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1.
Insect Biochem Mol Biol ; 172: 104162, 2024 Sep.
Article in English | MEDLINE | ID: mdl-39067716

ABSTRACT

Deubiquitinases (DUBs) are essential for the maintenance of protein homeostasis and assembly of proteins into functional complexes. Despite growing interest in DUBs biological functions, the roles of DUBs in regulating intestinal stem cells (ISCs) and gut homeostasis remain largely unknown. Here, we perform an in vivo RNAi screen through induced knock-down of DUBs expression in adult midgut ISCs and enteroblasts (EBs) to identify DUB regulators of intestinal homeostasis in Drosophila. We screen 43 DUBs and identify 8 DUBs that are required for ISCs homeostasis. Knocking-down of usp1, CG7857, usp5, rpn8, usp10 and csn5 decreases the number of ISCs/EBs, while knocking-down of CG4968 and usp8 increases the number of ISCs/EBs. Moreover, knock-down of usp1, CG4968, CG7857, or rpn8 in ISCs/EBs disrupts the intestinal barrier integrity and shortens the lifespan, indicating the requirement of these DUBs for the maintenance of gut homeostasis. Furthermore, we provide evidences that USP1 mediates ISC lineage differentiation via modulating the Notch signaling activity. Our study identifies, for the first time, the deubiquitinases required for the maintenance of intestinal homeostasis in Drosophila, and provide new insights into the functional links between the DUBs and intestinal homeostasis.


Subject(s)
Deubiquitinating Enzymes , Drosophila Proteins , Homeostasis , Intestines , RNA Interference , Animals , Drosophila Proteins/metabolism , Drosophila Proteins/genetics , Deubiquitinating Enzymes/metabolism , Deubiquitinating Enzymes/genetics , Drosophila melanogaster/genetics , Drosophila melanogaster/metabolism , Stem Cells/metabolism , Drosophila/genetics , Drosophila/metabolism , Ubiquitin-Specific Proteases/metabolism , Ubiquitin-Specific Proteases/genetics
2.
Nature ; 632(8023): 108-113, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38961285

ABSTRACT

Genetic and fragmented palaeoanthropological data suggest that Denisovans were once widely distributed across eastern Eurasia1-3. Despite limited archaeological evidence, this indicates that Denisovans were capable of adapting to a highly diverse range of environments. Here we integrate zooarchaeological and proteomic analyses of the late Middle to Late Pleistocene faunal assemblage from Baishiya Karst Cave on the Tibetan Plateau, where a Denisovan mandible and Denisovan sedimentary mitochondrial DNA were found3,4. Using zooarchaeology by mass spectrometry, we identify a new hominin rib specimen that dates to approximately 48-32 thousand years ago (layer 3). Shotgun proteomic analysis taxonomically assigns this specimen to the Denisovan lineage, extending their presence at Baishiya Karst Cave well into the Late Pleistocene. Throughout the stratigraphic sequence, the faunal assemblage is dominated by Caprinae, together with megaherbivores, carnivores, small mammals and birds. The high proportion of anthropogenic modifications on the bone surfaces suggests that Denisovans were the primary agent of faunal accumulation. The chaîne opératoire of carcass processing indicates that animal taxa were exploited for their meat, marrow and hides, while bone was also used as raw material for the production of tools. Our results shed light on the behaviour of Denisovans and their adaptations to the diverse and fluctuating environments of the late Middle and Late Pleistocene of eastern Eurasia.


Subject(s)
Archaeology , Bone and Bones , Caves , Fossils , Hominidae , Animals , Asia , Birds , Bone and Bones/chemistry , Carnivora , Europe , Herbivory , History, Ancient , Hominidae/classification , Mass Spectrometry , Meat/history , Phylogeny , Proteomics , Ribs/chemistry , Tool Use Behavior
3.
Sci Rep ; 14(1): 15654, 2024 07 08.
Article in English | MEDLINE | ID: mdl-38977698

ABSTRACT

Colorectal cancer (CRC) stands as a major contributor to cancer-related fatalities within China. There is an urgent need to identify accurate biomarkers for recurrence predicting in CRC. Reduced representation bisulfite sequencing was used to perform a comparative analysis of methylation profiles in tissue samples from 30 recurrence to 30 non-recurrence patients with CRC. Least absolute shrinkage and selection operator method was performed to select the differential methylation regions (DMRs) and built a DNA methylation classifier for predicting recurrence. Based on the identified top DMRs, a methylation classifier was built and consisted of eight hypermethylated DMRs in CRC. The DNA methylation classifier showed high accuracy for predicting recurrence with an area under the receiver operator characteristic curve of 0.825 (95% CI 0.680-0.970). The Kaplan-Meier survival analysis demonstrated that CRC patients with high methylation risk score, evaluated by the DNA methylation classifier, had poorer survival than low risk score (Hazard Ratio 4.349; 95% CI 1.783-10.61, P = 0.002). And only CRC patients with low methylation risk score could acquire benefit from adjuvant therapy. The DNA methylation classifier has been proved as crucial biomarkers for predicting recurrence and exhibited promising prognostic value after curative surgery in patients with CRC.


Subject(s)
Biomarkers, Tumor , Colorectal Neoplasms , DNA Methylation , Neoplasm Recurrence, Local , Humans , Colorectal Neoplasms/genetics , Colorectal Neoplasms/pathology , Colorectal Neoplasms/mortality , Biomarkers, Tumor/genetics , Male , Female , Prognosis , Middle Aged , Neoplasm Recurrence, Local/genetics , Aged , Kaplan-Meier Estimate , Gene Expression Regulation, Neoplastic
4.
IEEE Trans Cybern ; PP2024 Jul 18.
Article in English | MEDLINE | ID: mdl-39024070

ABSTRACT

This article investigates the distributed generalized Nash equilibrium (GNE) seeking problem of noncooperative games (NGs) for high-order strict-feedback nonlinear multiagent systems (MASs). In particular, the feasible action set of each agent is not only subject to local set and inequality constraints but also coupled through an equality constraint with other agents. This constraint structure is more general and covers most of the constraints in the GNE seeking literature. To accomplish the concerned GNE seeking objective, we propose a novel hierarchical GNE seeking approach in this article to decouple the distributed GNE seeking algorithm design into two layers. First, we construct a distributed primary-dual GNE estimator to generate virtual reference signals that converge to the GNE. Then, with the output of the estimator as the reference signal, we develop an adaptive tracking controller to solve the resultant tracking problems under output constraints. To overcome the negative effects of the disturbances, novel compensating terms associated with smooth functions and positive integrable time-varying functions are incorporated in the controller design, which thereby realizes the exact GNE seeking in the presence of nonvanishing mismatched disturbances. At last, an example is given to support the theoretical analysis of the proposed algorithms.

5.
J Phys Chem Lett ; 15(20): 5366-5375, 2024 May 23.
Article in English | MEDLINE | ID: mdl-38735065

ABSTRACT

Dynamic nuclear polarization (DNP) utilizing narrow-line electron spin clusters (ESCs) to achieve nuclear spin resonance matching (ESC-DNP) by microwave irradiation is a promising way to achieve NMR signal enhancements with a wide design scope requiring low microwave power at high magnetic field. Here we present the design for a trityl-based tetra-radical (TetraTrityl) to achieve DNP for 1H NMR at 7 T, supported by experimental data and quantum mechanical simulations. A slow-relaxing (T1e ≈ 1 ms) 4-ESC is found to require at least two electron spin pairs at <8 Å e-e spin distance to yield 1H ESC-DNP enhancement, while squeezing the rest of the e-e spin distances to <12 Å results in optimal 1H ESC-DNP enhancements. Fast-relaxing ESCs (T1e ≈ 10 µs) are found to require a weakly coupled narrow-line radical (sensitizer) to extract polarization from the ESC. These results provide design principles for achieving a power-efficient DNP at high field via ESC-DNP.

6.
Sensors (Basel) ; 24(6)2024 Mar 21.
Article in English | MEDLINE | ID: mdl-38544260

ABSTRACT

Crop leaf length, perimeter, and area serve as vital phenotypic indicators of crop growth status, the measurement of which is important for crop monitoring and yield estimation. However, processing a leaf point cloud is often challenging due to cluttered, fluctuating, and uncertain points, which culminate in inaccurate measurements of leaf phenotypic parameters. To tackle this issue, the RKM-D point cloud method for measuring leaf phenotypic parameters is proposed, which is based on the fusion of improved Random Sample Consensus with a ground point removal (R) algorithm, the K-means clustering (K) algorithm, the Moving Least Squares (M) method, and the Euclidean distance (D) algorithm. Pepper leaves were obtained from three growth periods on the 14th, 28th, and 42nd days as experimental subjects, and a stereo camera was employed to capture point clouds. The experimental results reveal that the RKM-D point cloud method delivers high precision in measuring leaf phenotypic parameters. (i) For leaf length, the coefficient of determination (R2) surpasses 0.81, the mean absolute error (MAE) is less than 3.50 mm, the mean relative error (MRE) is less than 5.93%, and the root mean square error (RMSE) is less than 3.73 mm. (ii) For leaf perimeter, the R2 surpasses 0.82, the MAE is less than 7.30 mm, the MRE is less than 4.50%, and the RMSE is less than 8.37 mm. (iii) For leaf area, the R2 surpasses 0.97, the MAE is less than 64.66 mm2, the MRE is less than 4.96%, and the RMSE is less than 73.06 mm2. The results show that the proposed RKM-D point cloud method offers a robust solution for the precise measurement of crop leaf phenotypic parameters.


Subject(s)
Food , Plant Leaves , Humans , Algorithms
7.
PLoS One ; 19(2): e0299028, 2024.
Article in English | MEDLINE | ID: mdl-38394046

ABSTRACT

Osteoclasts are crucial in the events leading to bone metastasis of lung cancer. Interleukin-17A (IL-17A) affects osteogenesis by regulating the survival of osteoclast precursors (OCPs) and is enriched in lung cancer cells. However, how factors derived from tumor cells that metastasize to bone affect osteoclastogenesis remains poorly understood. We examined whether IL-17A derived from lung cancer cells affects osteoclast differentiation by regulating OCP apoptosis. IL-17A expression was inhibited in A549 non-small cell lung cancer cells using RNA interference. Compared with conditioned medium (CM) from A549 cells (A549-CM), CM from IL-17A-deficient A549 cells (A549-si-CM) suppressed osteoclastogenesis. The mRNA expression of osteoclast-specific genes was downregulated following A549-si-CM treatment. Furthermore, A549-si-CM promoted osteoclast precursor apoptosis at an early stage of osteoclastogenesis, which was related to the promotion of caspase-3 expression by A549-si-CM during osteoclast differentiation. In vivo experiments also showed that inhibition of IL-17A expression in A549 cells reduced osteoclast activation and bone tissue destruction. Collectively, our results indicate that IL-17A deficiency inhibits lung cancer-induced osteoclast differentiation by promoting apoptosis of osteoclast precursors in the early stage of osteoclast formation and that IL-17A is a potential therapeutic target for cancer-associated bone resorption in patients with lung cancer.


Subject(s)
Carcinoma, Non-Small-Cell Lung , Lung Neoplasms , Humans , Apoptosis , Carcinoma, Non-Small-Cell Lung/metabolism , Cell Differentiation/physiology , Interleukin-17/genetics , Interleukin-17/metabolism , Lung Neoplasms/pathology , Osteoclasts/metabolism , Osteogenesis/genetics , RANK Ligand/metabolism
8.
Sci Total Environ ; 916: 170272, 2024 Mar 15.
Article in English | MEDLINE | ID: mdl-38266735

ABSTRACT

Membrane fouling, critically determined by the interplay of interfacial interaction between foulant and membrane, is a critical impediment that limits application extension of electrodialysis (ED) process. In this study, the extended Derjaguin-Landau-Verwey-Overbeek (XDLVO) model and molecular simulation were performed to quantify the interaction energy barrier for revealing anion exchange membranes (AEMs) fouling mechanisms of calcium ions coexisted with natural organic matter (NOM) (sodium alginate, humic acid, and bovine serum albumin). The insight gained from DMol3 module was also utilized to interpret the adhesion process of NOM at the molecular level. The interaction energy suggested that the presence of Ca-NOM complex magnify the adhesion on the surface cavities of AEMs structures. The molecular simulation and XDLVO presented a good agreement in predicting the fouling trajectory based on the experimental findings. The short-path acid-base interaction exerted a predominant influence on exploring the fouling formation process. In addition, the sodium alginate displayed more stable adhesion behavior through calcium ions bridges stimuli than humic acid and bovine serum albumin. In particular, the molecular simulation calculations exhibited a superior level of concurrence with colloid growth of membrane fouling. Combined XDLVO theory with DMol3 model proposed a new approach to understand membrane fouling mechanisms in ED process.

9.
BMC Surg ; 24(1): 21, 2024 Jan 13.
Article in English | MEDLINE | ID: mdl-38218808

ABSTRACT

BACKGROUND: Acute mesenteric ischemia is a rare but lethal disease. Acute occlusive mesenteric ischemia consists of mesenteric artery embolism, mesenteric artery thrombosis, and mesenteric vein thrombosis. This study aimed to investigate the factors that may affect the outcome of acute occlusive mesenteric ischemia. METHODS: Data from acute occlusive mesenteric ischemia patients admitted between May 2016 and May 2022 were reviewed retrospectively. Patients were divided into 2 groups according to whether complications(Clavien‒Dindo ≥ 2) occurred within 6 months of the first admission. Demographics, symptoms, signs, laboratory results, computed tomography angiography features, management and outcomes were analyzed. RESULTS: 59 patients were enrolled in this study. Complications(Clavien‒Dindo ≥ 2) occurred within 6 months of the first admission in 17 patients. Transmural intestinal necrosis, peritonitis, white blood cell count, percentage of neutrophils, percentage of lymphocytes, neutrophil-to-lymphocyte ratio, lactate dehydrogenase, creatine kinase isoenzyme, cardiac troponin I, laparoscopic exploration rate, open embolectomy rate, enterostomy rate, length of necrotic small bowel, length of healthy small bowel, surgical time and intraoperative blood loss differed significantly between groups. Creatine kinase isoenzyme (OR = 1.415, 95% CI: 1.060-1.888) and surgical time (OR = 1.014, 95% CI: 1.001-1.026) were independent risk factors associated with complications(Clavien‒Dindo ≥ 2). CONCLUSIONS: Our analysis suggests that acute occlusive mesenteric ischemia patients with a creatine kinase isoenzyme level greater than 2.22 ng/mL or a surgical time longer than 156 min are more likely to experience complications'(Clavien‒Dindo ≥ 2) occurrence within 6 months of the first admission.


Subject(s)
Mesenteric Ischemia , Mesenteric Vascular Occlusion , Thrombosis , Humans , Mesenteric Ischemia/etiology , Mesenteric Ischemia/surgery , Retrospective Studies , Isoenzymes , Acute Disease , Ischemia/etiology , Creatine Kinase , Mesenteric Vascular Occlusion/complications , Mesenteric Vascular Occlusion/diagnosis , Mesenteric Vascular Occlusion/surgery
10.
Heliyon ; 9(11): e21854, 2023 Nov.
Article in English | MEDLINE | ID: mdl-38058607

ABSTRACT

The effects of different processing methods on the nutritional components of sea cucumber (Apostichopus japonicus) are of concern to consumers who select sea cucumber products. This study employed liquid chromatography tandem mass spectrometry to examine the metabolites in fresh, unsoaked salted, soaked salted, and instant sea cucumber body wall samples sourced from Dalian, China. Metabolites were evaluated utilizing partial least squares discriminant analysis (PLS-DA) and subsequently subjected to KEGG metabolic pathway analysis for further investigation. PLS-DA effectively discriminated the body wall metabolites of sea cucumbers obtained via various processing techniques. The differential metabolites identified predominantly encompassed amino acids, lipids, and carbohydrates. Subsequent KEGG metabolic pathway analysis demonstrated a significant association between lipid, carbohydrate, and amino acid metabolism and the specific processing methods employed. The assessment of nutritional differences corresponding to the various A. japonicus processing methods was conducted. The findings of this study can assist in the choice of sea cucumber products and the selection of suitable processing methods.

11.
Front Psychiatry ; 14: 1288346, 2023.
Article in English | MEDLINE | ID: mdl-38034915

ABSTRACT

Background: Complementary and Alternative Medicine (CAM) interventions may prove to be an attractive option for the treatment of depression. The aim of this scientometric analysis is to determine the global scientific output of research regarding managing depression with CAM and identify the hotspots and frontiers within this theme. Methods: Publications regarding the utilization of CAM for treating depression were collected from the Web of Science Core Collection from 1993 to 2022, and analyzed and visualized by Bibliometrix R-package, VOSviewer, and CiteSpace. Results: A total of 1,710 publications were acquired. The number of annual publications showed an overall rapid upward trend, with the figure peaking at 179 in 2021. The USA was the leading research center. Totally 2,323 distinct institutions involving 7,638 scholars contributed to the research theme. However, most of the cooperation was limited to within the same country, institution or research team. The Journal of Alternative and Complementary Medicine was the most productive periodical. The CAM therapies of most interest to researchers were acupuncture and body-mind techniques, such as yoga, meditation and mindfulness. Systematic review and meta-analysis are commonly used methods. "Inflammation," "rating scale" and "psychological stress" were identified as the most studied trend topics recently. Conclusion: Managing depression with evidence-based CAM treatment is gaining attention globally. Body-mind techniques and acupuncture are growing research hotspots or emerging trending topics. Future studies are predicted to potentially investigate the possible mechanisms of action underlying CAM treatments in reducing depression in terms of modulation of psychological stress and inflammation levels. Cross-countries/institutes/team research collaborations should be encouraged and further enhanced.

12.
Mater Today Bio ; 22: 100788, 2023 Oct.
Article in English | MEDLINE | ID: mdl-37680584

ABSTRACT

Methicillin-resistant Staphylococcus aureus (MRSA) infection is a pressing clinical issue that impedes wound healing. Pro-inflammatory M1 macrophages is required to clear bacteria and recruit various cell types during the initial phase of wound healing, but timing of this process is crucial. Herein, a microenvironment-responsive nanofibrous dressing capable of timely macrophage phenotype transition in vivo is constructed by coating copper ions (Cu2+)-polydopamine (PDA) networks on poly (ε-caprolactone) fiber (PCL-fiber) membrane. During the initial post-implantation period, the nanofibrous dressing show pH-sensitive Cu2+ release in the acidic infection microenvironment. The release Cu2+ have a direct killing effect on MRSA, and promote the proinflammatory M1 phenotype of macrophages to enhance the antibacterial macrophage response. Later, PDA to become a reactive oxygen species (ROS) scavenger when in microenvironments with elevated ROS levels, which conferred the dressing with an immunomodulatory activity that convert M1 macrophages into M2 macrophages. In vivo examination in an MRSA infected full-thickness skin wounds of rat model demonstrates that this dressing significantly facilitated infection eradication and wound healing through modulating local inflammatory phenotype. Overall, this study offers a simple and effective approach for timely manipulation of inflammation progression to promote infected wound healing.

13.
Nat Commun ; 14(1): 5348, 2023 09 02.
Article in English | MEDLINE | ID: mdl-37660126

ABSTRACT

The manipulation of internal interactions at the molecular level within biological fibers is of particular importance but challenging, severely limiting their tunability in macroscopic performances and applications. It thus becomes imperative to explore new approaches to enhance biological fibers' stability and environmental tolerance and to impart them with diverse functionalities, such as mechanical recoverability and stimulus-triggered responses. Herein, we develop a dynamic imine fiber chemistry (DIFC) approach to engineer molecular interactions to fabricate strong and tough protein fibers with recoverability and actuating behaviors. The resulting DIF fibers exhibit extraordinary mechanical performances, outperforming many recombinant silks and synthetic polymer fibers. Remarkably, impaired DIF fibers caused by fatigue or strong acid treatment are quickly recovered in water directed by the DIFC strategy. Reproducible mechanical performance is thus observed. The DIF fibers also exhibit exotic mechanical stability at extreme temperatures (e.g., -196 °C and 150 °C). When triggered by humidity, the DIFC endows the protein fibers with diverse actuation behaviors, such as self-folding, self-stretching, and self-contracting. Therefore, the established DIFC represents an alternative strategy to strengthen biological fibers and may pave the way for their high-tech applications.


Subject(s)
Chemical Engineering , Imines , Imines/chemistry , Silk
14.
Nano Res ; : 1-9, 2023 Jun 10.
Article in English | MEDLINE | ID: mdl-37359076

ABSTRACT

Rheumatoid arthritis (RA) is a relatively common inflammatory disease that affects the synovial tissue, eventually results in joints destruction and even long-term disability. Although Janus kinase inhibitors (Jakinibs) show a rapid efficacy and are becoming the most successful agents in RA therapy, high dosing at frequent interval and severe toxicities cannot be avoided. Here, we developed a new type of fully compatible nanocarriers based on recombinant chimeric proteins with outstanding controlled release of upadacitinib. In addition, the fluorescent protein component of the nanocarriers enabled noninvasive fluorescence imaging of RA lesions, thus allowing real-time detection of RA therapy. Using rat models, the nanotherapeutic is shown to be superior to free upadacitinib, as indicated by extended circulation time and sustained bioefficacy. Strikingly, this nanosystem possesses an ultralong half-life of 45 h and a bioavailability of 4-times higher than pristine upadacitinib, thus extending the dosing interval from one day to 2 weeks. Side effects such as over-immunosuppression and leukocyte levels reduction were significantly mitigated. This smart strategy boosts efficacy, safety and visuality of Jakinibs in RA therapy, and potently enables customized designs of nanoplatforms for other therapeutics. Electronic Supplementary Material: Supplementary material (further details of DLS analysis, biocompatibility of PCP-UPA, CIA models construction, etc.) is available in the online version of this article at 10.1007/s12274-023-5838-0.

15.
Ann Diagn Pathol ; 66: 152165, 2023 Oct.
Article in English | MEDLINE | ID: mdl-37348414

ABSTRACT

PURPOSE: Diffuse large B-cell lymphoma (DLBCL) is a heterogeneous group of non-Hodgkin lymphoma, characterized by a variety of clinicopathological, histomorphological, immunophenotypic, and molecular genetic features. The subtype of DLBCL known as double-expressor lymphoma (DEL) is associated with an adverse prognosis when treated with R-CHOP. Our study aimed to investigate the clinicopathologic features of DEL and the prognostic roles of Myc rearrangement and C-Myc expression in DEL patients. PATIENTS AND METHODS: We conducted a retrospective study of 145 patients who were identified through fluorescence in situ hybridization (FISH) and immunohistochemistry (IHC) testing. RESULTS: We found that DEL patients were more likely to have a non-germinal center B-cell (GCB) subtype, stage III/IV disease, and a high International Prognostic Index (IPI) score. Our survival analysis indicated that Myc rearrangement and C-Myc expression were associated with poor prognosis. Although DEL patients with Myc rearrangement exhibited trends towards worse survival compared with patients without Myc rearrangement, the differences were not statistically significant (P = 0.4008). The median overall survival (OS) of DEL patients with ≥70 % C-Myc expression (DEL-C-Mychigh) was 5 months. In the DEL-C-Mychigh group, the non-GCB subtype showed nonsignificant trends towards poorer survival compared with the GCB subtype (P = 0.1042). CONCLUSION: In conclusion, our study shows that a cut-off of ≥70 % for C-Myc expression in DEL patients can improve risk stratification, and suggests that more intensive treatment regimens may be necessary to improve survival in this high-risk population.


Subject(s)
Lymphoma, Large B-Cell, Diffuse , Proto-Oncogene Proteins c-myc , Humans , Retrospective Studies , In Situ Hybridization, Fluorescence , Proto-Oncogene Proteins c-myc/genetics , Proto-Oncogene Proteins c-myc/metabolism , Prognosis , Proto-Oncogene Proteins c-bcl-2/genetics , Proto-Oncogene Proteins c-bcl-2/metabolism , Lymphoma, Large B-Cell, Diffuse/diagnosis , Lymphoma, Large B-Cell, Diffuse/genetics , Antineoplastic Combined Chemotherapy Protocols/therapeutic use
16.
Fish Shellfish Immunol ; 134: 108577, 2023 Mar.
Article in English | MEDLINE | ID: mdl-36773712

ABSTRACT

Strongylocentrotus intermedius is one of the most economically valuable sea urchin species in China and has experienced mass mortality owing to outbreaks of bacterial diseases such as black mouth disease. This has caused serious economic losses to the sea urchin farming industry. To investigate the immune response mechanism of S. intermedius with different tube feet colors in response to Vibrio harveyi infection, we examined the different tube feet-colored S. intermedius under V. harveyi challenge and compared their transcriptome and microRNA (miRNA) profiles using RNA-Seq. We obtained 1813 differentially expressed genes (DEGs), 28 DE miRNAs, and 303 DE miRNA-DEG pairs in different tube feet-colored S. intermedius under V. harveyi challenge. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis showed that the most significant DEGs were associated with the Notch signaling and phagosome pathways. The target genes of immune-related miRNAs (miR-71, miR-184, miR-193) and genes (CALM1, SPSB4, DMBT, CSRP1) in S. intermedius were predicted and validated. This study provides insight into the molecular mechanisms that regulate genes involved in the immune response of S. intermedius infected with V. harveyi.


Subject(s)
MicroRNAs , Strongylocentrotus , Vibrio Infections , Animals , RNA, Messenger , Transcriptome , Immunity, Innate/genetics
17.
BMC Genomics ; 24(1): 25, 2023 Jan 16.
Article in English | MEDLINE | ID: mdl-36647018

ABSTRACT

BACKGROUND: Apostichopus japonicus is an economically important species in the global aquaculture industry. Russian A. japonicus, mainly harvested in the Vladivostok region, exhibits significant phenotypic differentiation, including in many economically important traits, compared with Chinese A. japonicus owing to differences in their habitat. However, both the genetic basis for the phenotypic divergence and the population genetic structure of Russian and Chinese A. japonicus are unknown. RESULT: In this study, 210 individuals from seven Russian and Chinese A. japonicus populations were sampled for whole-genome resequencing. The genetic structure analysis differentiated the Russian and Chinese A. japonicus into two groups. Population genetic analyses indicated that the Russian population showed a high degree of allelic linkage and had undergone stronger positive selection compared with the Chinese populations. Gene ontology terms enriched among candidate genes with group selection analysis were mainly involved in immunity, such as inflammatory response, antimicrobial peptides, humoral immunity, and apoptosis. Genome-wide association analysis yielded eight single-nucleotide polymorphism loci significantly associated with parapodium number, and these loci are located in regions with a high degree of genomic differentiation between the Chinese and Russia populations. These SNPs were associated with five genes. Gene expression validation revealed that three of these genes were significantly differentially expressed in individuals differing in parapodium number. AJAP08772 and AJAP08773 may directly affect parapodium production by promoting endothelial cell proliferation and metabolism, whereas AJAP07248 indirectly affects parapodium production by participating in immune responses. CONCLUSIONS: This study, we performed population genetic structure and GWAS analysis on Chinese and Russian A. japonicus, and found three candidate genes related to the number of parapodium. The results provide an in-depth understanding of the differences in the genetic structure of A. japonicus populations in China and Russia, and provide important information for subsequent genetic analysis and breeding of this species.


Subject(s)
Stichopus , Animals , Genome-Wide Association Study , Plant Breeding , Polymorphism, Single Nucleotide , Stichopus/genetics , Genome, Plant
18.
IEEE Trans Neural Netw Learn Syst ; 34(6): 2742-2752, 2023 Jun.
Article in English | MEDLINE | ID: mdl-34506294

ABSTRACT

This article systematically addresses the distributed event-triggered containment control issues for multiagent systems subjected to unknown nonlinearities and external disturbances over a directed communication topology. Novel composite distributed adaptive neural network (NN) event-triggering conditions and event-triggered controller are raised meanwhile. Furthermore, the designed event-triggered controller is updated in an aperiodic way at the moment of event sampling, which saves the computation, resources, and transmission load. On the basis of the NN-based adaptive control techniques and event-triggered control strategies, the uniform ultimate bounded containment control can be achieved. In addition, the Zeno behavior is proven to be excluded. Simulation is presented to testify the effectiveness and advantages of the presented distributed containment control scheme.

19.
IEEE Trans Neural Netw Learn Syst ; 34(10): 8102-8107, 2023 Oct.
Article in English | MEDLINE | ID: mdl-35044923

ABSTRACT

This brief addresses the adaptive neural asymptotic tracking issue for uncertain non-strict feedback systems subject to full-state constraints. By introducing the significant nonlinear transformed function (NTF), the command filtered technology, and the boundary estimation method into control design, a novel command filtered backstepping adaptive controller is proposed. The proposed control scheme is able to not only deal with full-state constraints but also avoid the "explosion of complexity" issue. By means of a Lyapunov stability analysis, we prove that: 1) the tracking error asymptotically converges to zero; 2) all the variables in the controlled systems are bounded; and 3) all the states are constrained in the asymmetric predefined sets. Finally, a numerical simulation is used to demonstrate the validity of the proposed algorithm.

20.
IEEE Trans Cybern ; 53(2): 900-912, 2023 Feb.
Article in English | MEDLINE | ID: mdl-35533154

ABSTRACT

This article investigates the adaptive event-triggered output-feedback control problem for a class of switched stochastic nonlinear systems with actuator faults. In the existing works, the developed results on adaptive control for switched stochastic nonlinear systems are almost based on the average dwell-time method, and how to construct a desired adaptive controller in the frame of the mode-dependent average dwell time (MDADT) remains a control dilemma. By presenting a general adaptive control rule based on the MDADT, this article implements the adaptive output-feedback control for the switched stochastic system under interest. In the process of controller design, fuzzy-logic systems, a flexible approximator, are utilized to approximate the unknown nonlinear functions. The dynamic surface design approach is employed to avoid taking derivatives of the constructed virtual controls to decrease the difficulty of complex calculation greatly. Meanwhile, a switched observer is designed to estimate the unknown states. In the frame of backstepping design, an event-triggered-based adaptive output-feedback controller is constructed such that all signals existing in the closed-loop system are ultimately bounded under a class of switching signals with MDADT property. Finally, the simulation results show the validity of the proposed control strategy.

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