Although the taxonomic composition of the human microbiome varies tremendously across individuals, its gene composition or functional capacity is highly conserved - implying an ecological property ...known as functional redundancy. Such functional redundancy has been hypothesized to underlie the stability and resilience of the human microbiome, but this hypothesis has never been quantitatively tested. The origin of functional redundancy is still elusive. Here, we investigate the basis for functional redundancy in the human microbiome by analyzing its genomic content network - a bipartite graph that links microbes to the genes in their genomes. We find that this network exhibits several topological features that favor high functional redundancy. Furthermore, we develop a simple genome evolution model to generate genomic content network, finding that moderate selection pressure and high horizontal gene transfer rate are necessary to generate genomic content networks with key topological features that favor high functional redundancy. Finally, we analyze data from two published studies of fecal microbiota transplantation (FMT), finding that high functional redundancy of the recipient's pre-FMT microbiota raises barriers to donor microbiota engraftment. This work elucidates the potential ecological and evolutionary processes that create and maintain functional redundancy in the human microbiome and contribute to its resilience.
Battery state-of-health (SOH) estimation is an effective approach to evaluate battery reliability and reduce maintenance costs for battery-based backup power supply systems. This paper proposes a ...novel SOH estimation method for batteries, which only uses the response characteristics of load surges and is, therefore, non-destructive to the estimated battery and its system. The discrete wavelet transform (DWT) method based on multi-resolution analysis (MRA) is used for wavelet energy features extraction, and the fuzzy cerebellar model neural network (FCMNN) is introduced to design the battery SOH estimator. The response voltage signals to load surges are used in the training and detection process of the FCMNN. Compared to conventional methods, the proposed method only exploits characteristics of online response signals to the inrush currents rather than injecting interference signals into the battery. The effectiveness of the proposed method is validated by detailed simulation analysis and experiments.
DYT-
TOR1A
dystonia is a neurological disorder characterized by involuntary muscle contractions and abnormal movements. It is a severe genetic form of dystonia caused by mutations in the
TOR1A
gene. ...TorsinA is a member of the AAA + family of adenosine triphosphatases (ATPases) involved in a variety of cellular functions, including protein folding, lipid metabolism, cytoskeletal organization, and nucleocytoskeletal coupling. Almost all patients with
TOR1A
-related dystonia harbor the same mutation, an in-frame GAG deletion (ΔGAG) in the last of its 5 exons. This recurrent variant results in the deletion of one of two tandem glutamic acid residues (i.e., E302/303) in a protein named torsinA torsinA(△E). Although the mutation is hereditary, not all carriers will develop DYT-
TOR1A
dystonia, indicating the involvement of other factors in the disease process. The current understanding of the pathophysiology of DYT-
TOR1A
dystonia involves multiple factors, including abnormal protein folding, signaling between neurons and glial cells, and dysfunction of the protein quality control system. As there are currently no curative treatments for DYT-
TOR1A
dystonia, progress in research provides insight into its pathogenesis, leading to potential therapeutic and preventative strategies. This review summarizes the latest research advances in the pathogenesis, diagnosis, and treatment of DYT-
TOR1A
dystonia.
Arhopalus rusticus is a significant forestry pest known for its destructive impact on various host plants. This species, commonly found in coniferous forests across the Northern Hemisphere, has ...successfully spread to regions like New Zealand, Australia, and South America. This research is based on the known distribution sites of A. rusticus. Projections are made for the potential global distribution of A. rusticus under historical climatic conditions (1970–2000) and future climatic conditions (2081–2100) for the four forcing scenarios of the Coupled Model International Comparison Program 6 (CMIP6). The aim was to analyze the effects of climate change on the distribution range of this pest and its invasion trend in the southern hemisphere, and to support relevant departments in enhancing the effectiveness of forestry pest control strategies. The study utilized the Biomod2 software package in R to compare six models: generalized linear models (GLMs), generalized additive models (GAMs), multivariate adaptive regression splines (MARSs), artificial neural networks (ANNs), classification and regression trees (CTAs), and random forests (RFs) for modeling species distributions. The optimal model was selected based on evaluation indexes such as AUC and TSS. Projections of A. rusticus distribution under historical and future climate scenarios were created. The prediction results were visualized using ArcGIS software (version 10.2) to classify fitness levels and calculate distribution areas. Based on evaluation metrics, random forests (RFs) demonstrated the highest average assessment index scores, indicating high prediction accuracy (AUC = 0.99, TSS = 0.91, Kappa = 0.93). Model predictions revealed that, under historical climatic conditions, A. rusticus was predominantly found in northern Europe, eastern Asia, eastern and southwestern coastal regions of North America, and there were also highly suitable regions in parts of the southern hemisphere, including central and southwestern Argentina, southern Australia, New Zealand, and South Africa. Among these models, each of the CMIP6’s different climate prediction scenarios had a significant impact on the predicted distribution of A. rusticus. The SSP126 scenario depicted the broadest range of suitability, while the SSP585 scenario presented the narrowest and, overall, the extent of highly suitable regions was contracting. Multi-model predictions suggested that the potential distribution area of A. rusticus during the period of 2081–2100 would likely expand compared to that of 1970–2000, ranging from an increase of 1.13% (SSP126) up to 6.61% (SSP585), positively correlating with the level of radiative forcing. Notably, the most substantial growth was observed in potentially low-suitability region, escalating from 1.17% (SSP126) to 5.55% (SSP585). The distribution of A. rusticus shows decreasing trends from coastal areas to inland areas and from high to low level suitability of regions, and further expansion into the southern hemisphere under future climate conditions. Therefore, quarantine efforts at ports of entry should be strengthened in areas that are not currently infested but are at risk of invasion, and precise preventive measures should be strengthened in areas that are at risk of further expansion under future climatic conditions to prevent its spread to inland areas.
Street tree extraction based on the 3-D mobile mapping point cloud plays an important role in building smart cities and creating highly accurate urban street maps. Existing methods are often over- or ...under-segmented when segmenting overlapping street tree canopies and extracting geometrically complex trees. To address this problem, we propose a method based on improved 3-D morphological analysis for extracting street trees from mobile laser scanner (MLS) point clouds. First, the 3-D semantic point cloud segmentation framework based on deep learning is used for preclassification of the original point cloud to obtain the vegetation point cloud in the scene. Considering the influence of terrain unevenness, the vegetation point cloud is deterraformed and slice point cloud containing tree trunks is obtained through spatial filtering on height. On this basis, a voxel-based region growing method constrained with the changing rate of convex area is used to locate the stree trees. Then we propose a progressive tree crown segmentation method, which first completed the preliminary individual segmentation of the tree crown point cloud based on the voxel-based region growth constrained by the minimum increment rule, and then optimizes the crown edges by “valley” structure-based clustering. In this article, the proposed method is validated and the accuracy is evaluated using three sets of MLS datasets collected from different scenarios. The experimental results show that the method can effectively identify and localize street trees with different geometries and has a good segmentation effect for street trees with large adhesion between canopies. The accuracy and recall of tree localization are higher than 96.08% and 95.83%, respectively, and the average precision and recall of instance segmentation in three datasets are higher than 93.23% and 95.41%, respectively.
Oxidative damage induced granulosa cells (GCs) apoptosis was considered as a significant cause of compromised follicle quality, antioxidants therapy has emerged as a potential method for improving ...endometriosis pregnancy outcomes. Here, we found that GCs from endometriosis patients show increased oxidative stress level. Methyl 3,4-dihydroxybenzoate (MDHB), a small molecule compound that is extracted from natural plants, reversed tert-butyl hydroperoxide (TBHP) induced GCs oxidative damage. Therefore, the aim of this study was to assess the protective effect of MDHB for GCs and its potential mechanisms. TUNEL staining and immunoblotting of cleaved caspase-3/7/9 showed MDHB attenuated TBHP induced GCs apoptosis. Mechanistically, MDHB treatment decreased cellular and mitochondria ROS production, improved the mitochondrial function by rescuing the mitochondrial membrane potential (MMP) and ATP production. Meanwhile, MDHB protein upregulated the expression of vital antioxidant transcriptional factor Nrf2 and antioxidant enzymes SOD1, NQO1 and GCLC to inhibited oxidative stress state, further beneficial to oocytes and embryos quality. Therefore, MDHB may represent a potential drug candidate in protecting granulosa cells in endometriosis, which can improve pregnancy outcomes for endometriosis-associated infertility.
With the increasing applications of UWB indoor positioning technologies in industrial areas, to further enhance the positioning precision, the UWB/IMU combination method (UICM) has been considered as ...one of the most effective solutions to reduce non-line-of-sight (NLOS) errors. However, most conversional UICMs suffer from a high probability of positioning failure due to uncontrollable and cumulative errors from inertial measuring units (IMU). Hence, to address this issue, we improved the extended Kalman filter (EKF) algorithm of an indoor positioning model based on UWB/IMU tight combination with a double-loop error self-correction. Compared with conventional UICMs, this improved model consists of new modules for fixing time desynchronization, optimizing the threshold setting for UWB ranging, data fusion in NLOS, and double-loop error estimation, sequentially. Further, systematic error controllability analysis proved that the proposed model could satisfy the controllability of UWB indoor positioning systems. To validate this improved UICM, inevitable obstacles and atmospheric interferences were regarded as Gaussian white noises to verify its environmental adaptability. Finally, the experimental results showed that this proposed model outperformed the state-of-the-art UWB-based positioning models with a maximum deviation of 0.232 m (reduced by 83.93% compared to a pure UWB model and 43.14% compared to the conventional UWB/IMU model) and standard deviation of 0.09981 m (reduced by 88.35% compared to a pure UWB model and 22.21% compared to the conventional UWB-IMU model).
Kinesin family member 3 A (KIF3A) decrease have been reported in silicotic patients and rats. However, the detailed mechanisms of KIF3A in silicosis remain unknown. In this study, we demonstrated ...that KIF3A effectively blocked the expression of β-catenin and downstream myocardin-related transcription factor (MRTF)-A/serum response factor (SRF) signaling, thus inhibiting silica-induced epithelial−myofibroblast transition (EMyT). Moreover, KIF3A was identified as a downstream mediator of an antifibrotic tetrapeptide N-acetyl-seryl-aspartyl-lysyl-proline (Ac-SDKP). Knockdown of KIF3A expression reactivated β-catenin/myocardin-related transcription factor (MRTF)-A/serum response factor (SRF) signaling that was attenuated by Ac-SDKP in vitro. Collectively, our findings suggest that Ac-SDKP plays its anti-fibrosis role via KIF3A-mediated β-catenin suppression, at least in part, in both in vivo model of silicosis and in vitro model of EMyT.
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•Primary ciliary loss during silicosis and silica-induced EMyT.•Ac-SDKP inhibits silicosis and EMyT by maintaining the primary cilia.•Ac-SDKP maintains primary cilia and inhibits silicosis by regulating KIF3A.•The anti-fibrotic effect of Ac-SDKP relies on KIF3A/β-catenin signal.
Botrytis cinerea, the causal agent of the grey mould disease, developed resistance to multiple fungicides. However, the role of cell membrane in survival competition of B. cinerea upon quinone ...outside inhibitor (QoI) fungicide has not yet been elucidated. In this paper, the enhancement of cystamine, a transglutaminase inhibitor, on membrane integrity of B. cinerea was determined, and the effect of the enhancement on the sensitivity of B. cinerea to pyraclostrobin was investigated. The results showed that pyraclostrobin inhibited mycelial growth with EC50 as 1.122 and 3.042 μg/ml at 24 and 48 hr, respectively. In the treatment of 5 and 50 μg/ml pyraclostrobin, membrane integrity of B. cinerea was broken, causing high permeability, lipid peroxidation, flocculent and malformed surface with vague septum and abundant agglomerates inside and outside the mycelia. Cystamine even at 50 and 200 μg/ml had little inhibitory effect on mycelial growth. However, in presence of 50 or 200 μg/ml cystamine, the mycelia from pyraclostrobin treatment possessed a significantly reduced leakage, lower MDA content, and a revived fibrous and transparent surface. Meanwhile, SEM images showed that membrane integrity of the mycelia was significantly improved and the agglomerates were dramatically disappeared. Synergy assays further revealed that B. cinerea regained less sensitivity to pyraclostrobin inhibition. In conclusion, membrane integrity controls mycelia sensitivity and is required for survival competition of B. cinerea upon pyraclostrobin.
Glycolysis and ER stress have been considered important drivers of pulmonary fibrosis. However, it is not clear whether glycolysis and ER stress are interconnected and if those interconnections ...regulate the development of pulmonary fibrosis. Our previous studies found that the expression of LDHA, a key enzyme involved in glycolysis, was increased in silica-induced macrophages and silicotic models, and it was closely related to silicosis fibrosis by participating in inflammatory response. However, whether pharmacological inhibition of LDHA is beneficial to the amelioration of silicosis fibrosis remains unclear. In this study, we investigated the effects of oxamate, a potent inhibitor of LDHA, on the regulation of glycolysis and ER stress in alveolar macrophages and silicotic mice. We found that silica induced the upregulation of glycolysis and the expression of key enzymes directly involved in ER stress in NR8383 macrophages. However, treatment of the macrophages and silicotic mice with oxamate attenuated glycolysis and ER stress by inhibiting LDHA, causing a decrease in the production of lactate. Therefore, oxamate demonstrated an anti-fibrotic role by reducing glycolysis and ER stress in silicotic mice.
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