Single-Cell RNA-Sequencing Reveals Heterogeneity and Transcriptional Dynamics in Porcine Circulating CD8+ T Cells.

Pigs are the most important source of meat and valuable biomedical models. However, the porcine immune system, especially the heterogeneity of CD8 T cell subtypes, has not been fully characterized. Here, using single-cell RNA sequencing, we identified 14 major cell types from peripheral blood circulating cells of pigs and observed remarkable heterogeneity among CD8 T cell types. Upon re-clustering of CD8+ T cells, we defined four CD8 T cell subtypes and revealed their potential differentiation trajectories and transcriptomic differences among them. Additionally, we identified transcription factors with potential regulatory roles in maintaining CD8 T cell differentiation. The cell-cell communication analysis inferred an extensive interaction between CD8 T cells and other immune cells. Finally, cross-species analysis further identified species-specific and conserved cell types across different species. Overall, our study provides the first insight into the extensive functional heterogeneity and state transitions among porcine CD8 T cell subtypes in pig peripheral blood, complements the knowledge of porcine immunity, and enhances its potential as a biomedical model.

A root cap-localized NAC transcription factor controls root halotropic response to salt stress in Arabidopsis.

Plants are capable of altering root growth direction to curtail exposure to a saline environment (termed halotropism). The root cap that surrounds root tip meristematic stem cells plays crucial roles in perceiving and responding to environmental stimuli. However, how the root cap mediates root halotropism remains undetermined. Here, we identified a root cap-localized NAC transcription factor, SOMBRERO (SMB), that is required for root halotropism. Its effect on root halotropism is attributable to the establishment of asymmetric auxin distribution in the lateral root cap (LRC) rather than to the alteration of cellular sodium equilibrium or amyloplast statoliths. Furthermore, SMB is essential for basal expression of the auxin influx carrier gene AUX1 in LRC and for auxin redistribution in a spatiotemporally-regulated manner, thereby leading to directional bending of roots away from higher salinity. Our findings uncover an SMB-AUX1-auxin module linking the role of the root cap to the activation of root halotropism.

VO2 Films Decorated with an MXene Interface for Decreased-Power-Triggered Terahertz Modulation.

VO2, which exhibits semiconductor-metal phase transition characteristics occurring on a picosecond time scale, holds great promise for ultrafast terahertz modulation in next-generation communication. However, as of now, there is no reported prototype for an ultrafast device. The temperature effect has been proposed as one of the major obstacles. Consequently, reducing the excitation threshold for the phase transition would be highly significant. The traditional strategy typically involves chemical doping, but this approach often leads to a decrease in phase transition amplitude and a slower transition speed. In this work, we proposed a design featuring a highly conductive MXene interfacial layer between the VO2 film and the substrate. We demonstrate a significant reduction in the phase transition threshold for both temperature and laser-induced phase transition by adjusting the conductivity of the MXene layers with varying thicknesses. Our observations show that the phase transition temperature can be decreased by 9 °C, while the pump fluence for laser excitation can be reduced by as high as 36%. The ultrafast phase transition process on a picosecond scale, as revealed by the optical-pump terahertz-probe method, suggests that the MXene layers have minimal impact on the phase transition speed. Moreover, the reduced phase transition threshold can remarkably alleviate the photothermal effect and inhibit temperature rise and diffusion in VO2 triggered by laser. This study offers a blueprint for designing VO2/MXene hybrid films with reduced phase transition thresholds. It holds significant potential for the development of low-power, intelligent optical and electrical devices including, but not limited to, terahertz modulators based on phase transition phenomena.

Comparative transcriptome analysis of T lymphocyte subpopulations and identification of critical regulators defining porcine thymocyte identity.

Introduction: The development and migration of T cells in the thymus and peripheral tissues are crucial for maintaining adaptive immunity in mammals. However, the regulatory mechanisms underlying T cell development and thymocyte identity formation in pigs remain largely underexplored. Method: Here, by integrating bulk and single-cell RNA-sequencing data, we investigated regulatory signatures of porcine thymus and lymph node T cells. Results: The comparison of T cell subpopulations derived from porcine thymus and lymph nodes revealed that their transcriptomic differences were influenced more by tissue origin than by T cell phenotypes, and that lymph node cells exhibited greater transcriptional diversity than thymocytes. Through weighted gene co-expression network analysis (WGCNA), we identified the key modules and candidate hub genes regulating the heterogeneity of T cell subpopulations. Further, we integrated the porcine thymocyte dataset with peripheral blood mononuclear cell (PBMC) dataset to systematically compare transcriptomic differences between T cell types from different tissues. Based on single-cell datasets, we further identified the key transcription factors (TFs) responsible for maintaining porcine thymocyte identity and unveiled that these TFs coordinately regulated the entire T cell development process. Finally, we performed GWAS of cell type-specific differentially expressed genes (DEGs) and 30 complex traits, and found that the DEGs in thymus-related and peripheral blood-related cell types, especially CD4_SP cluster and CD8-related cluster, were significantly associated with pig productive and reproductive traits. Discussion: Our findings provide an insight into T cell development and lay a foundation for further exploring the porcine immune system and genetic mechanisms underlying complex traits in pigs.

H3K27ac modification and transcription characteristics of adipose and muscle tissues in Chuxiang Black pig.

The establishment of high-quality pork breeds for improving meat quality in the pig industry is needed. The Chuxiang Black (CX) pig is a new breed developed from Chinese local pigs and Western lean pigs that has a high proportion of lean meat and excellent meat quality. However, the characteristics of cis-regulatory elements in CX pigs are still unknown. In this study, cis-regulatory elements of muscle and adipose tissues in CX pigs were investigated using ChIP-seq and RNA sequencing. Compared with the reported cis-regulatory elements of muscle and adipose tissues, 1768 and 1012 highly activated enhancers and 433 and 275 highly activated promoters in CX muscle and adipose tissues were identified, respectively. Motif analysis showed that transcription factors, such as MEF2A and MEF2C, were core regulators of highly activated enhancers and promoters in muscle. Similarly, the transcription factors JUNB and CUX1 were identified as essential for highly activated enhancers and promoters in CX adipose tissue. These results enrich the resources for the analysis of cis-regulatory elements in the pig genome and provide new basic data for further meat quality improvement through breeding in pigs.

A dynamic spatiotemporal model for fall warning and protection.

Early detection of falls is important for reducing fall injuries. However, existing fall detection strategies mostly focus on reducing impact injuries rather than avoiding falls. This study proposed the concept of identifying "Imbalance Point" to warn the body imbalance, allowing sufficient time to recover balance. And if falling cannot be avoided, an impact sign is released by detecting the "Fall Point" prior to the impact. To achieve this goal, motion prediction model and balance recovery model are integrated into a spatiotemporal framework to analyze dynamic and kinematic features of body motion. Eight healthy young volunteers participated in three sets of experiment: Normal trial, Recovery trial and Fall trial. The body motion in the trials was recorded using Microsoft Azure Kinect. The results show that the developed algorithm for Fall Point detection achieved 100% sensitivity and 98.6% specificity, along with an average lead time of 297 ms. Moreover, Imbalance Point was successfully detected in all Fall trials, and the average time interval between Imbalance Point and Fall Point was 315 ms, longer than reported step reaction time for elderly (approximately 270 ms). The experiment results demonstrate that the developed algorithm have great potential for fall warning and protection in the elderly.

Arsenic pollution, geochemical fractions, and leaching characteristics in soil samples from four contaminated sites in the Beijiang River Basin, South China.

To remediate historically polluted sites before their land-use changes, it is essential to understand the concentration distribution, geochemical fraction, and migratory behavior of As in soil with varied particle sizes for the use of a sieving procedure. This study investigated the amount and percentage of As in soil with different particle sizes (0.25, 0.25-1, and 1-2 mm) as well as its toxicity characteristic in leaching procedure at four previously contaminated sites in the Beijiang River Basin, South China. The results showed that the total As concentration in the collected soils ranged from 70.1 to 402.8 mg/kg, and only a few percent of soil particle samples had As contents below the local risk threshold value of 60 mg/kg. The amorphous hydrous oxide bound, crystalline hydrous oxide bound, and residual fractions (F3-F5) of the geochemical fraction of As in soil of polluted sites accounted for 82.2-95.7% of the total As distribution. However, the concentration of As in non-specifically bound fractions increased with the mass ratio of soil with coarse particle sizes due to the negative correlation of Fe-bearing minerals concentration with the mass ratio of soil with coarse particle size. According to redundancy analysis, soil with coarse particle sizes and non-specifically bound As were mostly responsible for the As concentration in the leachate. These findings confirmed that a sieving process was not suitable for the remediation of soil As at four historically contaminated sites in the Beijiang River Basin due to the high concentration of As in soil and non-negligible environmental risk of labile extractable As in soil with coarse particle size.

Spatiotemporal variations and dominated environmental parameters of nitrous oxide (N2O) concentrations from cascade reservoirs in southwest China.

Anthropogenic activity has caused rivers and reservoirs to become sources of nitrous oxide (N2O), which is thought to play an important role in global climate change. There are thermal and DO stratification in deep-water reservoirs with long hydraulic retention time, which change N2O production mechanism compared with shallow-water reservoirs. To promote our understanding of the relationship of N2O production in reservoirs at different depths, spatiotemporal variations in water environmental factors and N2O from cascade reservoirs of Chaishitan (CST), Longtan (LT), Yantan (YT) and Dahua (DH) reservoirs in the Zhujiang River were detected, and the LT and YT reservoirs were compared as representatives of deep-water and shallow-water reservoirs in April and July 2019. The average N2O concentrations in the LT and YT reservoirs were 22.82 ± 2.21 and 21.55 ± 1.65 nmol L-1, respectively. During spring and summer, the WT (water temperature) and DO (dissolved oxygen) concentrations in the YT reservoir were well mixed. In contrast, the LT reservoir, as a deep-water reservoir, had thermal and DO stratifications in both the shallow and middle water, especially in the summer when the solar radiation intensity was high. During summer stratification, the DO concentration in the LT reservoir showed obvious spatial variation, ranging from 1.23 to 9.84 mg L-1, while the DO concentration in the YT reservoir showed very little variation, ranging from 6.45 to 7.09 mg L-1. Structural equation modeling results showed that NH4+ was the main determinant of the N2O concentration in the YT reservoir, and DO was the most influential factor of the N2O concentration in the LT reservoir. These results suggest significant variations in the factors influencing N2O concentration among reservoirs. Additionally, the mechanisms of N2O production differ between deep-water and shallow-water reservoirs. This study highlights the spatio-temporal variations and influential factors contributing to N2O concentration. Furthermore, it discusses the production mechanisms of N2O in different types of reservoirs. These findings contribute to our understanding of N2O distribution in hydropower systems and provide valuable data for the management of hydropower facilities and research on greenhouse gas emissions.

Reinforcement Learning Model for Managing Noninvasive Ventilation Switching Policy.

Noninvasive ventilation (NIV) has been recognized as a first-line treatment for respiratory failure in patients with chronic obstructive pulmonary disease (COPD) and hypercapnia respiratory failure, which can reduce mortality and burden of intubation. However, during the long-term NIV process, failure to respond to NIV may cause overtreatment or delayed intubation, which is associated with increased mortality or costs. Optimal strategies for switching regime in the course of NIV treatment remain to be explored.For the goal of reducing 28-day mortality of the patients undergoing NIV, Double Dueling Deep Q Network (D3QN) of offline-reinforcement learning algorithm was adopted to develop an optimal regime model for making treatment decisions of discontinuing ventilation, continuing NIV, or intubation. The model was trained and tested using the data from Multi-Parameter Intelligent Monitoring in Intensive Care III (MIMIC-III) and evaluated by the practical strategies. Furthermore, the applicability of the model in majority disease subgroups (Catalogued by International Classification of Diseases, ICD) was investigated. Compared with physician's strategies, the proposed model achieved a higher expected return score (4.25 vs. 2.68) and its recommended treatments reduced the expected mortality from 27.82% to 25.44% in all NIV cases. In particular, for these patients finally received intubation in practice, if the model also supported the regime, it would warn of switching to intubation 13.36 hours earlier than clinicians (8.64 vs. 22 hours after the NIV treatment), granting a 21.7% reduction in estimated mortality. In addition, the model was applicable across various disease groups with distinguished achievement in dealing with respiratory disorders. The proposed model is promising to dynamically provide personalized optimal NIV switching regime for patients undergoing NIV with the potential of improving treatment outcomes.

KCTD10 functions as a tumor suppressor in hepatocellular carcinoma by triggering the Notch signaling pathway.

OBJECTIVE: Our previous study found KCTD10 negatively regulates Notch signaling, but whether KCTD10 regulates human hepatocellular carcinoma (HCC) carcinogenicity was uncertain. METHODS: We used lentivirus infection to regulate KCTD10 expression in HCC cell lines, then monitored tumor sphere formation rate, cell migration, in vitro and in vivo tumorigenicity, cancer stem cell (CSC) biomarkers and Notch signaling variation. RESULTS: Down-regulation of KCTD10 in HCC cell lines (Hep3B and MHCC97H) enhanced the expression of CSC marker genes, promoted self-renewal and tumorigenic ability, and increased the CD133+ cell population. Further molecular studies showed that the transmembrane/intracellular region (NTM) of Notch1 decreased when KCTD10 was knocked down in HCC cell lines, and that the balance between P53 and Notch activity was regulated. CONCLUSIONS: The results demonstrated that KCTD10 can act as a tumor suppressor in HCC cells through Notch signaling.

Lurgi-Thyssen dust catalytic thermal desorption remediation of di-(2-ethylhexyl) phthalate contaminated soils.

Fe2O3-assisted pyrolysis has been demonstrated to be a cost-effective thermal desorption (TD) technology. Lurgi-Thyssen dust (LTD) is a type of steel slag waste that contains a large amount of Fe2O3. In this study, to reduce energy consumption, LTD was added to contaminated soil to evaluate the feasibility of enhancing the TD removal efficiency of di-(2-ethylhexyl) phthalate (DEHP). The DEHP removal rate increased by 22.39% after adding 2% LTD at 200 °C for 20 min. Because of the catalytic pyrolysis of LTD, DEHP was pyrolyzed to form three types of short-chain esters: mono-(2-ethylhexyl) phthalate (MEHP), di (2-methylbutyl) ester, and methyl 2-ethylhexyl phthalate. The pyrolysis products of DEHP were less toxic and did not affect soil reuse. When the DEHP removal rate was 87.10%, LTD addition decreased the temperature and residence time of TD and alleviated the effect of TD on the soil physicochemical properties. Additionally, the desorption of DEHP from soil fitted the pseudo-second-order kinetic model well. Thus, the addition of LTD to contaminated soil enhanced the efficiency of TD remediation. Moreover, this study could provide a practical and economical strategy for LTD reuse.

Highly Flexible Ti3C2Tx MXene/Waterborne Polyurethane Membranes for High-Efficiency Terahertz Modulation with Low Insertion Loss.

The dynamic control of terahertz (THz) wave transmission on flexible functional materials is a fundamental building block for wearable electronics and sensors in the THz range. However, achieving high-efficiency THz modulation and low insertion loss is a great challenge while maintaining the excellent flexibility and stretchability of the materials. Herein, we report a Ti3C2Tx MXene/waterborne polyurethane (WPU) membrane prepared by a vacuum-assisted filtration method, which exhibits excellent THz modulation properties across stretching. The hydrophilic Ti3C2Tx MXene and WPU enable the uniform 3D distribution of Ti3C2Tx MXene in the WPU matrix. Particularly, the stretchability with the maximum strain of the membranes can reach 200%, accompanied by dynamic tuning of THz transmittance for more than 90% and an insertion loss as low as -4.87 dB. The giant THz modulation continuously decreases with MXene content per unit area, accompanied by a lower density of the MXene interface and diminished THz absorption during stretching. Such a design opens a pathway for achieving flexible THz modulators with a high modulation depth and low insertion loss, which would be used for THz flexible and wearable devices.

Pleiotropic architectures of porcine immune and growth trait pairs revealed by a self-product-based transcriptome method.

Pleiotropy is an important biological phenomenon with complicated genetic architectures for multiple traits. To date, pleiotropy has been mainly identified by multi-trait genome-wide association studies, but this method has its disadvantages, and new developments for pleiotropy detection methods are needed. Here we define a novel metric, self-product, to measure individual-level co-variation of two traits, and develop a novel self-product-based transcriptome method to detect pleiotropic genes (PGs). Our method was tested using four immune-growth trait pairs and four immune-immune trait pairs in pigs. Comparative transcriptome analyses identified hundreds of candidate PGs related to eight trait pairs from two tails of self-product distribution. Gene Ontology enrichment analysis indicated that most of identified PGs were involved in immune- or growth-related biological processes. We established PG interaction networks to exhibit core genes shared by eight trait pairs, of which CCL5 and IL-10 genes were the hub genes. Genetic association analyses showed that SmaI-polymorphisms of CCL5 and IL-10 genes had significant associations with phenotypic co-variations of multiple trait pairs, indicating that the variants in pleiotropic genes were also pleiotropic variants. Taken together, the validity of our proposed method was preliminarily verified, and our findings provide new insights into the genetic basis of pleiotropic architectures of immune and growth trait pairs in pigs.

Enhanced assessment of human dynamic stability by eliminating the effect of body height: modeling and experiment study.

Margin of stability (MOS) is one of the essential indices for evaluating dynamic stability. However, there are indications that MOS was affected by body height and its application in identifying factors on dynamic stability other than body height is restricted. An inverted pendulum model was used to simulate human walking and investigate the relevance between MOS and body height. Eventually, a height-independent index in dynamic stability assessment (named as Angled Margin of Stability, AMOS) was proposed. For testing, fifteen healthy young volunteers performed walking trials with normal arm swing, holding arms, and anti-normal arm swing. Kinematic parameters were recorded using a gait analysis system with a Microsoft Kinect V2.0 and instrumented walkway. Both simulation and test results show that MOS had a significant correlation with height during walking with normal arm swing, while AMOS had no such significant correlation. Walking with normal arm swing produced significantly larger AMOS than holding arms and anti-normal arm swing. However, no significant difference showed up in MOS between normal arm swing and holding arms. The results suggest that AMOS is not affected by body height and has the potential to identify the variations in dynamic stability caused by physiological factors other than body height.

Casticin Attenuates Stemness in Cervical Cancer Stem-Like Cells by Regulating Activity and Expression of DNMT1.

OBJECTIVE: To explore whether casticin (CAS) suppresses stemness in cancer stem-like cells (CSLCs) obtained from human cervical cancer (CCSLCs) and the underlying mechanism. METHODS: Spheres from HeLa and CaSki cells were used as CCSLCs. DNA methyltransferase 1 (DNMT1) activity and mRNA levels, self-renewal capability (Nanog and Sox2), and cancer stem cell markers (CD133 and CD44), were detected by a colorimetric DNMT activity/inhibition assay kit, quantitative real-time reverse transcription-polymerase chain reaction, sphere and colony formation assays, and immunoblot, respectively. Knockdown and overexpression of DNMT1 by transfection with shRNA and cDNA, respectively, were performed to explore the mechanism for action of CAS (0, 10, 30, and 100 nmol/L). RESULTS: DNMT1 activity was increased in CCSLCs compared with HeLa and CaSki cells (P<0.05). In addition, HeLa-derived CCSLCs transfected with DNMT1 shRNA showed reduced sphere and colony formation abilities, and lower CD133, CD44, Nanog and Sox2 protein expressions (P<0.05). Conversely, overexpression of DNMT1 in HeLa cells exhibited the oppositive effects. Furthermore, CAS significantly reduced DNMT1 activity and transcription levels as well as stemness in HeLa-derived CCSLCs (P<0.05). Interestingly, DNMT1 knockdown enhanced the inhibitory effect of CAS on stemness. As expected, DNMT1 overexpression reversed the inhibitory effect of CAS on stemness in HeLa cells. CONCLUSION: CAS effectively inhibits stemness in CCSLCs through suppression of DNMT1 activation, suggesting that CAS acts as a promising preventive and therapeutic candidate in cervical cancer.

Sol-Gel-Derived Ni3Al Coating on Nickel Alloy for Oxidation Resistance in Supercritical Water Environments.

Although nickel-based alloys are widely used in industries due to their oxidation and corrosion resistance, the pursuit of better performance in harsh environments is still a great challenge. In this work, we developed a sol-gel method to synthesize Ni3Al coating on a nickel alloy, assisted by a post-annealing process, and investigated the oxidation-resistant performance. The coating thickness can be controlled by designing the deposition times, which keep the pure Ni3Al phase stable. In addition, the surface morphologies indicate that the coating is compact without obvious voids or cracks. Furthermore, the oxidation-resistant property of the coating was investigated by carrying out a supercritical water oxidation experiment. The crystalline structure and surface morphology of the samples before and after 72-h oxidation demonstrated the superior oxidation resistance of the coating. This work provides a convenient method to fabricate an oxidation-resistant coating on a nickel-based alloy, which would be significant for prolonging the service life of vessels under oxidation conditions, especially for supercritical water reactions.

Epithelial STAT6 O-GlcNAcylation drives a concerted anti-helminth alarmin response dependent on tuft cell hyperplasia and Gasdermin C.

The epithelium is an integral component of mucosal barrier and host immunity. Following helminth infection, the intestinal epithelial cells secrete "alarmin" cytokines, such as interleukin-25 (IL-25) and IL-33, to initiate the type 2 immune responses for helminth expulsion and tolerance. However, it is unknown how helminth infection and the resulting cytokine milieu drive epithelial remodeling and orchestrate alarmin secretion. Here, we report that epithelial O-linked N-Acetylglucosamine (O-GlcNAc) protein modification was induced upon helminth infections. By modifying and activating the transcription factor STAT6, O-GlcNAc transferase promoted the transcription of lineage-defining Pou2f3 in tuft cell differentiation and IL-25 production. Meanwhile, STAT6 O-GlcNAcylation activated the expression of Gsdmc family genes. The membrane pore formed by GSDMC facilitated the unconventional secretion of IL-33. GSDMC-mediated IL-33 secretion was indispensable for effective anti-helminth immunity and contributed to induced intestinal inflammation. Protein O-GlcNAcylation can be harnessed for future treatment of type 2 inflammation-associated human diseases.

Hollow terbium metal-organic-framework spheres: preparation and their performance in Fe3+ detection.

Hollow metal-organic framework (MOF) micro/nanostructures have been attracting a great amount of research interest in recent years. However, the synthesis of hollow metal-organic frameworks (MOFs) is a great challenge. In this paper, by using 1,3,5-benzenetricarboxylic acid (H3BTC) as the organic ligand and 2,5-thiophenedicarboxylic acid (H2TDC) as the competitive ligand and protective agent, hollow terbium MOFs (Tb-MOFs) spheres were synthesized by a one-pot solvothermal method. By comparing the morphology of Tb-MOFs in the presence and absence of H2TDC, it is found that H2TDC plays a key role in the formation of the hollow spherical structure. Single crystal analyses and element analysis confirm that H2TDC is not involved in the coordination with Tb3+. Interestingly, Tb-MOFs can be used as the luminescent probes for Fe3+ recognition in aqueous and N,N-dimethylformamide (DMF) solutions. In aqueous solution, the quenching constant (K SV) is 5.8 × 10-4 M-1, and the limit of detection (LOD) is 2.05 µM. In DMF, the K SV and LOD are 9.5 × 10-4 M-1 and 0.80 µM, respectively. The sensing mechanism is that the excitation energy absorption of Fe3+ ions reduces the energy transfer efficiency from the ligand to Tb3+ ions.

Epigenomics analysis of miRNA cis-regulatory elements in pig muscle and fat tissues.

Although large-scale and accurate identification of cis-regulatory elements on pig protein-coding and long non-coding genes has been reported, similar study on pig miRNAs is still lacking. Here, we systematically characterized the cis-regulatory elements of pig miRNAs in muscle and fat by adopting miRNAomes, ChIP-seq, ATAC-seq, RNA-seq and Hi-C data. In total, the cis-regulatory elements of 257 (85.95%) expressed miRNAs including 226 known and 31 novel miRNAs were identified. Especially, the miRNAs associated with super-enhancers, active promoters, and "A" compartment were significantly higher than those associated by typical enhancers, prompters without H3K27ac, and "B" compartment, respectively. The tissue specific transcription factors were the primary determination of core miRNA expression pattern in muscle and fat. Moreover, the miRNA promoters are more evolutionarily conserved than miRNA enhancers, like other type genes. Our study adds additional important information to existing pig epigenetic data and provides essential resource for future in-depth investigation of pig epigenetics.