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1.
Nat Chem Biol ; 2024 Sep 12.
Artículo en Inglés | MEDLINE | ID: mdl-39266722

RESUMEN

Superoxide anion is thought to be a natural by-product with strong oxidizing ability in all living organisms and was recently found to accumulate in plant meristems to maintain stem cells in the shoot and undifferentiated meristematic cells in the root. Here we show that the DNA demethylase repressor of silencing 1 (ROS1) is one of the direct targets of superoxide in stem cells. The Fe-S clusters in ROS1 are oxidized by superoxide to activate its DNA glycosylase/lyase activity. We demonstrate that superoxide extensively participates in the establishment of active DNA demethylation in the Arabidopsis genome and that ARABIDOPSIS RESPONSE REGULATOR 12 acts downstream of ROS1-mediated superoxide signaling to maintain stem cell fate. Our results provide a mechanistic framework for superoxide control of the stem cell niche and demonstrate how redox and DNA demethylation interact to define stem cell fate in plants.

2.
Adv Sci (Weinh) ; : e2407107, 2024 Aug 29.
Artículo en Inglés | MEDLINE | ID: mdl-39206745

RESUMEN

The unsatisfactory mechanical performance at high temperatures limits the broad application of 3D-printed aluminum alloy structures in extreme environments. This study investigates the mechanical behavior of 4 different lattice cell structures in high-temperature environments using AlSi12Fe2.5Ni3Mn4, a newly developed, heat-resistant, high-strength, and printable alloy. A novel Antisymmetric anti-Buckling Lattice Cell (ASLC-B) based on a unique rotation reflection multistage design is developed. Micro-CT (Computed Tomography) and SEM (Scanning Electron Microscope) analyses revealed a smooth surface and dense interior with an average porosity of less than 0.454%. Quasi-static compression tests at 25, 100, and 200 °C showed that ASLC-B outperformed the other 3 lattice types in load-bearing capacity, energy absorption, and heat transfer efficiency. Specifically, the ASLC-B demonstrated a 51.56% and 44.14% increase in compression load-bearing capacity at 100 and 200 °C compared to ASLC-B(AlSi10Mg), highlighting its excellent high-temperature mechanical properties. A numerical model based on the Johnson-Cook constitutive relationship revealed the damage failure mechanisms, showing ASLC-B's effectiveness in preventing buckling, enhancing load-transfer efficiency, and reducing stress concentrations. This study emphasizes the importance of improving energy absorption and mechanical performance for structural optimization in extreme conditions. The ASLC-B design offers significant advancements in maintaining structural integrity and performance under high temperatures.

3.
Mater Today Bio ; 26: 101098, 2024 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-38840795

RESUMEN

Developing patches that effectively merge intrinsic deformation characteristics of cardiac with superior tunable mechanical properties remains a crucial biomedical pursuit. Currently used traditional block-shaped or mesh patches, typically incorporating a positive Poisson's ratio, often fall short of matching the deformation characteristics of cardiac tissue satisfactorily, thus often diminishing their repairing capability. By introducing auxeticity into the cardiac patches, this study is trying to present a beneficial approach to address these shortcomings of the traditional patches. The patches, featuring the auxetic effect, offer unparalleled conformity to the cardiac complex mechanical challenges. Initially, scaffolds demonstrating the auxetic effect were designed by merging chiral rotation and concave angle units, followed by integrating scaffolds with a composite hydrogel through thermally triggering, ensuring excellent biocompatibility closely mirroring heart tissue. Tensile tests revealed that auxetic patches possessed superior elasticity and strain capacity exceeding cardiac tissue's physiological activity. Notably, Model III showed an equivalent modulus ratio and Poisson's ratio closely toward cardiac tissue, underscoring its outstanding mechanical potential as cardiac patches. Cyclic tensile loading tests demonstrated that Model III withstood continuous heartbeats, showcasing outstanding cyclic loading and recovery capabilities. Numerical simulations further elucidated the deformation and failure mechanisms of these patches, leading to an exploration of influence on mechanical properties with alternative design parameters, which enabled the customization of mechanical strength and Poisson's ratio. Therefore, this research presents substantial potential for designing cardiac auxetic patches that can emulate the deformation properties of cardiac tissue and possess adjustable mechanical parameters.

4.
J Colloid Interface Sci ; 671: 516-528, 2024 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-38815387

RESUMEN

With the advancement of wearable and implantable medical devices, hydrogel flexible bioelectronic devices have attracted significant interest due to exhibiting tissue-like mechanical compliance, biocompatibility, and low electrical resistance. In this study, the development and comprehensive performance evaluation of poly(acrylic acid)/ N,N'-bis(acryloyl) cystamine/ 1-butyl-3-ethenylimidazol-1-ium:bromide (PAA/NB/IL) hydrogels designed for flexible sensor applications are introduced. Engineered through a combination of physical and chemical cross-linking strategies, these hydrogels exhibit strong mechanical properties, high biocompatibility, and effective sensing capabilities. At 95 % strain, the compressive modulus of PAA/NB/IL 100 reach up to 3.66 MPa, with the loading-unloading process showing no significant hysteresis loop, indicating strong mechanical stability and elasticity. An increase in the IL content was observed to enlarge the porosity of the hydrogels, thereby influencing their swelling behavior and sensing functionality. Biocompatibility assessments revealed that the hemolysis rate was below 5 %, ensuring their suitability for biomedical applications. Upon implantation in rats, a minimal acute inflammatory response was observed, comparable to that of the biocompatibility control poly(ethylene glycol) diacrylate (PEGDA). These results suggest that PAA/NB/IL hydrogels hold promise as biomaterials for biosensors, offering a balance of mechanical integrity, physiological compatibility, and sensing sensitivity, thereby facilitating advanced healthcare monitoring solutions.


Asunto(s)
Resinas Acrílicas , Materiales Biocompatibles , Técnicas Biosensibles , Hidrogeles , Hidrogeles/química , Animales , Ratas , Materiales Biocompatibles/química , Materiales Biocompatibles/farmacología , Resinas Acrílicas/química , Humanos , Propiedades de Superficie , Cistamina/química , Tamaño de la Partícula , Imidazoles/química , Hemólisis/efectos de los fármacos
5.
Chem Soc Rev ; 53(8): 4086-4153, 2024 Apr 22.
Artículo en Inglés | MEDLINE | ID: mdl-38465517

RESUMEN

Degradable biomedical elastomers (DBE), characterized by controlled biodegradability, excellent biocompatibility, tailored elasticity, and favorable network design and processability, have become indispensable in tissue repair. This review critically examines the recent advances of biodegradable elastomers for tissue repair, focusing mainly on degradation mechanisms and evaluation, synthesis and crosslinking methods, microstructure design, processing techniques, and tissue repair applications. The review explores the material composition and cross-linking methods of elastomers used in tissue repair, addressing chemistry-related challenges and structural design considerations. In addition, this review focuses on the processing methods of two- and three-dimensional structures of elastomers, and systematically discusses the contribution of processing methods such as solvent casting, electrostatic spinning, and three-/four-dimensional printing of DBE. Furthermore, we describe recent advances in tissue repair using DBE, and include advances achieved in regenerating different tissues, including nerves, tendons, muscle, cardiac, and bone, highlighting their efficacy and versatility. The review concludes by discussing the current challenges in material selection, biodegradation, bioactivation, and manufacturing in tissue repair, and suggests future research directions. This concise yet comprehensive analysis aims to provide valuable insights and technical guidance for advances in DBE for tissue engineering.


Asunto(s)
Materiales Biocompatibles , Elastómeros , Medicina Regenerativa , Ingeniería de Tejidos , Humanos , Elastómeros/química , Materiales Biocompatibles/química , Animales
6.
Plant Physiol ; 194(4): 1962-1979, 2024 Mar 29.
Artículo en Inglés | MEDLINE | ID: mdl-37979164

RESUMEN

Histone acetylation is highly conserved across eukaryotes and has been linked to gene activation since its discovery nearly 60 years ago. Over the past decades, histone acetylation has been evidenced to play crucial roles in plant development and response to various environmental cues. Emerging data indicate that histone acetylation is one of the defining features of "open chromatin," while the role of histone acetylation in transcription remains controversial. In this review, we briefly describe the discovery of histone acetylation, the mechanism of histone acetylation regulating transcription in yeast and mammals, and summarize the research progress of plant histone acetylation. Furthermore, we also emphasize the effect of histone acetylation on seed development and its potential use in plant breeding. A comprehensive knowledge of histone acetylation might provide new and more flexible research perspectives to enhance crop yield and stress resistance.


Asunto(s)
Histonas , Fitomejoramiento , Animales , Histonas/genética , Histonas/metabolismo , Acetilación , Cromatina/genética , Semillas/genética , Semillas/metabolismo , Plantas/metabolismo , Saccharomyces cerevisiae/metabolismo , Mamíferos/metabolismo
7.
Nat Commun ; 14(1): 7538, 2023 Nov 20.
Artículo en Inglés | MEDLINE | ID: mdl-37985755

RESUMEN

Polyploidization is a major driver of genome diversification and environmental adaptation. However, the merger of different genomes may result in genomic conflicts, raising a major question regarding how genetic diversity is interpreted and regulated to enable environmental plasticity. By analyzing the genome-wide binding of 191 trans-factors in allopolyploid wheat, we identified like heterochromatin protein 1 (LHP1) as a master regulator of subgenome-diversified genes. Transcriptomic and epigenomic analyses of LHP1 mutants reveal its role in buffering the expression of subgenome-diversified defense genes by controlling H3K27me3 homeostasis. Stripe rust infection releases latent subgenomic variations by eliminating H3K27me3-related repression. The simultaneous inactivation of LHP1 homoeologs by CRISPR-Cas9 confers robust stripe rust resistance in wheat seedlings. The conditional repression of subgenome-diversified defenses ensures developmental plasticity to external changes, while also promoting neutral-to-non-neutral selection transitions and adaptive evolution. These findings establish an LHP1-mediated buffering system at the intersection of genotypes, environments, and phenotypes in polyploid wheat. Manipulating the epigenetic buffering capacity offers a tool to harness cryptic subgenomic variations for crop improvement.


Asunto(s)
Epigenómica , Triticum , Triticum/genética , Triticum/metabolismo , Histonas/metabolismo , Epigénesis Genética , Genoma de Planta/genética
8.
Nat Commun ; 14(1): 7465, 2023 11 17.
Artículo en Inglés | MEDLINE | ID: mdl-37978184

RESUMEN

Transposable elements (TEs) comprise ~85% of the common wheat genome, which are highly diverse among subgenomes, possibly contribute to polyploid plasticity, but the causality is only assumed. Here, by integrating data from gene expression cap analysis and epigenome profiling via hidden Markov model in common wheat, we detect a large proportion of enhancer-like elements (ELEs) derived from TEs producing nascent noncoding transcripts, namely ELE-RNAs, which are well indicative of the regulatory activity of ELEs. Quantifying ELE-RNA transcriptome across typical developmental stages reveals that TE-initiated ELE-RNAs are mainly from RLG_famc7.3 specifically expanded in subgenome A. Acquisition of spike-specific transcription factor binding likely confers spike-specific expression of RLG_famc7.3-initiated ELE-RNAs. Knockdown of RLG_famc7.3-initiated ELE-RNAs resulted in global downregulation of spike-specific genes and abnormal spike development. These findings link TE expansion to regulatory specificity and polyploid developmental plasticity, highlighting the functional impact of TE-driven regulatory innovation on polyploid evolution.


Asunto(s)
Elementos Transponibles de ADN , Triticum , Elementos Transponibles de ADN/genética , Triticum/genética , Regulación de la Expresión Génica , Poliploidía , Transcriptoma , ARN
9.
Plant Cell ; 35(12): 4304-4324, 2023 Nov 30.
Artículo en Inglés | MEDLINE | ID: mdl-37708036

RESUMEN

High-throughput detection of nascent RNA is critical for studies of transcription and much more challenging than that of mRNA. Recently, several massively parallel nascent RNA sequencing methods were established in eukaryotic cells. Here, we systematically compared 3 classes of methods on the same pure or crude nuclei preparations: GRO-seq for sequence nuclear run-on RNAs, pNET-seq for sequence RNA polymerase II-associated RNAs, and CB RNA-seq for sequence chromatin-bound (CB) RNAs in Arabidopsis (Arabidopsis thaliana). To improve the resolution of CB RNAs, 3'CB RNA-seq was established to sequence the 3' ends of CB RNAs. In addition, we modified pNET-seq to establish the Chromatin Native Elongation Transcript sequencing (ChrNET) method using chromatin as the starting material for RNA immunoprecipitation. Reproducibility, sensitivity and accuracy in detecting nascent transcripts, experimental procedures, and costs were analyzed, which revealed the strengths and weaknesses of each method. We found that pNET and GRO methods best detected active RNA polymerase II. CB RNA-seq is a simple and cost-effective alternative for nascent RNA studies, due to its high correlation with pNET-seq and GRO-seq. Compared with pNET, ChrNET has higher specificity for nascent RNA capture and lower sequencing cost. 3'CB is sensitive to transcription-coupled splicing. Using these methods, we identified 1,404 unknown transcripts, 4,482 unannotated splicing events, and 60 potential recursive splicing events. This comprehensive comparison of different nascent/chromatin RNA sequencing methods highlights the strengths of each method and serves as a guide for researchers aiming to select a method that best meets their study goals.


Asunto(s)
Arabidopsis , Tumores Neuroectodérmicos Primitivos , ARN Polimerasa II/genética , ARN Polimerasa II/metabolismo , Reproducibilidad de los Resultados , ARN/genética , Análisis de Secuencia de ARN/métodos , Empalme del ARN/genética , Arabidopsis/genética , Arabidopsis/metabolismo , Cromatina/genética , Transcripción Genética , Secuenciación de Nucleótidos de Alto Rendimiento/métodos
10.
Sci Adv ; 9(32): eadg2699, 2023 08 11.
Artículo en Inglés | MEDLINE | ID: mdl-37566662

RESUMEN

Programmed constitutive heterochromatin silencing is essential for eukaryotic genome regulation, yet the initial step of this process is ambiguous. A large proportion of R-loops (RNA:DNA hybrids) had been unexpectedly identified within Arabidopsis pericentromeric heterochromatin with unknown functions. Through a genome-wide R-loop profiling screen, we find that DDM1 (decrease in DNA methylation 1) is the primary restrictor of pericentromeric R-loops via its RNA:DNA helicase activity. Low levels of pericentromeric R-loops resolved by DDM1 cotranscriptionally can facilitate constitutive heterochromatin silencing. Furthermore, we demonstrate that DDM1 physically excludes histone H2A variant H2A.Z and promotes H2A.W deposition for faithful heterochromatin initiation soon after R-loop clearance. The dual functions of DDM1 in R-loop resolution and H2A.Z eviction are essential for sperm nuclei structure maintenance in mature pollen. Our work unravels the cotranscriptional R-loop resolution coupled with accurate H2A variants deposition is the primary step of constitutive heterochromatin silencing in Arabidopsis, which might be conserved across eukaryotes.


Asunto(s)
Proteínas de Arabidopsis , Arabidopsis , Arabidopsis/genética , Arabidopsis/metabolismo , Histonas/metabolismo , Heterocromatina/genética , Estructuras R-Loop , Proteínas de Arabidopsis/genética , Proteínas de Arabidopsis/metabolismo , Semillas/metabolismo , ARN , Proteínas de Unión al ADN/genética , Factores de Transcripción/metabolismo
11.
J Zhejiang Univ Sci B ; 24(7): 617-631, 2023 Mar 25.
Artículo en Inglés, Chino | MEDLINE | ID: mdl-37455138

RESUMEN

Alcoholic liver disease (ALD) is the most frequent liver disease worldwide, resulting in severe harm to personal health and posing a serious burden to public health. Based on the reported antioxidant and anti-inflammatory capacities of scutellarin (SCU), this study investigated its protective role in male BALB/c mice with acute alcoholic liver injury after oral administration (10, 25, and 50 mg/kg). The results indicated that SCU could lessen serum alanine aminotransferase (ALT) and aspartate aminotransferase (AST) levels and improve the histopathological changes in acute alcoholic liver; it reduced alcohol-induced malondialdehyde (MDA) content and increased glutathione peroxidase (GSH-Px), catalase (CAT), and superoxide dismutase (SOD) activity. Furthermore, SCU decreased tumor necrosis factor-|α (TNF-|α), interleukin-6 (IL-6), and IL-|1ß messenger RNA (mRNA) expression levels, weakened inducible nitric oxide synthase (iNOS) activity, and inhibited nucleotide-binding oligomerization domain (NOD)|-like receptor protein 3 (NLRP3) inflammasome activation. Mechanistically, SCU suppressed cytochrome P450 family 2 subfamily E member 1 (CYP2E1) upregulation triggered by alcohol, increased the expression of oxidative stress-related nuclear factor erythroid 2-related factor 2 (Nrf2) and heme oxygenase-1 (HO-1) pathways, and suppressed the inflammation-related degradation of inhibitor of nuclear factor-|κB (NF-|κB)|-|α (IκBα) as well as activation of NF|-|κB by mediating the protein kinase B (AKT) and p38 mitogen-activated protein kinase (MAPK) pathways. These findings demonstrate that SCU protects against acute alcoholic liver injury via inhibiting oxidative stress by regulating the Nrf2/HO-1 pathway and suppressing inflammation by regulating the AKT, p38 MAPK/NF-κB pathways.


Asunto(s)
Enfermedad Hepática Crónica Inducida por Sustancias y Drogas , FN-kappa B , Ratones , Animales , Masculino , FN-kappa B/metabolismo , Proteínas Proto-Oncogénicas c-akt/metabolismo , Factor 2 Relacionado con NF-E2/metabolismo , Transducción de Señal , Proteínas Quinasas p38 Activadas por Mitógenos/metabolismo , Hemo-Oxigenasa 1 , Enfermedad Hepática Crónica Inducida por Sustancias y Drogas/metabolismo , Enfermedad Hepática Crónica Inducida por Sustancias y Drogas/patología , Hígado/metabolismo , Inflamación/tratamiento farmacológico , Inflamación/metabolismo , Estrés Oxidativo , Etanol , Factor de Necrosis Tumoral alfa/metabolismo
12.
Cell Rep ; 42(7): 112765, 2023 07 25.
Artículo en Inglés | MEDLINE | ID: mdl-37421622

RESUMEN

Plant clock function relies on precise timing of gene expression through complex regulatory networks consisting of activators and repressors at the core of oscillators. Although TIMING OF CAB EXPRESSION 1 (TOC1) has been recognized as a repressor involved in shaping oscillations and regulating clock-driven processes, its potential to directly activate gene expression remains unclear. In this study, we find that OsTOC1 primarily acts as a transcriptional repressor for core clock components, including OsLHY and OsGI. Here, we show that OsTOC1 possesses the ability to directly activate the expression of circadian target genes. Through binding to the promoters of OsTGAL3a/b, transient activation of OsTOC1 induces the expression of OsTGAL3a/b, indicating its role as an activator contributing to pathogen resistance. Moreover, TOC1 participates in regulating multiple yield-related traits in rice. These findings suggest that TOC1's function as a transcriptional repressor is not inherent, providing flexibility to circadian regulations, particularly in outputs.


Asunto(s)
Proteínas de Arabidopsis , Arabidopsis , Relojes Circadianos , Relojes Circadianos/genética , Proteínas de Arabidopsis/genética , Proteínas de Arabidopsis/metabolismo , Arabidopsis/metabolismo , Regiones Promotoras Genéticas/genética , Regulación de la Expresión Génica de las Plantas , Ritmo Circadiano/genética
13.
Nanomaterials (Basel) ; 13(8)2023 Apr 07.
Artículo en Inglés | MEDLINE | ID: mdl-37110892

RESUMEN

This study focuses on a novel humidity sensor composed of graphene-oxide (GO)-supported MoTe2 nanosheets. Conductive Ag electrodes were formed on PET substrates by inkjet printing. A thin film of GO-MoTe2 was deposited on the Ag electrode used for adsorbing humidity. The experiment's results demonstrate that MoTe2 are attached to GO nanosheets uniformly and tightly. The capacitive output of the sensors with various ratios of GO/MoTe2 has been tested for different levels of humidity (11.3-97.3%RH) at room temperature (25 °C). As a consequence, the obtained hybrid film exhibits superior sensitivity (94.12 pF/%RH). The structural integrity and interaction of different components were discussed to afford the prominent humidity sensitivity performance. Under the bending condition, the output curve of the sensor has no obvious fluctuation. This work provides a low-cost way to build flexible humidity sensors with high-performance in environmental monitoring and healthcare.

14.
Sci Rep ; 13(1): 5313, 2023 Mar 31.
Artículo en Inglés | MEDLINE | ID: mdl-37002324

RESUMEN

It is sparse and inconclusive that research on the subject whether the fatigue life of the structure will be reduced by shot peening strengthening before shot peen forming (S + F), and this study investigates accordingly. First, the crack growth rate test of the machine-processing plate and shot peening strengthening before shot peen forming plate demonstrate that both plates' final crack growth rate and length are similar. However, the test shows the "fluctuation phenomenon" of crack growth rate and the "intersection phenomenon" in the Paris curve. This study is based on a self-developed simulation plugin for crack growth paths. The results verify that "fluctuation" causes the differential distribution of the overall stress intensity factor in the strengthened (4.5% increase compared to machine-processing) and formed (9.8% decrease compared to machine-processing) crater areas of the shot peening strengthening before shot peen forming plate. Comparing to the full coverage strengthening area, the forming area (only 30% coverage) in the early stage of growth as well as the gain amplitude of the residual stress in the late stage of growth gradually decrease and tend to be the same as that of the machine-processing, as validated by the "intersection phenomenon".

15.
Artículo en Inglés | MEDLINE | ID: mdl-36497776

RESUMEN

Soil erodibility research is of theoretical and practical significance to the prediction and prevention of regional soil erosion. At present, the study on soil erodibility in the lateritic red soil area of eastern Guangdong province is relatively lacking. Taking the forest land soil of the Yinna mountainous area as the research object, the physical and chemical properties (organic matter mass fraction, texture, moisture, bulk density, pH, aggregate content) of soil samples at different altitudes were measured with field survey sampling and indoor analysis. Soil erodibility K values were simulated with different models (the EPIC model, the Torri model, and the Shirazi model) and the regional applicability of the K simulation models was discussed. The influence of soil properties on soil erodibility was analyzed. The results showed that: (1) K values in the Yinna mountainous area are between 0.0250 and 0.0331 t·hm2·h/MJ·mm·hm2, and the K value in the subsoil layer (20-40 cm) is higher than that of the topsoil layer (0-20 cm). These values decreased significantly with the increase of altitude. The soil in the study area belongs to low-medium to medium erodible soil types. (2) The three models have certain applicability in the Yinna mountainous area, but the simulation results still lack validation. (3) Soil particle size composition is the most important factor affecting the K value in the study area. As far as the topsoil is concerned, K values increase with the increase of clay and silt content and decrease with the increase of sand content and aggregate stability. Soil erodibility has no significant correlation with pH and bulk density and has no clear relationship with the content of soil organic carbon and soil moisture. The research results can provide basic data for regional soil and water conservation and the construction of K value databases of different soil types in China.


Asunto(s)
Carbono , Suelo , Suelo/química , Bosques , China , Tamaño de la Partícula
16.
STAR Protoc ; 3(3): 101657, 2022 09 16.
Artículo en Inglés | MEDLINE | ID: mdl-36097381

RESUMEN

Exorbitant sequencing cost is one of the main obstacles limiting the widespread application of Global Run-On sequencing (GRO-seq) to detect transcriptional activity. Here, we describe a more efficient and affordable protocol for GRO-seq that incorporates an rRNA removal step after nuclear RNA isolation and before nascent RNA immunoprecipitation. We have successfully applied this protocol to profile enhancer transcription in allohexaploid bread wheat and increased the proportion of valid data by 20 times. For complete details on the use and execution of this protocol, please refer to Xie et al. (2022).


Asunto(s)
Pan , Triticum , ARN/genética , ARN Nuclear , Análisis de Secuencia de ARN/métodos , Triticum/genética
17.
Artículo en Inglés | MEDLINE | ID: mdl-36034941

RESUMEN

Objective: Identifying gene mutation signatures will enable a better understanding for the occurrence, development, and prognosis of hepatocellular carcinoma (HCC) and provide some potential biomarkers for clinical practice. This study investigated the mutated genes in HCC patients and assessed their relationship with tumor mutation burden (TMB) and prognosis. Methods: The somatic mutation annotation format (MAF) document, mRNA expression matrix, and clinical information of HCC patients were obtained from the International Cancer Genome Consortium (ICGC) and the Cancer Genome Atlas (TCGA) database. The differences of TMB between the mutant type and the wild-type genes were detected using the Mann-Whitney U test. The link of gene mutations with prognosis was explored by the Kaplan-Meier analysis. The proportion of 22 immune cells' composition was measured using CIBERSORT algorithm. Results: The two databases screened 16 common mutated genes, which included TP53, TTN, LRP1B, ZFHX4, MUC16, OBSCN, CSMD3, FLG, CSMD1, SYNE1, SPTA1, USH2A, KMT2C, PCLO, HMCN1, and FAT3. After a series of analysis, MUC16 mutation was found to be highly correlated with TMB and was regarded as an independent factor predicting HCC. Furthermore, gene set enrichment analysis (GSEA) indicated that the MUC16 mutation was significantly involved in HCC cell metabolism. Conclusions: MUC16 mutation seems to be a valuable potential biomarker for HCC development and its overall survival.

18.
Plant Genome ; 15(3): e20240, 2022 09.
Artículo en Inglés | MEDLINE | ID: mdl-35818680

RESUMEN

The differentiation of gene expression is an important link between genotype and phenotype and has important contributions to species adaptation and ecosystem evolution. As a major component of the world's forests, boreal forests play an important role in regulating the global climate, and the phenology of tree species has been and is undergoing changes during global warming. Here, to understand the impact of global warming on gene expression in boreal forest species, we used PacBio and Illumina sequencing methods to study the transcriptome of natural populations of Siberian larch (Larix sibirica Ledeb.) from the Altai Mountains in Xinjiang, China. We found that populations in this area had low genetic differentiation, but individuals were genetically clustered together when they had close geographic distance. Environmental factors, especially temperature, dominated differential gene expression of Siberian larch, while the contribution of genetic variation is relatively small. We speculate that Siberian larch adapts to changes in temperature and precipitation by altering its own gene expression. These results not only predict the tolerance of boreal forests to higher temperatures in the future, but also inform forest management strategies under global climate change.


Asunto(s)
Larix , China , Ecosistema , Bosques , Expresión Génica , Larix/genética
19.
Plants (Basel) ; 11(11)2022 May 25.
Artículo en Inglés | MEDLINE | ID: mdl-35684171

RESUMEN

Histone modifications, such as methylation and demethylation, have crucial roles in regulating chromatin structure and gene expression. Lysine-specific histone demethylases (LSDs) belong to the amine oxidase family, which is an important family of histone lysine demethylases (KDMs), and functions in maintaining homeostasis of histone methylation. Here, we identified six LSD-like (LDL) genes from the important leguminous soybean. Phylogenetic analyses divided the six GmLDLs into four clusters with two highly conserved SWRIM and amine oxidase domains. Indeed, demethylase activity assay using recombinant GmLDL proteins in vitro demonstrated that GmLDLs have demethylase activity toward mono- and dimethylated Lys4 but not trimethylated histone 3, similar to their orthologs previously reported in animals. Using real-time PCR experiments in combination with public transcriptome data, we found that these six GmLDL genes exhibit comparable expressions in multiple tissues or in response to different abiotic stresses. Moreover, our genetic variation investigation of GmLDL genes among 761 resequenced soybean accessions indicates that GmLDLs are well conserved during soybean domestication and improvement. Taken together, these findings demonstrate that GmFLD, GmLDL1a, and GmLDL1b are bona fide H3K4 demethylases towards H4K4me1/2 and GmLDLs exist in various members with likely conserved and divergent roles in soybeans.

20.
J Colloid Interface Sci ; 625: 817-830, 2022 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-35772209

RESUMEN

The design of conductive hydrogels integrating anti-fatigue, high sensitivity, strong mechanical property and good sterilization performance remains a challenge. We innovatively introduced metal coordination in covalently crosslinked Pluronic F-127 micelle network and synthesized nanocomposite conductive tough hydrogel through the combination of covalent crosslinking, metal coordination and silver nanowire reinforcement. Compared with pure diacylated PF127 hydrogel (PF127), the tensile strength of PF-AA-AM-Al3+/Ag0.25 hydrogel reaching 1.4 MPa was about 10 times than that of PF127. The toughness of PF-AA-AM-Al3+/Ag0.25 reaches 1.88 MJ/m3. Compared with PF-AA-AM-Al3+, the introduction of silver nanowires increased the fatigue life of PF-AA-AM-Al3+/Ag0.25 by 200% (31837 cycles), 170% (12804 cycles) and 1022% (511 cycles) under 100%, 120% and 150% ultimate tensile strains, respectively. Besides, the PF-AA-AM-Al3+/Ag0.25 showed strain sensitivity to small deformation (Gauge factor = 2.42) in wearable tests on hands and knees. In addition, the PF-AA-AM-Al3+/Ag0.25 had good cytocompatibility and antibacterial performance that bacteria killing ratio of 98% to S. aureus and 99% to E. coli. Finally, a viscoelastic numerical constitutive model was established based on finite element method to study the damage failure history of the material. Comparative analysis showed that local stress concentration was the main factor leading to the failure of hydrogel.


Asunto(s)
Micelas , Poloxámero , Conductividad Eléctrica , Escherichia coli , Humanos , Hidrogeles , Nanogeles , Plata , Staphylococcus aureus
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