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1.
Water Res ; 260: 121946, 2024 Jun 14.
Artículo en Inglés | MEDLINE | ID: mdl-38906080

RESUMEN

Landscape changes resulting from anthropogenic activities and climate changes severely impact surface water quality. A global perspective on understanding their relationship is a prerequisite for pursuing equity in water security and sustainable development. A sequent meta-analysis synthesizing 625 regional studies from 63 countries worldwide was conducted to analyze the impacts on water quality from changing landscape compositions in the catchment and explore the moderating factors and temporal evolution. Results exhibit that total nitrogen (TN), total phosphorus (TP), and chemical oxygen demand (COD) in water are mostly concerned and highly responsive to landscape changes. Expansion of urban lands fundamentally degraded worldwide water quality over the past 20 years, of which the arid areas tended to suffer more harsh deterioration. Increasing forest cover, particularly low-latitude forests, significantly decreased the risk of water pollution, especially biological and heavy metal contamination, suggesting the importance of forest restoration in global urbanization. The effect size of agricultural land changes on water quality was spatially scale-dependent, decreasing and then increasing with the buffer radius expanding. Wetland coverage positively correlated with organic matter in water typified by COD, and the correlation coefficient peaked in the boreal areas (r=0.82, p<0.01). Overall, the global impacts of landscape changes on water quality have been intensifying since the 1990s. Nevertheless, knowledge gaps still exist in developing areas, especially in Africa and South America, where the water quality is sensitive to landscape changes and is expected to experience dramatic shifts in foreseeable future development. Our study revealed the worldwide consistency and heterogeneity between regions, thus serving as a research roadmap to address the quality-induced global water scarcity under landscape changes and to direct the management of land and water.

2.
Mol Plant Pathol ; 25(6): e13483, 2024 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-38829344

RESUMEN

As a universal second messenger, cytosolic calcium (Ca2+) functions in multifaceted intracellular processes, including growth, development and responses to biotic/abiotic stresses in plant. The plant-specific Ca2+ sensors, calmodulin and calmodulin-like (CML) proteins, function as members of the second-messenger system to transfer Ca2+ signal into downstream responses. However, the functions of CMLs in the responses of cotton (Gossypium spp.) after Verticillium dahliae infection, which causes the serious vascular disease Verticillium wilt, remain elusive. Here, we discovered that the expression level of GbCML45 was promoted after V. dahliae infection in roots of cotton, suggesting its potential role in Verticillium wilt resistance. We found that knockdown of GbCML45 in cotton plants decreased resistance while overexpression of GbCML45 in Arabidopsis thaliana plants enhanced resistance to V. dahliae infection. Furthermore, there was physiological interaction between GbCML45 and its close homologue GbCML50 by using yeast two-hybrid and bimolecular fluorescence assays, and both proteins enhanced cotton resistance to V. dahliae infection in a Ca2+-dependent way in a knockdown study. Detailed investigations indicated that several defence-related pathways, including salicylic acid, ethylene, reactive oxygen species and nitric oxide signalling pathways, as well as accumulations of lignin and callose, are responsible for GbCML45- and GbCML50-modulated V. dahliae resistance in cotton. These results collectively indicated that GbCML45 and GbCML50 act as positive regulators to improve cotton Verticillium wilt resistance, providing potential targets for exploitation of improved Verticillium wilt-tolerant cotton cultivars by genetic engineering and molecular breeding.


Asunto(s)
Calcio , Resistencia a la Enfermedad , Gossypium , Enfermedades de las Plantas , Proteínas de Plantas , Gossypium/microbiología , Gossypium/genética , Gossypium/metabolismo , Gossypium/inmunología , Resistencia a la Enfermedad/genética , Enfermedades de las Plantas/microbiología , Proteínas de Plantas/metabolismo , Proteínas de Plantas/genética , Calcio/metabolismo , Regulación de la Expresión Génica de las Plantas , Calmodulina/metabolismo , Calmodulina/genética , Arabidopsis/microbiología , Arabidopsis/genética , Arabidopsis/inmunología , Arabidopsis/metabolismo , Ascomicetos/fisiología , Ascomicetos/patogenicidad , Plantas Modificadas Genéticamente , Verticillium/fisiología , Verticillium/patogenicidad
3.
iScience ; 25(10): 105093, 2022 Oct 21.
Artículo en Inglés | MEDLINE | ID: mdl-36185373

RESUMEN

In organisms from bacteria to mammals, NADPH oxidase (NOX) catalyzes the production of beneficial reactive oxygen species (ROS) such as superoxide (O2 -). However, our previous research implicated glutathione reductase (GR), a canonical antioxidant enzyme, as a source of extracellular superoxide in the marine diatom Thalassiosira oceanica. Here, we expressed and characterized the two GR isoforms of T. oceanica. Both coupled the oxidation of NADPH, the native electron donor, to oxygen reduction, giving rise to superoxide in the absence of glutathione disulfide, the native electron acceptor. Superoxide production by ToGR1 exhibited similar kinetics as representative NOX enzymes, and inhibition assays agreed with prior organismal studies, supporting a physiological role. ToGR is similar to GR from human, yeast, and bacteria, suggesting that NOX-like ROS production by GR could be widespread. Yet unlike NOX, GR-mediated ROS production is independent of iron, which may provide an advantageous way of making ROS under micronutrient stress.

4.
Pathol Oncol Res ; 28: 1610288, 2022.
Artículo en Inglés | MEDLINE | ID: mdl-35769830

RESUMEN

Background: Histone deacetylase (HDAC) plays a crucial role in regulating the expression and activity of a variety of genes associated with tumor progression and immunotherapeutic processes. The aim of this study was to characterize HDAC pathway copy number variation (CNV) in pan-cancer. Methods: A total of 10,678 tumor samples involving 33 types of tumors from The Cancer Genome Atlas (TCGA) were included in the study. Results: HDAC pathway CNV and CNV gain were identified as prognostic risk factors for pan-cancer species. The differences of tumor characteristics including tumor mutational burden, tumor neoantigen burden, high-microsatellite instability, and microsatellite stable between HDAC pathway CNV altered-type group and wild-type group varied among the various cancer species. In some cancer types, HDAC pathway CNV alteration was positively correlated with loss of heterozygosity, CNV burden, ploidy, and homologous recombination defect score markers, while it was significantly negatively correlated with immune score and stroma score. There were significant differences in immune characteristics such as major histocompatibility complex class I (MHC-I), MHC-II, chemokines, cytolytic-activity, and IFN-γ between the two groups. Immune cycle characteristics varied from one cancer type to another. Conclusion: This study reveals a tumor and immune profile of HDAC pathway CNV as well as its unlimited potential in immune prognosis.


Asunto(s)
Variaciones en el Número de Copia de ADN , Neoplasias , Variaciones en el Número de Copia de ADN/genética , Histona Desacetilasas/genética , Humanos , Inestabilidad de Microsatélites , Neoplasias/genética , Pronóstico
5.
Nanoscale ; 14(24): 8601-8610, 2022 Jun 23.
Artículo en Inglés | MEDLINE | ID: mdl-35543218

RESUMEN

Direct sunlight-induced water splitting for photocatalytic hydrogen evolution is the dream for an ultimate clean energy source. So far, typical photocatalysts require complicated synthetic processes and barely work without additives or electrolytes. Here, we report the realization of a hydrogen evolution strategy with a novel Ni-Ag-MoS2 ternary nanocatalyst under visible/sun light. Synthesized through an ultrasound-assisted wet method, the composite exhibits stable catalytic activity for long-term hydrogen production from both pure and natural water. A high efficiency of 73 µmol g-1 W-1 h-1 is achieved with only a visible light source and the (MoS2)84Ag10Ni6 catalyst, matching the values of present additive-enriched photocatalysts. Verified by experimental characterizations and first-principles calculations, the enhanced photocatalytic ability is attributed to effective charge migration through the dangling bonds at the Ni-Ag-MoS2 alloy interface and the activation of the MoS2 basal planes.

6.
Lung Cancer ; 166: 161-169, 2022 04.
Artículo en Inglés | MEDLINE | ID: mdl-35287068

RESUMEN

OBJECTIVES: The aim of this study was to illustrate the genomic mutational landscape, tumor mutation burden (TMB), PD-L1 expression, CD8+ T cell infiltration and their prognostic value in resectable Lung large cell neuroendocrine carcinoma (LCNEC). MATERIALS AND METHODS: The tumor tissues and corresponding normal tissues of 37 LCNEC patients undergoing surgical resection were collected and determined by whole exome sequencing (WES). Subsequently, the tumor samples were stained with the antibodies of PD-L1 and CD8 via multiplex immunohistochemistry (Multi IHC) to evaluate PD-L1 expression and CD8+ T cells infiltration in stroma and tumor regions. Univariate and multivariate analysis were applied to assess the association among genomic features, immune profiles, clinical data and prognosis of LCNEC patients. RESULTS: The median TMB was 5.42 mutations per megabase. Mutations in Wnt (p = 0.049) and Hippo (p = 0.005) pathways were markedly associated with higher TMB value, mutations in p53 pathway were related with higher stromal PD-L1 expression (p = 0.041). LCNEC patients with KEAP1 mutation (p = 0.044) or without adjuvant radiochemotherapy (p = 0.023) had significantly shorter OS. Multivariate analysis showed that high stromal CD8 + T cells infiltration was an independent favorable factor for disease free survival (p = 0.030). The patient stratification of KEAP1 mutation status and stroma PD-L1 expression was independent prognostic factors for overall survival (p = 0.049). CONCLUSION: The investigation of prognostic factor in resectable LCNEC may provide guidance for timely intervention and new therapy strategy for LCENC patients.


Asunto(s)
Antígeno B7-H1/metabolismo , Carcinoma de Células Grandes , Carcinoma Neuroendocrino , Neoplasias Pulmonares , Biomarcadores de Tumor/metabolismo , Linfocitos T CD8-positivos , Carcinoma de Células Grandes/patología , Carcinoma Neuroendocrino/genética , China , Humanos , Proteína 1 Asociada A ECH Tipo Kelch/genética , Pulmón/patología , Neoplasias Pulmonares/patología , Mutación/genética , Factor 2 Relacionado con NF-E2/genética
7.
Biomed Res Int ; 2021: 5557649, 2021.
Artículo en Inglés | MEDLINE | ID: mdl-34337026

RESUMEN

BACKGROUND: The essential roles of the tumor microenvironment (TME) have been recognized during the initiation and progression of primary lung adenocarcinoma (LUAD). The aim of the present study was to delineate the immune landscape in both primary cancer and matched lymph node metastasis from a cohort of locally advanced stage LUAD patients with distinct outcomes. METHODS: Formalin-fixed, paraffin-embedded samples were collected from 36 locally advanced LUAD patients. Transcriptome data of the tumor immune microenvironment were resolved using an immune oncology panel RNA sequencing platform. Bioinformatics approaches were used to determine the differentially expressed genes (DEGs), dysregulated pathways, and immune cell fraction between patients with early recurrence (ER) and late recurrence (LR). RESULTS: Here, we showed that in primary cancer tissues, 23 DEGs were obtained between patients with ER and LR. Functional analysis revealed that the LR in LUAD patients may be associated with enriched gene sets belonging to the antigen presentation and MHC protein complex, innate immune response, and IFN-γ signaling pathways. Next, the transcriptome data were adopted to quantify immune cell fractions, indicating that high infiltration of mast cells and neutrophils was correlated with ER. Interestingly, similar findings were observed in metastatic lymph nodes from patients suffering from ER or LR. By analyzing the shared immune features of primary cancers and lymphatic metastases, we unraveled the prognostic value and joint utility of two DEGs, CORO1A and S100A8. CONCLUSIONS: In LUAD, the enrichment in antigen presentation, MHC protein complex, and IFN-γ signaling, and low infiltration of neutrophils in primary or metastatic nodules may be indications for a favorable prognosis. Integrated with bioinformatics approaches, transcriptome data of immune-related genes from formalin-fixed, paraffin-embedded (FFPE) samples can effectively profile the landscape of the tumor immune microenvironment and help predict clinical outcomes.


Asunto(s)
Adenocarcinoma del Pulmón/inmunología , Adenocarcinoma del Pulmón/patología , Neoplasias Pulmonares/inmunología , Neoplasias Pulmonares/patología , Metástasis Linfática/patología , Microambiente Tumoral/inmunología , Adenocarcinoma del Pulmón/genética , Adulto , Anciano , Femenino , Perfilación de la Expresión Génica , Regulación Neoplásica de la Expresión Génica , Humanos , Neoplasias Pulmonares/genética , Ganglios Linfáticos/patología , Masculino , Persona de Mediana Edad , Proteínas de Neoplasias/genética , Proteínas de Neoplasias/metabolismo , Recurrencia Local de Neoplasia/patología , Pronóstico , Microambiente Tumoral/genética
8.
J Int Med Res ; 49(5): 3000605211016206, 2021 May.
Artículo en Inglés | MEDLINE | ID: mdl-34044599

RESUMEN

OBJECTIVE: To identify biomarkers related to esophageal squamous cell carcinoma (ESCC) prognosis by analyzing genetic variations and the infiltration levels of tumor-infiltrating lymphocytes (TILs) in patients. METHODS: The clinical features of 61 patients with ESCC were collected. DNA panel sequencing was performed to screen differentially expressed genes (DEGs). Transcriptome sequencing was performed to identify gene expression profiles, and subsequent enrichment analysis of DEGs was conducted using Metascape. RESULTS: We identified 488 DEGs between patients with ESCC with distinct prognoses that were mainly enriched in the human immune response, fibrinogen complex, and protein activation cascade pathways. Among patients with ESCC treated with postoperative chemotherapy, those with a high infiltration level of myeloid-derived suppressor cells (MDSCs) had longer overall survival (OS), and OS was positively correlated with the infiltration level of T helper type 2 (Th2) cells among patients treated without chemotherapy after surgery. Additionally, in the case of MDSCs >0.7059 or Th2 cells <0.6290, patients receiving postoperative chemotherapy had a longer OS than those treated without chemotherapy following surgery. CONCLUSION: The level of MDSCs or Th2 cells can be used as a biomarker for assessing the prognosis of patients with ESCC treated with or without postoperative chemotherapy, respectively.


Asunto(s)
Carcinoma de Células Escamosas , Neoplasias Esofágicas , Carcinoma de Células Escamosas de Esófago , Biomarcadores de Tumor/genética , Carcinoma de Células Escamosas/diagnóstico , Carcinoma de Células Escamosas/tratamiento farmacológico , Carcinoma de Células Escamosas/genética , Neoplasias Esofágicas/diagnóstico , Neoplasias Esofágicas/tratamiento farmacológico , Neoplasias Esofágicas/genética , Carcinoma de Células Escamosas de Esófago/tratamiento farmacológico , Carcinoma de Células Escamosas de Esófago/genética , Regulación Neoplásica de la Expresión Génica , Humanos , Linfocitos Infiltrantes de Tumor , Pronóstico
9.
Transl Oncol ; 14(1): 100942, 2021 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-33221686

RESUMEN

Patients with early-stage non-small cell lung cancer (NSCLC), even stage IA, are at substantial risk of relapse and death. We explored the distinct features of molecular alterations and immune-related gene expression in Formalin-fixed paraffin-embedded (FFPE) samples from 25 relapsed patients compared with 25 non-relapsed patients through using whole-exome sequencing and an immune oncology panel RNA sequencing platform. Results showed that the chemokine, cytolytic activity and tumour-associated antigen gene signatures exhibited significantly higher expression in non-relapsed tumours from stage IA lung adenocarcinoma (LUAD) than that in relapsed tumours. Besides, Kaplan-Meier survival analysis revealed that the gene signatures of chemokines and tumour-associated antigens were significantly associated with the patients' disease-free survival (DFS), indicating their prognostic value in early-stage LUAD. Cytolytic activity displayed a similar trend but failed to reach statistical significance. These findings revealed a weakened immune phenotype in relapsed tumours and provide valuable information for improving the treatment management of these high-risk patients. Due to the overall small patient number in this study, these differences should be further validated in a larger cohort.

10.
Front Oncol ; 10: 574937, 2020.
Artículo en Inglés | MEDLINE | ID: mdl-33479597

RESUMEN

INTRODUCTION: Although traditional treatments confer survival benefits to patients with gastric cancer (GC), many patients experience relapse soon after postoperative adjuvant therapy. Immune-related mechanisms play an important role in GC, and immunotherapeutic strategies are considered to be a promising direction for the treatment of GC. Thus, our study aimed to investigate the expression and prognostic significance of immune-related genes in GC. METHODS: Formalin-fixed, paraffin-embedded samples were collected from 48 resectable GC patients. The transcriptome data of the tumor immune microenvironment were assessed using an immuno-oncology 395-gene panel RNA sequencing platform. The prognostic value of the 395 genes was analyzed and validated in the KM plotter and GEPIA databases. The data from The Cancer Genome Atlas (TCGA, downloaded from UCSC Xena repository) and Tumor IMmune Estimation Resource (TIMER) were used to evaluate the correlations between prognostic factors and immune signatures. RESULTS: Among the 395 genes, NOTCH3 was identified as a good prognostic factor for GC patients. Its prognostic value was also suggested in both our GC cohort from Zhongshan Hospital and the public databases (KM plotter and GEPIA database). Mechanistically, high NOTCH3 expression correlated with a lower infiltration of activated CD8+ T cells and a higher infiltration of immunosuppressive cells including Tregs and M2 macrophages in the tumor microenvironment. Moreover, high NOTCH3 expression was accompanied by the increased expression of a series of immune checkpoint inhibitors, resulting in a dampened immune response. Interestingly, NOTCH3 expression had a negative association with well-documented predictive biomarkers of immune checkpoint blockade (ICB) immunotherapy, including tumor mutation burden (TMB), gene expression profiling (GEP) score and innate anti-PD-1 resistance (IPRES) signature. CONCLUSION: These findings uncovered a new mechanism by which NOTCH3 participates in the immune tolerance of GC, implying the potential of NOTCH3 as a therapeutic target or predictive marker for GC patients.

11.
Plant Biotechnol J ; 18(3): 814-828, 2020 03.
Artículo en Inglés | MEDLINE | ID: mdl-31479566

RESUMEN

The diploid wild cotton species Gossypium australe possesses excellent traits including resistance to disease and delayed gland morphogenesis, and has been successfully used for distant breeding programmes to incorporate disease resistance traits into domesticated cotton. Here, we sequenced the G. australe genome by integrating PacBio, Illumina short read, BioNano (DLS) and Hi-C technologies, and acquired a high-quality reference genome with a contig N50 of 1.83 Mb and a scaffold N50 of 143.60 Mb. We found that 73.5% of the G. australe genome is composed of various repeat sequences, differing from those of G. arboreum (85.39%), G. hirsutum (69.86%) and G. barbadense (69.83%). The G. australe genome showed closer collinear relationships with the genome of G. arboreum than G. raimondii and has undergone less extensive genome reorganization than the G. arboreum genome. Selection signature and transcriptomics analyses implicated multiple genes in disease resistance responses, including GauCCD7 and GauCBP1, and experiments revealed induction of both genes by Verticillium dahliae and by the plant hormones strigolactone (GR24), salicylic acid (SA) and methyl jasmonate (MeJA). Experiments using a Verticillium-resistant domesticated G. barbadense cultivar confirmed that knockdown of the homologues of these genes caused a significant reduction in resistance against Verticillium dahliae. Moreover, knockdown of a newly identified gland-associated gene GauGRAS1 caused a glandless phenotype in partial tissues using G. australe. The G. australe genome represents a valuable resource for cotton research and distant relative breeding as well as for understanding the evolutionary history of crop genomes.


Asunto(s)
Resistencia a la Enfermedad , Gossypium/genética , Australia , Diploidia , Regulación de la Expresión Génica de las Plantas , Técnicas de Silenciamiento del Gen , Morfogénesis , Enfermedades de las Plantas/genética
12.
Cancer Manag Res ; 11: 9165-9173, 2019.
Artículo en Inglés | MEDLINE | ID: mdl-31802941

RESUMEN

OBJECTIVE: We investigated the relationship of the transcriptional tumor immune microenvironment with prognosis of patients with locally advanced lung adenocarcinoma (LUAD). MATERIALS AND METHODS: A targeted RNA-Seq approach was used to measure the abundance of 395 immune-related transcripts of 24 formalin-fixed paraffin embedded (FFPE) tumor specimens from our institution and transcription data of 85 matched LUAD samples from The Cancer Genome Atlas (TCGA). Gene set variation analysis (GSVA) was used to identify gene sets related to prognosis, and the microenvironment cell-population (MCP)-counter method was used to quantify infiltrated immune cells. Survival analysis with the log rank test was used to determine the relationships of different immune-related transcripts with prognosis. Cox proportional hazards models were also used to identify risk factors associated with poor prognosis. RESULTS: Among our patients, GSVA and the log rank test demonstrated that enrichment of the antigen processing pathway (P = 0.01) correlated with a favorable prognosis. MCP-counter and survival analysis demonstrated that greater CD8 T cell infiltration correlated with a favorable prognosis (P = 0.05), but greater infiltration of neutrophils (P = 0.014) and NK cells (P = 0.015) correlated with poor prognoses. Cox hazard analysis showed that greater infiltration of neutrophils was an independent risk factor for poor prognosis. These results were consistent with LUAD data from TCGA. CONCLUSION: When integrated with computational bioinformatics methods, targeted RNA-Seq from FFPE specimens provides profiles of the tumor immune microenvironment that have prognostic value for patients with locally advanced LUAD.

13.
J Cell Biochem ; 120(8): 13076-13084, 2019 08.
Artículo en Inglés | MEDLINE | ID: mdl-30937963

RESUMEN

OBJECTIVE: Clinical trials comparing the efficacy of different interventions for endometriosis are limited and controversial. The aim of the present study is to perform a network meta-analysis on the efficacy of various interventions for endometriosis. METHODS: We searched PubMed and Ovid EMBASE through 1 June, 2018, for trials reporting the pain score and 1-year pregnancy rate of patients including at least one pair of direct control group. The mean difference of pain score, odds ratio of 1-year pregnancy rate, and their associated 95% credible intervals (CrI) were used to describe efficacy. The surface under the cumulative ranking curve (SUCRA) was calculated to illustrate the rank probability of various treatments for different outcomes, on the basis of network meta-analysis. RESULTS: Our meta-analysis enrolled six studies for the evaluation of reducing pain and 10 studies for the 1-year pregnancy rate. All involved trials were sufficiently powered with a low risk of bias. Expectant management (EM), progesterone (PR), and gonadotropin-releasing hormone (GnRH)-agonist (GN) were significantly effective to reduce pain when compared with the placebo; EM ranked the highest on the SUCRA curve. For the 1-year pregnancy rate, no significant difference between the interventions was evident. Ablation ranked the highest with a SUCRA value of 0.6328. The rank of EM was acceptable with a SUCRA value of 0.4452. Our experimental results need to be verified by more high-quality randomized controlled trial articles. CONCLUSION: Limited available evidence showed that EM, PR, and GN were significantly effective to reduce pain when compared with the placebo. Due to a lack of convincing evidence favoring surgery or medication, we recommend considering EM.


Asunto(s)
Endometriosis/terapia , Hormona Liberadora de Gonadotropina/agonistas , Dolor/prevención & control , Progesterona/uso terapéutico , Espera Vigilante/métodos , Endometriosis/complicaciones , Femenino , Humanos , Metaanálisis en Red , Dolor/complicaciones , Embarazo , Índice de Embarazo , Ensayos Clínicos Controlados Aleatorios como Asunto/métodos , Ensayos Clínicos Controlados Aleatorios como Asunto/estadística & datos numéricos , Resultado del Tratamiento
14.
Nat Commun ; 9(1): 4865, 2018 11 19.
Artículo en Inglés | MEDLINE | ID: mdl-30451861

RESUMEN

The precise interplay between the mRNA codon and the tRNA anticodon is crucial for ensuring efficient and accurate translation by the ribosome. The insertion of RNA nucleobase derivatives in the mRNA allowed us to modulate the stability of the codon-anticodon interaction in the decoding site of bacterial and eukaryotic ribosomes, allowing an in-depth analysis of codon recognition. We found the hydrogen bond between the N1 of purines and the N3 of pyrimidines to be sufficient for decoding of the first two codon nucleotides, whereas adequate stacking between the RNA bases is critical at the wobble position. Inosine, found in eukaryotic mRNAs, is an important example of destabilization of the codon-anticodon interaction. Whereas single inosines are efficiently translated, multiple inosines, e.g., in the serotonin receptor 5-HT2C mRNA, inhibit translation. Thus, our results indicate that despite the robustness of the decoding process, its tolerance toward the weakening of codon-anticodon interactions is limited.


Asunto(s)
2-Aminopurina/análogos & derivados , Anticodón/química , Codón/química , Inosina/metabolismo , Biosíntesis de Proteínas , Receptor de Serotonina 5-HT2C/genética , 2-Aminopurina/química , 2-Aminopurina/metabolismo , Anticodón/metabolismo , Bacteriófago T7/genética , Bacteriófago T7/metabolismo , Secuencia de Bases , Codón/metabolismo , Citidina/análogos & derivados , Citidina/genética , Citidina/metabolismo , ARN Polimerasas Dirigidas por ADN/genética , ARN Polimerasas Dirigidas por ADN/metabolismo , Escherichia coli/genética , Escherichia coli/metabolismo , Células HEK293 , Humanos , Enlace de Hidrógeno , Inosina/genética , Piridonas/química , Piridonas/metabolismo , ARN de Transferencia de Glicerina/genética , ARN de Transferencia de Glicerina/metabolismo , Receptor de Serotonina 5-HT2C/metabolismo , Ribosomas/genética , Ribosomas/metabolismo , Proteínas Virales/genética , Proteínas Virales/metabolismo
15.
Small ; 14(22): e1704526, 2018 May.
Artículo en Inglés | MEDLINE | ID: mdl-29687601

RESUMEN

A critical factor for electronics based on inorganic layered crystals stems from the electrical contact mode between the semiconducting crystals and the metal counterparts in the electric circuit. Here, a materials tailoring strategy via nanocomposite decoration is carried out to reach metallic contact between MoS2 matrix and transition metal nanoparticles. Nickel nanoparticles (NiNPs) are successfully joined to the sides of a layered MoS2 crystal through gold nanobuffers, forming semiconducting and magnetic NiNPs@MoS2 complexes. The intrinsic semiconducting property of MoS2 remains unchanged, and it can be lowered to only few layers. Chemical bonding of the Ni to the MoS2 host is verified by synchrotron radiation based photoemission electron microscopy, and further proved by first-principles calculations. Following the system's band alignment, new electron migration channels between metal and the semiconducting side contribute to the metallic contact mechanism, while semiconductor-metal heterojunctions enhance the photocatalytic ability.

16.
Sci Rep ; 8(1): 3488, 2018 02 22.
Artículo en Inglés | MEDLINE | ID: mdl-29472573

RESUMEN

Protein degradation is a fundamental process in all living cells and is essential to remove both damaged proteins and intact proteins that are no longer needed by the cell. We are interested in creating synthetic genetic circuits that function in a cell-free expression system. This will require not only an efficient protein expression platform but also a robust protein degradation system in cell extract. Therefore, we purified and tested the activity of E. coli ClpXP protease in cell-free transcription-translation (TX-TL) systems that used E. coli S30 cell extract. Surprisingly, our studies showed that purified ClpXP added to the TX-TL system has very low proteolytic activity. The low activity of ClpXP was correlated with the rapid consumption of adenosine triphosphate (ATP) in cell extract. We improved the activity of ClpXP in cell extract by adding exogenous ATP and an energy regeneration system. We then established conditions for both protein synthesis, and protein degradation by ClpXP to occur simultaneously in the TX-TL systems. The optimized conditions for ClpXP activity will be useful for creating tunable synthetic genetic circuits and in vitro synthetic biology.


Asunto(s)
Sistema Libre de Células , Endopeptidasa Clp/genética , Proteínas de Escherichia coli/genética , Escherichia coli/genética , Transcripción Genética , Adenosina Trifosfato/química , Adenosina Trifosfato/genética , Endopeptidasa Clp/química , Escherichia coli/química , Escherichia coli/metabolismo , Proteínas de Escherichia coli/química , Regiones Promotoras Genéticas , Biosíntesis de Proteínas/genética , Biología Sintética
17.
Proc Natl Acad Sci U S A ; 115(3): E382-E389, 2018 01 16.
Artículo en Inglés | MEDLINE | ID: mdl-29298914

RESUMEN

Termination of protein synthesis is triggered by the recognition of a stop codon at the ribosomal A site and is mediated by class I release factors (RFs). Whereas in bacteria, RF1 and RF2 promote termination at UAA/UAG and UAA/UGA stop codons, respectively, eukaryotes only depend on one RF (eRF1) to initiate peptide release at all three stop codons. Based on several structural as well as biochemical studies, interactions between mRNA, tRNA, and rRNA have been proposed to be required for stop codon recognition. In this study, the influence of these interactions was investigated by using chemically modified stop codons. Single functional groups within stop codon nucleotides were substituted to weaken or completely eliminate specific interactions between the respective mRNA and RFs. Our findings provide detailed insight into the recognition mode of bacterial and eukaryotic RFs, thereby revealing the chemical groups of nucleotides that define the identity of stop codons and provide the means to discriminate against noncognate stop codons or UGG sense codons.


Asunto(s)
Codón de Terminación/genética , Escherichia coli/metabolismo , Factores de Terminación de Péptidos/fisiología , Proteínas de Escherichia coli/metabolismo , Mutagénesis Sitio-Dirigida , Nucleótidos , Terminación de la Cadena Péptídica Traduccional , Biosíntesis de Proteínas
18.
Sci Rep ; 7(1): 7092, 2017 08 02.
Artículo en Inglés | MEDLINE | ID: mdl-28769077

RESUMEN

In this work, we present laser coloration on 304 stainless steel using nanosecond laser. Surface modifications are tuned by adjusting laser parameters of scanning speed, repetition rate, and pulse width. A comprehensive study of the physical mechanism leading to the appearance is presented. Microscopic patterns are measured and employed as input to simulate light-matter interferences, while chemical states and crystal structures of composites to figure out intrinsic colors. Quantitative analysis clarifies the final colors and RGB values are the combinations of structural colors and intrinsic colors from the oxidized pigments, with the latter dominating. Therefore, the engineering and scientific insights of nanosecond laser coloration highlight large-scale utilization of the present route for colorful and resistant steels.

19.
ACS Omega ; 2(3): 1192-1197, 2017 Mar 31.
Artículo en Inglés | MEDLINE | ID: mdl-31457497

RESUMEN

As an improvement over organic or inorganic layered crystals, the synthetic monolayer ZnO(M) inherits semiconductivity and hostability from its bulk, yet it acts as a promising host for dilute magnetic semiconductors. Here, we report the electronic and magnetic properties of ZnO(M) doped with one 3d transition metal ion and simultaneously adsorbed with another 3d transition metal ion. Two sequences are studied, one where the dopant is fixed to Mn and the adsorbate is varied from Sc to Zn and another where the dopant and adsorbate are reversed. First-principles results show that the stable adsorbed-doped systems possess a lower bandgap energy than that of the host. System magnetic moments can be tuned to |5 - x|µB, where x refers to the magnetic moment of the individual 3d atom. An interplay between superexchange and direct exchange yields a ferromagnetic system dually adsorbed-doped with Mn. In addition to a novel material design route, the magnetic interaction mechanism is found beyond two dimensions, having been identified for its three-dimensional bulk and zero-dimensional cluster counterparts.

20.
Anal Biochem ; 520: 62-67, 2017 03 01.
Artículo en Inglés | MEDLINE | ID: mdl-28017740

RESUMEN

One of the most common assays for nucleoside triphosphatase (NTPase) activity entails the quantification of inorganic phosphate (Pi) as a colored phosphomolybdate complex at low pH. While this assay is very sensitive, it is not selective for Pi in the presence of labile organic phosphate compounds (OPCs). Since NTPase activity assays typically require a large excess of OPCs, such as nucleotides, selectivity for Pi in the presence of OPCs is often critical in evaluating enzyme activity. Here we present an improved method for the measurement of enzymatic nucleotide hydrolysis as Pi released, which achieves selectivity for Pi in the presence of OPCs while also avoiding the costs and hazards inherent in other methods for measuring nucleotide hydrolysis. We apply this method to the measurement of ATP hydrolysis by nitrogenase and GTP hydrolysis by elongation factor G (EF-G) in order to demonstrate the broad applicability of our method for the determination of nucleotide hydrolysis in the presence of interfering OPCs.


Asunto(s)
Colorimetría , Nucleósido-Trifosfatasa/metabolismo , Fosfatos/metabolismo , Hidrólisis , Molibdeno/análisis , Molibdeno/química , Molibdeno/metabolismo , Fosfatos/análisis , Ácidos Fosfóricos/análisis , Ácidos Fosfóricos/metabolismo , Fósforo/química
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