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1.
Nat Immunol ; 17(5): 583-92, 2016 May.
Artículo en Inglés | MEDLINE | ID: mdl-26998763

RESUMEN

Interleukin 1ß (IL-1ß) is critical for the in vivo survival, expansion and effector function of IL-17-producing helper T (T(H)17) cells during autoimmune responses, including experimental autoimmune encephalomyelitis (EAE). However, the spatiotemporal role and cellular source of IL-1ß during EAE pathogenesis are poorly defined. In the present study, we uncovered a T cell-intrinsic inflammasome that drives IL-1ß production during T(H)17-mediated EAE pathogenesis. Activation of T cell antigen receptors induced expression of pro-IL-1ß, whereas ATP stimulation triggered T cell production of IL-1ß via ASC-NLRP3-dependent caspase-8 activation. IL-1R was detected on T(H)17 cells but not on type 1 helper T (T(H)1) cells, and ATP-treated T(H)17 cells showed enhanced survival compared with ATP-treated T(H)1 cells, suggesting autocrine action of T(H)17-derived IL-1ß. Together these data reveal a critical role for IL-1ß produced by a T(H)17 cell-intrinsic ASC-NLRP3-caspase-8 inflammasome during inflammation of the central nervous system.


Asunto(s)
Proteínas Reguladoras de la Apoptosis/inmunología , Encefalomielitis Autoinmune Experimental/inmunología , Linfocitos T/inmunología , Células Th17/inmunología , Adenosina Trifosfato/farmacología , Animales , Proteínas Reguladoras de la Apoptosis/genética , Proteínas Reguladoras de la Apoptosis/metabolismo , Proteínas Adaptadoras de Señalización CARD , Linfocitos T CD4-Positivos/inmunología , Linfocitos T CD4-Positivos/metabolismo , Proteínas Portadoras/genética , Proteínas Portadoras/inmunología , Proteínas Portadoras/metabolismo , Caspasa 8/genética , Caspasa 8/inmunología , Caspasa 8/metabolismo , Supervivencia Celular/genética , Supervivencia Celular/inmunología , Células Cultivadas , Encefalomielitis Autoinmune Experimental/genética , Encefalomielitis Autoinmune Experimental/metabolismo , Citometría de Flujo , Expresión Génica/inmunología , Immunoblotting , Inflamasomas/genética , Inflamasomas/inmunología , Inflamasomas/metabolismo , Interleucina-17/genética , Interleucina-17/inmunología , Interleucina-17/metabolismo , Interleucina-1beta/genética , Interleucina-1beta/inmunología , Interleucina-1beta/metabolismo , Ratones Endogámicos C57BL , Ratones Noqueados , Ratones Transgénicos , Proteína con Dominio Pirina 3 de la Familia NLR , Reacción en Cadena de la Polimerasa de Transcriptasa Inversa , Transducción de Señal/genética , Transducción de Señal/inmunología , Linfocitos T/efectos de los fármacos , Linfocitos T/metabolismo , Células Th17/efectos de los fármacos , Células Th17/metabolismo
2.
Nat Immunol ; 14(1): 72-81, 2013 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-23202271

RESUMEN

Act1 is an essential adaptor in interleukin 17 (IL-17)-mediated signaling and is recruited to the receptor for IL-17 after stimulation with IL-17. Here we found that Act1 was a 'client' protein of the molecular chaperone hsp90. The D10N variant of Act1 (Act1(D10N)) that is linked to susceptibility to psoriasis was defective in its interaction with hsp90, which resulted in a global loss of Act1 function. Act1-deficient mice modeled the mechanistic link between loss of Act1 function and susceptibility to psoriasis. Although Act1 was necessary for IL-17-mediated inflammation, Act1-deficient mice had a hyperactive response of the T(H)17 subset of helper T cells and developed spontaneous IL-22-dependent skin inflammation. In the absence of IL-17 signaling, IL-22 was the main contributor to skin inflammation, which provides a molecular mechanism for the association of Act1(D10N) with psoriasis susceptibility.


Asunto(s)
Conexina 43/metabolismo , Proteínas HSP90 de Choque Térmico/metabolismo , Chaperonas Moleculares/metabolismo , Fragmentos de Péptidos/metabolismo , Psoriasis/inmunología , Células Th17/inmunología , Animales , Línea Celular , Conexina 43/genética , Conexina 43/inmunología , Modelos Animales de Enfermedad , Predisposición Genética a la Enfermedad , Humanos , Interleucina-17/metabolismo , Ratones , Ratones Noqueados , Chaperonas Moleculares/genética , Mutación/genética , Fragmentos de Péptidos/genética , Fragmentos de Péptidos/inmunología , Polimorfismo Genético , Unión Proteica/genética , Unión Proteica/inmunología , Psoriasis/genética , Transducción de Señal
3.
EMBO Rep ; 24(3): e56034, 2023 03 06.
Artículo en Inglés | MEDLINE | ID: mdl-36629012

RESUMEN

Interleukin 22 (IL-22) has an important role in colorectal tumorigenesis and many colorectal diseases such as inflammatory bowel disease and certain infections. However, the regulation of IL-22 production in the intestinal system is still unclear. Here, we present evidence that butyrophilin-like protein 2 (BTNL2) is required for colorectal IL-22 production, and BTNL2 knockout mice show decreased colonic tumorigenesis and more severe colitis phenotypes than control mice due to defective production of IL-22. Mechanistically, BTNL2 acts on group 3 innate lymphoid cells (ILC3s), CD4+ T cells, and γδ T cells to promote the production of IL-22. Importantly, we find that a monoclonal antibody against BTNL2 attenuates colorectal tumorigenesis in mice and that the mBTNL2-Fc recombinant protein has a therapeutic effect in a dextran sulfate sodium (DSS)-induced colitis model. This study not only identifies a regulatory mechanism of IL-22 production in the colorectal system but also provides a potential therapeutic target for the treatment of human colorectal cancer and inflammatory bowel diseases.


Asunto(s)
Colitis , Neoplasias Colorrectales , Humanos , Ratones , Animales , Inmunidad Innata , Linfocitos , Carcinogénesis , Transformación Celular Neoplásica , Ratones Endogámicos C57BL , Ratones Noqueados , Modelos Animales de Enfermedad , Butirofilinas , Interleucina-22
4.
J Infect Dis ; 229(1): 223-231, 2024 Jan 12.
Artículo en Inglés | MEDLINE | ID: mdl-37506257

RESUMEN

BACKGROUND: The impact of metagenomic next-generation sequencing (mNGS) on antimicrobial stewardship in patients with lower respiratory tract infections (LRTIs) is still unknown. METHODS: This retrospective cohort study included patients who had LRTIs diagnosed and underwent bronchoalveolar lavage between September 2019 and December 2020. Patients who underwent both mNGS and conventional microbiologic tests were classified as the mNGS group, while those with conventional tests only were included as a control group. A 1:1 propensity score match for baseline variables was conducted, after which changes in antimicrobial stewardship between the 2 groups were assessed. RESULTS: A total of 681 patients who had an initial diagnosis of LRTIs and underwent bronchoalveolar lavage were evaluated; 306 patients were finally included, with 153 in each group. mNGS was associated with lower rates of antibiotic escalation than in the control group (adjusted odds ratio, 0.466 [95% confidence interval, .237-.919]; P = .02), but there was no association with antibiotic de-escalation. Compared with the control group, more patients discontinued the use of antivirals in the mNGS group. CONCLUSIONS: The use of mNGS was associated with lower rates of antibiotic escalation and may facilitate the cessation of antivirals, but not contribute to antibiotic de-escalation in patients with LRTIs.


Asunto(s)
Programas de Optimización del Uso de los Antimicrobianos , Infecciones del Sistema Respiratorio , Humanos , Líquido del Lavado Bronquioalveolar , Estudios Retrospectivos , Secuenciación de Nucleótidos de Alto Rendimiento , Infecciones del Sistema Respiratorio/tratamiento farmacológico , Antibacterianos/uso terapéutico , Dimercaprol , Metagenómica , Antivirales , Sensibilidad y Especificidad
5.
J Biol Chem ; 299(7): 104845, 2023 07.
Artículo en Inglés | MEDLINE | ID: mdl-37209826

RESUMEN

The increase in antibiotic resistance calls for accelerated molecular engineering strategies to diversify natural products for drug discovery. The incorporation of non-canonical amino acids (ncAAs) is an elegant strategy for this purpose, offering a diverse pool of building blocks to introduce desired properties into antimicrobial lanthipeptides. We here report an expression system using Lactococcus lactis as a host for non-canonical amino acid incorporation with high efficiency and yield. We show that incorporating the more hydrophobic analog ethionine (instead of methionine) into nisin improves its bioactivity against several Gram-positive strains we tested. New-to-nature variants were further created by click chemistry. By azidohomoalanine (Aha) incorporation and subsequent click chemistry, we obtained lipidated variants at different positions in nisin or in truncated nisin variants. Some of them show improved bioactivity and specificity against several pathogenic bacterial strains. These results highlight the ability of this methodology for lanthipeptide multi-site lipidation, to create new-to-nature antimicrobial products with diverse features, and extend the toolbox for (lanthi)peptide drug improvement and discovery.


Asunto(s)
Química Clic , Lactococcus lactis , Metionina , Nisina , Aminoácidos/metabolismo , Péptidos Antimicrobianos/síntesis química , Péptidos Antimicrobianos/farmacología , Lactococcus lactis/genética , Lactococcus lactis/metabolismo , Metionina/química , Metionina/metabolismo , Nisina/síntesis química , Nisina/farmacología , Bacterias/efectos de los fármacos , Farmacorresistencia Bacteriana/efectos de los fármacos
6.
Small ; 20(1): e2305161, 2024 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-37641192

RESUMEN

Single-atom catalysts (SACs) are promising cathode materials for addressing issues faced by lithium-sulfur batteries. Considering the ample chemical space of SACs, high-throughput calculations are efficient strategies for their rational design. However, the high throughput calculations are impeded by the time-consuming determination of the decomposition barrier (Eb ) of Li2 S. In this study, the effects of bond formation and breakage on the kinetics of SAC-catalyzed Li2 S decomposition with g-C3 N4 as the substrate are clarified. Furthermore, a new efficient and easily-obtained descriptor Li─S─Li angle (ALi─S─Li ) of adsorbed Li2 S, different from the widely accepted thermodynamic data for predicting Eb , which breaks the well-known Brønsted-Evans-Polanyi relationship, is identified. Under the guidance of ALi─S─Li , several superior SACs with d- and p-block metal centers supported by g-C3 N4 are screened to accelerate the sulfur redox reaction and fix the soluble lithium polysulfides. The newly identified descriptor of ALi─S─Li can be extended to rationally design SACs for Na─S batteries. This study opens a new pathway for tuning the performance of SACs to catalyze the decomposition of X2 S (X = Li, Na, and K) and thus accelerate the design of SACs for alkaline-chalcogenide batteries.

7.
Small ; : e2312129, 2024 Apr 09.
Artículo en Inglés | MEDLINE | ID: mdl-38593332

RESUMEN

Lithium (Li) metal is widely recognized as a viable candidate for anode material in future battery technologies due to its exceptional energy density. Nevertheless, the commercial Li foils in common use are too thick (≈100 µm), resulting in a waste of Li resources. Herein, by applying the vacuum evaporation plating technology, the ultra-thin Li foils (VELi) with high purity, strong adhesion, and thickness of less than 10 µm are successfully prepared. The manipulation of evaporation temperature allows for convenient regulation of the thickness of the fabricated Li film. This physical thinning method allows for fast, continuous, and highly accurate mass production. With a current density of 0.5 mA cm-2 for a plating amount of 0.5 mAh cm-2, VELi||VELi cells can stably cycle for 200 h. The maximum utilization of Li is already more than 25%. Furthermore, LiFePO4||VELi full cells present excellent cycling performance at 1 C (1 C = 155 mAh g-1) with a capacity retention rate of 90.56% after 240 cycles. VELi increases the utilization of active Li and significantly reduces the cost of Li usage while ensuring anode cycling and multiplication performance. Vacuum evaporation plating technology provides a feasible strategy for the practical application of ultra-thin Li anodes.

8.
Small ; 20(27): e2308293, 2024 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-38282181

RESUMEN

Zeolites have been widely applied as versatile catalysts, sorbents, and ion exchangers with unique porous structures showing molecular sieving capability. In these years, it is reported that some layered zeolites can be delaminated into molecularly thin 2-dimensional (2D) nanosheets characterized by inherent porous structures and highly exposed active sites. In the present study, two types of zeolite nanosheets with distinct porous structures with MWW topology (denoted mww) and ferrierite-related structure (denoted bifer) are deposited on a substrate through the solution process via electrostatic self-assembly. Alternate deposition of zeolite nanosheets with polycation under optimized conditions allows the layer-by-layer growth of their multilayer films with a stacking distance of 2-3 nm. Furthermore, various hierarchical structures defined at the unit-cell dimensions can be constructed simply by conducting the deposition of mww and bifer nanosheets in a designed sequence. Adsorption of a dye, Rhodamine B, in these films, is examined to show that adsorption is dependent on constituent zeolite nanosheets and their assembled nanostructures. This work has provided fundamental advancements in the fabrication of artificial zeolite-related hierarchical structures, which may be extended to other zeolite nanosheets, broadening their functionalities, applications, and benefits.

9.
PLoS Pathog ; 18(11): e1010989, 2022 11.
Artículo en Inglés | MEDLINE | ID: mdl-36449507

RESUMEN

The mediator of IRF3 activation (MITA, also named STING) is critical for immune responses to abnormal cytosolic DNA and has been considered an important drug target in the clinical therapy of tumors and autoimmune diseases. In the present study, we report that MITA undergoes DDOST-mediated N-glycosylation in the endoplasmic reticulum (ER) upon DNA viral infection. Selective mutation of DDOST-dependent N-glycosylated residues abolished MITA oligomerization and thereby its immune functions. Moreover, increasing the expression of Ddost in the mouse brain effectively strengthens the local immune response to herpes simplex virus-1 (HSV-1) and prolongs the survival time of mice with HSV encephalitis (HSE). Our findings reveal the dependence of N-glycosylation on MITA activation and provide a new perspective on the pathogenesis of HSE.


Asunto(s)
Enfermedades Autoinmunes , Encefalitis por Herpes Simple , Herpesvirus Humano 1 , Virosis , Animales , Ratones , Glicosilación
10.
J Immunol ; 209(4): 820-828, 2022 08 15.
Artículo en Inglés | MEDLINE | ID: mdl-35906000

RESUMEN

Pyroptosis is a key inflammatory form of cell death participating in the progression of many inflammatory diseases, such as experimental autoimmune encephalomyelitis (EAE) and sepsis. Identification of small molecules to inhibit pyroptosis is emerging as an attractive strategy. In this study, we performed a screening based on in silico docking of compounds on the reported Gasdermin D (GSDMD) three-dimensional structure and found C202-2729 demonstrated strong anti-inflammatory effects in both endotoxin shock and EAE mouse models. Oral administration of C202-2729 was capable of attenuating EAE disease severity significantly and has the comparable effects to teriflunomide, the first-line clinical drug of multiple sclerosis. We found C202-2729 remarkably suppressed macrophage and T cell-associated immune inflammation. Mechanistically, C202-2729 neither impact GSDMD cleavage nor the upstream inflammasome activation in mouse immortalized bone marrow-derived macrophages. However, C202-2729 exposure significantly repressed the IL-1ß secretion and cell pyroptosis. We found C202-2729 directly bonds to the N terminus of GSDMD and blocks the migration of the N-terminal GSDMD fragment to cell membrane, restraining the pore-forming and mature IL-1ß release. Collectively, our findings provide a new molecule with the potential for translational application in GSDMD-associated inflammatory diseases.


Asunto(s)
Encefalomielitis Autoinmune Experimental , Sepsis , Animales , Antiinflamatorios/farmacología , Antiinflamatorios/uso terapéutico , Encefalomielitis Autoinmune Experimental/tratamiento farmacológico , Inflamasomas/metabolismo , Péptidos y Proteínas de Señalización Intracelular/metabolismo , Ratones , Proteínas de Unión a Fosfato/metabolismo , Piroptosis , Sepsis/tratamiento farmacológico
11.
J Immunol ; 209(9): 1796-1805, 2022 11 01.
Artículo en Inglés | MEDLINE | ID: mdl-36130827

RESUMEN

The receptor tyrosine kinase EPHB2 (EPH receptor B2) is highly expressed in many human cancer types, especially in gastrointestinal cancers, such as colorectal cancer. Several coding mutations of the EPHB2 gene have been identified in many cancer types, suggesting that EPHB2 plays a critical role in carcinogenesis. However, the exact functional mechanism of EPHB2 in carcinogenesis remains unknown. In this study, we find that EPHB2 is required for TNF-induced signaling activation and proinflammatory cytokine production in colorectal epithelial cells. Mechanistically, after TNF stimulation, EPHB2 is ubiquitinated by its E3 ligase RNF186. Then, ubiquitinated EPHB2 recruits and further phosphorylates TAB2 at nine tyrosine sites, which is a critical step for the binding between TAB2 and TAK1. Due to defects in TNF signaling in RNF186-knockout colorectal epithelial cells, the phenotype of colitis-propelled colorectal cancer model in RNF186-knockout mice is significantly reduced compared with that in wild-type control mice. Moreover, we find that a genetic mutation in EPHB2 identified in a family with colorectal cancer is a gain-of-function mutation that promoted TNF signaling activation compared with wild-type EPHB2. We provide evidence that the EPHB2-RNF186-TAB2-TAK1 signaling cascade plays an essential role in TNF-mediated signal transduction in colorectal epithelial cells and the carcinogenesis of colorectal cancer, which may provide potential targets for the treatment of colorectal cancer.


Asunto(s)
Neoplasias Colorrectales , Receptor EphA1 , Animales , Humanos , Ratones , Carcinogénesis , Neoplasias Colorrectales/genética , Citocinas , Células Epiteliales/metabolismo , Receptor EphA1/metabolismo , Transducción de Señal , Tirosina , Ubiquitina/metabolismo , Ubiquitina-Proteína Ligasas/genética , Ubiquitina-Proteína Ligasas/metabolismo , Receptor EphB2
12.
Bioorg Chem ; 143: 107033, 2024 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-38104498

RESUMEN

In the research on lung protective effects from the roots of Stemona sessilifolia, twenty-five Stemona alkaloids have been isolated, including four undescribed components (1, 3-5), a new natural product (2) and 20 known alkaloids (6-25). Their structures were analyzed by NMR spectra, high-resolution mass spectrum data, and other chemical methods. UPLC-QTOF/MS method was used to identify the Stemona alkaloids and summarize the fragmentation patterns of mass spectrometry. The lung-protective effects of these compounds were evaluated using MLE-12 cells induced by NNK and nm SiO2. The results showed that compounds 3, 5, 8, 10-11, 17-21 and 23 exhibited protective effects on NNK-induced cell injury. Compounds 2, 8-11, 14, 17-19 and 22 showed improvement in nm SiO2-induced lung epithelial cell injury. Compound 10 (tuberostemonine D), a representative alkaloid with a high content in Stemona sessilifolia, significantly protected C57BL/6 lung injury mice induced by nm SiO2, suggesting it a key component of Stemona alkaloids that play a protective role in lung injury. The results of in vivo activity showed that compound 10 could improve the lung injury of mice, reduce ROS content, and recover the levels of SOD and MDA in serum. Its protective effect on lung injury might be related to Nrf2 activation.


Asunto(s)
Alcaloides , Lesión Pulmonar , Stemonaceae , Animales , Ratones , Stemonaceae/química , Dióxido de Silicio , Ratones Endogámicos C57BL , Alcaloides/farmacología , Alcaloides/química , Alcaloides de Stemona , Pulmón
13.
Proc Natl Acad Sci U S A ; 118(30)2021 07 27.
Artículo en Inglés | MEDLINE | ID: mdl-34301894

RESUMEN

Opportunistic fungal infections have become one of the leading causes of death among immunocompromised patients, resulting in an estimated 1.5 million deaths each year worldwide. The molecular mechanisms that promote host defense against fungal infections remain elusive. Here, we find that Myosin IF (MYO1F), an unconventional myosin, promotes the expression of genes that are critical for antifungal innate immune signaling and proinflammatory responses. Mechanistically, MYO1F is required for dectin-induced α-tubulin acetylation, acting as an adaptor that recruits both the adaptor AP2A1 and α-tubulin N-acetyltransferase 1 to α-tubulin; in turn, these events control the membrane-to-cytoplasm trafficking of spleen tyrosine kinase and caspase recruitment domain-containing protein 9 Myo1f-deficient mice are more susceptible than their wild-type counterparts to the lethal sequelae of systemic infection with Candida albicans Notably, administration of Sirt2 deacetylase inhibitors, namely AGK2, AK-1, or AK-7, significantly increases the dectin-induced expression of proinflammatory genes in mouse bone marrow-derived macrophages and microglia, thereby protecting mice from both systemic and central nervous system C. albicans infections. AGK2 also promotes proinflammatory gene expression in human peripheral blood mononuclear cells after Dectin stimulation. Taken together, our findings describe a key role for MYO1F in promoting antifungal immunity by regulating the acetylation of α-tubulin and microtubules, and our findings suggest that Sirt2 deacetylase inhibitors may be developed as potential drugs for the treatment of fungal infections.


Asunto(s)
Candida albicans/fisiología , Candidiasis/inmunología , Inmunidad Innata/inmunología , Leucocitos Mononucleares/inmunología , Microtúbulos/inmunología , Miosina Tipo I/metabolismo , Miosina Tipo I/fisiología , Acetilación , Animales , Antifúngicos/farmacología , Candidiasis/tratamiento farmacológico , Candidiasis/metabolismo , Candidiasis/microbiología , Humanos , Leucocitos Mononucleares/efectos de los fármacos , Leucocitos Mononucleares/metabolismo , Leucocitos Mononucleares/microbiología , Ratones , Ratones Endogámicos C57BL , Ratones Noqueados , Microtúbulos/efectos de los fármacos , Microtúbulos/metabolismo , Microtúbulos/microbiología , Miosina Tipo I/genética , Transducción de Señal
14.
Int J Mol Sci ; 25(12)2024 Jun 20.
Artículo en Inglés | MEDLINE | ID: mdl-38928499

RESUMEN

Brace root architecture is a critical determinant of maize's stalk anchorage and nutrition uptake, influencing root lodging resistance, stress tolerance, and plant growth. To identify the key microRNAs (miRNAs) in control of maize brace root growth, we performed small RNA sequencing using brace root samples at emergence and growth stages. We focused on the genetic modulation of brace root development in maize through manipulation of miR390 and its downstream regulated auxin response factors (ARFs). In the present study, miR167, miR166, miR172, and miR390 were identified to be involved in maize brace root growth in inbred line B73. Utilizing short tandem target mimic (STTM) technology, we further developed maize lines with reduced miR390 expression and analyzed their root architecture compared to wild-type controls. Our findings show that STTM390 maize lines exhibit enhanced brace root length and increased whorl numbers. Gene expression analyses revealed that the suppression of miR390 leads to upregulation of its downstream regulated ARF genes, specifically ZmARF11 and ZmARF26, which may significantly alter root architecture. Additionally, loss-of-function mutants for ZmARF11 and ZmARF26 were characterized to further confirm the role of these genes in brace root growth. These results demonstrate that miR390, ZmARF11, and ZmARF26 play crucial roles in regulating maize brace root growth; the involved complicated molecular mechanisms need to be further explored. This study provides a genetic basis for breeding maize varieties with improved lodging resistance and adaptability to diverse agricultural environments.


Asunto(s)
Regulación de la Expresión Génica de las Plantas , MicroARNs , Raíces de Plantas , Zea mays , Zea mays/genética , Zea mays/crecimiento & desarrollo , MicroARNs/genética , Raíces de Plantas/crecimiento & desarrollo , Raíces de Plantas/genética , Proteínas de Plantas/genética , Proteínas de Plantas/metabolismo , Técnicas de Silenciamiento del Gen
15.
Bioinformatics ; 38(2): 335-343, 2022 01 03.
Artículo en Inglés | MEDLINE | ID: mdl-34524416

RESUMEN

MOTIVATION: Ultrahigh-throughput next-generation sequencing instruments continue to generate vast amounts of genomic data. These data are generally stored in FASTQ format. Two important simultaneous goals are space-efficient compressed storage of the genomic data and fast query performance. Toward that end, we introduce compressed indexing to store and retrieve FASTQ files. RESULTS: We propose a compressed index for FASTQ files called CIndex. CIndex uses the Burrows-Wheeler transform and the wavelet tree, combined with hybrid encoding, succinct data structures and tables REF and Rγ, to achieve minimal space usage and fast retrieval on the compressed FASTQ files. Experiments conducted over real publicly available datasets from various sequencing instruments demonstrate that our proposed index substantially outperforms existing state-of-the-art solutions. For count, locate and extract queries on reads, our method uses 2.7-41.66% points less space and provides a speedup of 70-167.16 times, 1.44-35.57 times and 1.3-55.4 times. For extracting records in FASTQ files, our method uses 2.86-14.88% points less space and provides a speedup of 3.13-20.1 times. CIndex has an additional advantage in that it can be readily adapted to work as a general-purpose text index; experiments show that it performs very well in practice. AVAILABILITY AND IMPLEMENTATION: The software is available on Github: https://github.com/Hongweihuo-Lab/CIndex. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.


Asunto(s)
Compresión de Datos , Programas Informáticos , Genómica/métodos , Genoma , Secuenciación de Nucleótidos de Alto Rendimiento/métodos , Algoritmos , Análisis de Secuencia de ADN/métodos , Compresión de Datos/métodos
16.
J Med Virol ; 95(5): e28790, 2023 05.
Artículo en Inglés | MEDLINE | ID: mdl-37212338

RESUMEN

Baicalin (7-d-glucuronic acid-5, 6-dihydroxyflavone) derived from the root of Scutellaria baicalensis used as Traditional Chinese Medicine (TCM) has been revealed to exert potential antiviral activity via various pathways, while the molecular mechanisms have not been fully understood. Pyroptosis, an inflammatory form of programmed cell death (PCD), is reported to play a crucial role in host cell fate during viral infection. In this study, transcriptome analysis of mice lung tissue reveals that baicalin reverses the alterations of the mRNA levels of PCD-associated genes upon H1N1 challenge, with a concomitant decrease in the population of H1N1-induced propidium iodide (PI)+ and Annexin Ⅴ+ cells. Intriguingly, we find that baicalin contributes to the survival of infected lung alveolar epithelial cells partly through its inhibition of H1N1-induced cell pyroptosis, which is manifested by reduced bubble-like protrusion cells and lactate dehydrogenase (LDH) release. Moreover, the antipyroptosis effect of baicalin in response to H1N1 infection is found to be mediated by its repression on caspase-3/Gasdermin E (GSDME) pathway. Cleaved caspase-3 and N-terminal fragment of GSDME (GSDME-N) are detected in H1N1-infected cell lines and mice lung tissues, which are markedly reversed by baicalin treatment. Furthermore, inhibition of caspase-3/GSDME pathway by caspase-3 inhibitor or siRNA exerts an antipyroptosis effect equal to that of baicalin treatment in infected A549 and BEAS-2B cells, indicating a pivotal role of caspase-3 in the antiviral activities of baicalin. Conclusively, for the first time, we demonstrate that baicalin could effectively suppress H1N1-induced pyroptosis of lung alveolar epithelial cells via caspase-3/GSDME pathway both in vitro and in vivo.


Asunto(s)
Subtipo H1N1 del Virus de la Influenza A , Gripe Humana , Animales , Ratones , Humanos , Piroptosis , Células Epiteliales Alveolares/metabolismo , Gripe Humana/tratamiento farmacológico , Caspasa 3/genética , Caspasa 3/metabolismo , Pulmón/metabolismo , Antivirales/farmacología
17.
J Immunol ; 206(7): 1419-1423, 2021 04 01.
Artículo en Inglés | MEDLINE | ID: mdl-33685996

RESUMEN

Invasive fungal infections have become a leading cause of death among immunocompromised patients, leading to around 1.5 million deaths per year globally. The molecular mechanisms by which hosts defend themselves against fungal infection remain largely unclear, which impedes the development of antifungal drugs and other treatment options. In this article, we show that the tyrosine kinase receptor EPH receptor B2 (EPHB2), together with dectin-1, recognizes ß-glucan and activates downstream signaling pathways. Mechanistically, we found that EPHB2 is a kinase for Syk and is required for Syk phosphorylation and activation after dectin-1 ligand stimulation, whereas dectin-1 is critical for the recruitment of Syk. Ephb2-deficient mice are susceptible to Candida albicans-induced fungemia model, which also supports the role of EPHB2 in antifungal immunity. Overall, we provide evidence that EPHB2 is a coreceptor for the recognition of dectin-1 ligands and plays an essential role in antifungal immunity by phosphorylating Syk.


Asunto(s)
Candida albicans/fisiología , Candidiasis/inmunología , Receptor EphB2/metabolismo , Animales , Modelos Animales de Enfermedad , Interacciones Huésped-Patógeno , Humanos , Lectinas Tipo C/metabolismo , Ratones , Ratones Endogámicos C57BL , Ratones Noqueados , Fosforilación , Receptor EphB2/genética , Transducción de Señal , Quinasa Syk/metabolismo , Células THP-1
18.
J Immunol ; 206(10): 2353-2365, 2021 05 15.
Artículo en Inglés | MEDLINE | ID: mdl-33941656

RESUMEN

IL-17A plays an essential role in the pathogenesis of many autoimmune diseases, including psoriasis and multiple sclerosis. Act1 is a critical adaptor in the IL-17A signaling pathway. In this study, we report that an anti-sense long noncoding RNA, TRAF3IP2-AS1, regulates Act1 expression and IL-17A signaling by recruiting SRSF10, which downregulates the expression of IRF1, a transcriptional factor of Act1. Interestingly, we found that a psoriasis-susceptible variant of TRAF3IP2-AS1 A4165G (rs13210247) is a gain-of-function mutant. Furthermore, we identified a mouse gene E130307A14-Rik that is homologous to TRAF3IP2-AS1 and has a similar ability to regulate Act1 expression and IL-17A signaling. Importantly, treatment with lentiviruses expressing E130307A14-Rik or SRSF10 yielded therapeutic effects in mouse models of psoriasis and experimental autoimmune encephalomyelitis. These findings suggest that TRAF3IP2-AS1 and/or SRSF10 may represent attractive therapeutic targets in the treatment of IL-17-related autoimmune diseases, such as psoriasis and multiple sclerosis.


Asunto(s)
Proteínas Adaptadoras Transductoras de Señales/metabolismo , Proteínas de Ciclo Celular/metabolismo , Encefalomielitis Autoinmune Experimental/metabolismo , Factor 1 Regulador del Interferón/metabolismo , Interleucina-17/metabolismo , Psoriasis/metabolismo , ARN Largo no Codificante/metabolismo , ARN/metabolismo , Proteínas Represoras/metabolismo , Factores de Empalme Serina-Arginina/metabolismo , Transducción de Señal/genética , Animales , Proteínas de Ciclo Celular/genética , Técnicas de Inactivación de Genes , Células HaCaT , Células HeLa , Humanos , Masculino , Ratones , Ratones Endogámicos BALB C , Ratones Endogámicos C57BL , ARN/genética , ARN Largo no Codificante/genética , Proteínas Represoras/genética , Factores de Empalme Serina-Arginina/genética , Transfección
19.
Phys Chem Chem Phys ; 25(37): 25761-25771, 2023 Sep 27.
Artículo en Inglés | MEDLINE | ID: mdl-37724050

RESUMEN

Electrocatalysis is involved in many energy storage and conversion devices, triggering research and development of electrocatalysts, particularly single-atom catalysts (SACs). The introduction of the strain effect to enhance the performance of SACs has drawn ever-increasing research attention, which can tailor the local atomic and electronic structure of active sites. Herein, via high throughput calculations, we have explored the effects of strain on the catalytic performance of SACs with MN4 configuration for electrochemical reactions of N2 and O2 by incorporating d- and p-block single metal atoms into BN nanocages (BNNCs). The calculations demonstrate that Os@BNNC exhibits the highest catalytic activity for the nitrogen reduction reaction (NRR) with a limiting potential of -0.29 V. Co@BNNC can serve as an excellent bifunctional SAC for the oxygen reduction reaction (ORR) and oxygen evolution reaction (OER), with overpotentials of 0.32 and 0.37 V, respectively. In particular, Sn@BNNC with a p-block metal as the active center is a competitive SAC for the ORR with an overpotential of 0.64 V. More interestingly, the NRR and ORR performances of SACs supported by BNNCs have a close correlation with the structural and electronic properties of adsorbed N2 and O2 molecules, which proves that controlling the adsorption energy of N2 and O2 molecules is crucial to improving the catalytic activity of BNNC. The current investigation opens up an avenue for designing SACs embedded in nanocages possessing intrinsically curved surfaces for electrochemical reactions.

20.
Biotechnol Appl Biochem ; 70(3): 1332-1345, 2023 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-36659840

RESUMEN

Monophosphoryl lipid A (MPL), mainly isolated from Salmonella minnesota R595, has been used as adjuvant in several vaccines. In this study, an Escherichia coli strain that can efficiently produce the MPL has been constructed. The gene clusters related to the biosynthesis of O-antigen, core oligosaccharide, enterobacterial common antigen, and colanic acid were sequentially removed to save the carbon source and to increase the activity of PagP in E. coli MG1655. Then, the genes pldA, mlaA, and mlaC related to the phospholipid transport system were further deleted, resulting in the strain MW012. Finally, the genes lpxE from Francisella novicida and pagP and pagL from Salmonella were overexpressed in MW012 to modify the structure of lipid A, resulting in the strain MW012/pWEPL. Lipid A species were isolated from MW012/pWEPL and analyzed by thin-layer chromatography and liquid chromatography-mass spectrometry. The results showed that mainly two MPL species were produced in E. coli MW012/pWEPL, one is hexa-acylated, and the other is penta-acylated. More importantly, the proportion of the hexa-acylated MPL, which is the most effective component of lipid A vaccine adjuvant, reached 75%. E. coli MW012/pWEPL constructed in this study provided a good alternative for the production of lipid A vaccine adjuvant MPL.


Asunto(s)
Proteínas de Escherichia coli , Lípido A , Lípido A/genética , Escherichia coli/genética , Escherichia coli/metabolismo , Adyuvantes de Vacunas , Ingeniería Metabólica , Aciltransferasas/metabolismo , Proteínas de Escherichia coli/genética
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