 4 (TLR4), nuclear factor-κB (NF-κB), mitogen-activated protein kinase (MAPK), and cholinergic signaling. This study aims to establish a scientific framework for using Glycyrrhiza compounds in the clinical prevention and treatment of AD and to support the development of new therapeutic interventions.

Simple strategy for dual-responsive ratio electrochemical-colorimetric detection of nitrite in food and environment

A dual-responsive ratio electrochemical-colorimetric method for nitrite (NO2-) is established based on the combination of nanoenzyme (Mn3O4) catalysis with diazotization reactions. The Mn3O4 can oxidize colorless 3,3',5,5'-tetramethylbenzidine (TMB) into blue TMBox. The NO2- induces the diazotization reaction of TMBox, leading to a decrease of  the signal at 652 nm and the generation of a new signal from diazotized TMBox at 445 nm. Furthermore, the presence of NO2- reduces the electrochemical oxidation signal of TMB and simultaneously provides its electrochemical signal. Compared with traditional single-mode detection, dual-mode detection offers higher sensitivity, lower detection limits, and better interference resistance. The inherent advantages of this method make it feasible to detect NO2- in real samples, offering broad prospects for applications in food safety and environmental monitoring.

Similar experimental study on diffusion and distribution of diesel exhaust in confined space of a coal mine

In the confined space of the underground coal mine, which is dominated by transportation lanes, explosion-proof diesel-powered trackless rubber-wheeled vehicles are becoming the main transportation equipment, and the exhaust gas produced by them is hazardous to the health of workers and pollutes the underground environment. In this experiment, a similar test platform is built to study the effects of wind speed, vehicle speed, and different wind directions on the diffusion characteristics of exhaust gas. In this paper, CO and SO2 are mainly studied. The results show that the diffusion of CO and SO2 gas is similar and the maximum SO2 concentration only accounts for 11.4% of the CO concentration. Exhaust gas is better diluted by increasing the wind speed and vehicle speed, respectively. Downwind is affected by the reverse wind flow and diffuses to the driver's position, which is easy to cause occupational diseases. When the wind is a headwind, the exhaust gases spread upwards and make a circumvention movement, gathering at the top. When the wind speed and vehicle speed are both 0.6 m/s, the CO concentration corresponds to the change trend of the Lorentz function when the wind is downwind and the CO concentration corresponds to the change trend of the BiDoseResp function when the wind is headwind. The study of exhaust gas diffusion characteristics is of great significance for the subsequent purification of the air in the restricted mine space and the protection of the workers' occupational health.

Balanced Fertilization Improves Crop Production and Soil Organic Carbon Sequestration in a Wheat-Maize Planting System in the North China Plain

Maintaining the long-term viability of a wheat-maize planting system, particularly the synchronous improvement of crop production and soil organic carbon (SOC) sequestration, is crucial for ensuring food security in the North China Plain. A field experiment in which wheat-maize was regarded as an integral fertilization unit was carried out in Shanxi Province, China, adopting a split-plot design with different distribution ratios of phosphorus (P) and potassium (K) fertilizer between wheat and maize seasons in the main plot (A) (a ratio of 3:0, A1; a ratio of 2:1, A2) and different application rates of pure nitrogen (N) during the entire wheat and maize growth period (B) (450 kg·ha-1, B1; 600 kg·ha-1, B2). Moreover, no fertilization was used in the entire wheat and maize growth period for the control (CK). The findings showed that A2B1 treatment led to the highest response, with an average wheat yield of 7.75 t·ha-1 and an average maize yield of 8.40 t·ha-1 over the last 9 years. The highest SOC content (15.13 g·kg-1), storage (34.20 t·ha-1), and sequestration (7.11 t·ha-1) were also observed under the A2B1 treatment. Both enhanced crop yield and SOC sequestration resulted from improvements in cumulative carbon (C) input, soil nutrients, and stoichiometry under the A2B1 treatment. It was confirmed that total N (TN), alkali-hydrolysable N (AN), available P (AP), available K (AK), and the ratios of C:K, N:K, and N:P had positive effects on crop yield through the labile components of SOC and on SOC sequestration through microbial necromass C. To conclude, our findings highlight the urgent need to optimize fertilizer management strategies to improve crop production and SOC sequestration in the North China Plain.

Pyroptosis and its role in autoimmune skin disease

Autoimmune skin disease is a kind of heterogeneous disease with complicated pathogenesis. Many factors such as genetic, infectious, environmental and even psychological factors may interact together to trigger a synergistic effect for the development of abnormal innate and adaptive immune responses. Although the exact mechanisms remain unclear, recent evidence suggests that pyroptosis plays a pivotal role in the development of autoimmune skin disease. The feature of pyroptosis is the first formation of pores in cellular membranes, then cell rupture and the release of intracellular substances and pro-inflammatory cytokines, such as interleukin-1 beta (IL-1β) and IL-18. This hyperactive inflammatory programmed cell death damages the homeostasis of the immune system and advances autoimmunity. This review briefly summarises the molecular regulatory mechanisms of pyrin domain-containing protein 3 (NLRP3) inflammasome and gasdermin family, as well as the molecular mechanisms of pyroptosis, highlights the latest progress of pyroptosis in autoimmune skin disease, including systemic lupus erythematosus, psoriasis, atopic dermatitis and systemic scleroderma and attempts to identify its potential advantages as a therapeutic target or prognostic biomarker for these diseases.

Concordance between Genotypic and Phenotypic Drug-Resistant Profiles of Shigella Isolates from Taiyuan City, Shanxi Province, China, 2005 to 2016

Antimicrobial resistance in Shigella spp. is a global public health concern. In this study, the AMR phenotypic profiles of 10 kinds of antibiotics were compared with the genotypic profiles using genomic analysis of 218 Shigella isolates from Taiyuan City, Shanxi Province, China, 2005 to 2016. Core genome Multilocus Sequence Typing (cgMLST) based on the EnteroBase Escherichia/Shigella scheme was used to obtain the genetic relatedness of Shigella isolates. Multiple-drug resistance was observed in 96.79% Shigella spp., and the resistance to antimicrobial agents varied between S. flexneri and S. sonnei. The genotypic results correlated well with the phenotypic profiles with concordance rates of 96.42% and 94.50% in S. flexneri and S. sonnei isolates, respectively, from Taiyuan City, Shanxi Province. The sensitivity and specificity of the genotypic antimicrobial susceptibility testing (AST) were 97.56% and 95.34% for S. flexneri, and 95.65% and 93.31% for S. sonnei isolates, respectively. A discrepancy of genotypic and phenotypic AST results existed in some cephalosporin- and azithromycin-resistant Shigella isolates; there were no clear resistance patterns to predict ciprofloxacin resistance. There were major discrepancies between genotypic and phenotypic AST in the genotypically resistant but phenotypically susceptible isolates. The drug-resistance patterns and essential drug-resistance genes to predict the phenotypic drug-resistant profiles were the discrepancies between S. flexneri and S. sonnei isolates. Phylogenetic analysis showed that isolates of the same cluster but with different antibiotic-resistance gene patterns occurred because of the loss or gain of antibiotic-resistance genes located in the plasmids and multidrug-resistance islands. IMPORTANCE Antimicrobial resistance in Shigella spp. has become a global public health concern. In this study, we identified the antimicrobial susceptibility testing (AST) characteristics based on genomic sequences of 218 Shigella isolates and analyzed the correlation between genotypic and phenotypic antibiotic resistance profiles of Shigella spp., especially for fluoroquinolone, macrolides, and third-generation cephalosporins. Our results show that the genotypic results correlated with the phenotypic profiles with concordance rates of 96.42% and 94.50% in S. flexneri and S. sonnei isolates, respectively. The drug-resistance patterns and essential drug-resistance genes to predict the phenotypic drug-resistant profiles of S. flexneri and S. sonnei isolates in Taiyuan city were distinct. The discrepancy between genotypic and phenotypic AST was considerable in the genotypically resistant but phenotypically susceptible isolates. The information on drug resistance and resistance genes in this study can offer more details on the prevalence of drug resistance of Shigella spp.

Pyroptosis in Spinal Cord Injury: Implications for Pathogenesis and Therapeutic Approaches

Traumatic spinal cord injury (SCI) is a serious disease of the central nervous system. Aside from the limited intrinsic regenerative capacity of neurons, complex microenvironmental disturbances can also lead to further cellular damage and growth inhibition. Programmed cell death regulated by pyroptosis has an important role in the pathogenesis of SCI. While there has been a wealth of new knowledge regarding cellular pyroptosis, a detailed understanding of its role in SCI and possible therapeutic strategies is still lacking. This review summarizes current advances in the regulatory role of pyroptosis-regulated cell death and inflammasome components in the inhibitory microenvironment following SCI, as well as recent therapeutic advances.

Effect of glutathione reductase on photosystem II characterization and reactive oxygen species metabolism in cotton cytoplasmic male sterile line Jin A

Glutathione reductase (GR) maintains the cellular redox state by reducing oxidized glutathione to glutathione (GSH), which regulates antioxidant defense. Additionally, GR plays an essential role in photosynthesis; however, the mechanism by which GR regulates photosystem II (PSII) is largely unknown. We identified six, three, and three GR genes in Gossypium hirsutum, Gossypium arboreum, and Gossypium raimondii, respectively. We found that GhGR1 and GhGR3 proteins were localized in the chloroplasts, whereas GhGR5 was localized in the cell membrane. Cytoplasmic male sterile (CMS) line Jin A was ideal to explore GR functions because accumulation of reactive oxygen species (ROS) was increased and expression of GhGR was downregulated at the key stage of microspore abortion in anthers compared to maintainer Jin B. The GR activity and relative GhGR1, GhGR3, GhGR5 gene expressions decreased significantly at the key stage of microspore abortion in Jin A-CMS compared to that in Jin B, resulting in an increase in ROS and a decrease in photochemical efficiency in PSII. GhGR1 and GhGR3 overexpression in Arabidopsis decreased ROS levels in anthers and leaves compared to the wild-type. Biochemical analysis of GhGR1 and GhGR3 silencing in Gossypium L. showed that ROS content was increased and photochemical efficiency of PSII was inhibited in leaves. Complementation experiments in tobacco and yeast indicated that GhGR1 interacted with GhPsbX, which was one of the subunits of the PSII protein complex. Taken together, these findings suggest that chloroplast GR plays an important role in PSII and ROS metabolism by interacting with PsbX in cotton plants.

Dietary Angelica sinensis Enhances Sow Lactation and Piglet Development Through Gut Microbiota and Metabolism

Piglets weaned per sow per year (PSY) is a crucial metric for assessing the reproductive performances of sows and directly affects both sow productivity and the economic profitability of pig farms [...].

Downregulation of lysine 2-hydroxyisobutyrylation of ErbB3 binding protein 1 at amino acid 210 promotes keratinocyte proliferation via induction of transcription initiation factor IA-mediated rRNA synthesis

BACKGROUND

Psoriasis is a prevalent chronic inflammatory dermatosis characterized by the excessive proliferation of keratinocytes (KCs). Lysine 2-hydroxyisobutyrylation (Khib) is a newly identified post-translational modification that regulates various biological processes. Abnormal Khib modification has been associated with the development of autoimmune diseases.

OBJECTIVES

To investigate the abnormal Khib modification profile and its pathogenic role in psoriasis.

METHODS

Liquid chromatography-tandem mass spectrometry was used to analyse Khib-modified proteins in the epidermis of psoriasis lesions and healthy control skin. Mutated cells and mice with downregulated Khib modification of ErbB3 binding protein 1 (EBP1) at amino acid 210 (EBP1Khib210) were generated, to investigate the functional effects of EBP1Khib210 in psoriasis.

RESULTS

Omics analysis revealed dysregulation of Khib modification in psoriatic lesions, exhibiting a distinct profile compared with controls. We found downregulation of EBP1Khib210 in psoriatic lesions and mice with imiquimod-induced psoriasis. Notably, expression of EBP1Khib210 was upregulated in patients with psoriasis following effective treatment. Decreased EBP1Khib210 enhanced KC viability, proliferation and survival but inhibited apoptosis in vitro. Additionally, Pa2g4K210A mice with downregulated Ebp1Khib210 exhibited more severe psoriatic lesions and enhanced KC proliferation. Moreover, we found that the EBP1K210A mutation increased the interaction between EBP1 and nuclear protein kinase B (Akt), thereby inhibiting mouse double minute 2-mediated transcription initiation factor IA (TIF-IA) ubiquitination and resulting in increased rRNA synthesis and KC proliferation. Downregulation of EBP1Khib210 was attributed to an inflammation-induced increase in histone deacetylase 2 expression.

CONCLUSIONS

Downregulation of EBP1Khib210 promoted KC proliferation by modulating Akt signalling and TIF-IA-mediated rRNA synthesis. These insights into Khib modification provide better understanding of the pathogenesis of psoriasis and suggest potential therapeutic targets.

MRI transformer deep learning and radiomics for predicting IDH wild type TERT promoter mutant gliomas

This study aims to predict IDH wt with TERTp-mut gliomas using multiparametric MRI sequences through a novel fusion model, while matching model classification metrics with patient risk stratification aids in crafting personalized diagnostic and prognosis evaluations.Preoperative T1CE and T2FLAIR sequences from 1185 glioma patients were analyzed. A MultiChannel_2.5D_DL model and a 2D DL model, both based on the cross-scale attention vision transformer (CrossFormer) neural network, along with a Radiomics model, were developed. These were integrated via ensemble learning into a stacking model. The MultiChannel_2.5D_DL model outperformed the 2D_DL and Radiomics models, with AUCs of 0.806-0.870. The stacking model achieved the highest AUC (0.855-0.904) across validation sets. Patients were stratified into high-risk and low-risk groups based on stacking model scores, with significant survival differences observed via Kaplan-Meier analysis and log-rank tests. The stacking model effectively identifies IDH wt TERTp-mutant gliomas and stratifies patient risk, aiding personalized prognosis.