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1.
Int J Mol Sci ; 25(3)2024 Jan 31.
Artículo en Inglés | MEDLINE | ID: mdl-38339001

RESUMEN

UV-B radiation induces sunburn, and neutrophils are pivotal in this inflammation. In this study, we examined the potential involvement of neutrophil extracellular traps (NETs) in ultraviolet B (UVB)-induced skin inflammation, correlating the skin inflammation-mitigating effects of Hochu-ekki-to on UV-B irradiation and NETs. To elucidate NET distribution in the dorsal skin, male ICR mice, exposed to UVB irradiation, were immunohistologically analyzed to detect citrullinated histone H3 (citH3) and peptidylarginine deiminase 4 (PAD4). Reactive oxygen species (ROS) production in the bloodstream was analyzed. To establish the involvement of NET-released DNA in this inflammatory response, mice were UV-B irradiated following the intraperitoneal administration of DNase I. In vitro experiments were performed to scrutinize the impact of Hochu-ekki-to on A23187-induced NETs in neutrophil-like HL-60 cells. UV-B irradiation induced dorsal skin inflammation, coinciding with a significant increase in citH3 and PAD4 expression. Administration of DNase I attenuated UV-B-induced skin inflammation, whereas Hochu-ekki-to administration considerably suppressed the inflammation, correlating with diminished levels of citH3 and PAD4 in the dorsal skin. UV-B irradiation conspicuously augmented ROS and hydrogen peroxide (H2O2) production in the blood. Hochu-ekki-to significantly inhibited ROS and H2O2 generation. In vitro experiments demonstrated that Hochu-ekki-to notably inhibited A23187-induced NETs in differentiated neutrophil-like cells. Hence, NETs have been implicated in UV-B-induced skin inflammation, and their inhibition reduces cutaneous inflammation. Additionally, Hochu-ekki-to mitigated skin inflammation by impeding neutrophil infiltration and NETs in the dorsal skin of mice.


Asunto(s)
Desoxirribonucleasa I , Medicamentos Herbarios Chinos , Trampas Extracelulares , Rayos Ultravioleta , Animales , Masculino , Ratones , Calcimicina/farmacología , Desoxirribonucleasa I/farmacología , Desoxirribonucleasa I/metabolismo , Trampas Extracelulares/efectos de los fármacos , Trampas Extracelulares/efectos de la radiación , Histonas/metabolismo , Peróxido de Hidrógeno/metabolismo , Inflamación/metabolismo , Ratones Endogámicos ICR , Neutrófilos/metabolismo , Desiminasas de la Arginina Proteica/metabolismo , Especies Reactivas de Oxígeno/metabolismo , Rayos Ultravioleta/efectos adversos
2.
Sci Transl Med ; 15(699): eadf3843, 2023 06 07.
Artículo en Inglés | MEDLINE | ID: mdl-37285400

RESUMEN

The association between neutrophil extracellular traps (NETs) and response to inhaled corticosteroids (ICS) in asthma is unclear. To better understand this relationship, we analyzed the blood transcriptomes from children with controlled and uncontrolled asthma in the Taiwanese Consortium of Childhood Asthma Study using weighted gene coexpression network analysis and pathway enrichment methods. We identified 298 uncontrolled asthma-specific differentially expressed genes and one gene module associated with neutrophil-mediated immunity, highlighting a potential role for neutrophils in uncontrolled asthma. We also found that NET abundance was associated with nonresponse to ICS in patients. In a neutrophilic airway inflammation murine model, steroid treatment could not suppress neutrophilic inflammation and airway hyperreactivity. However, NET disruption with deoxyribonuclease I (DNase I) efficiently inhibited airway hyperreactivity and inflammation. Using neutrophil-specific transcriptomic profiles, we found that CCL4L2 was associated with ICS nonresponse in asthma, which was validated in human and murine lung tissue. CCL4L2 expression was also negatively correlated with pulmonary function change after ICS treatment. In summary, steroids fail to suppress neutrophilic airway inflammation, highlighting the potential need to use alternative therapies such as leukotriene receptor antagonists or DNase I that target the neutrophil-associated phenotype. Furthermore, these results highlight CCL4L2 as a potential therapeutic target for individuals with asthma refractory to ICS.


Asunto(s)
Asma , Trampas Extracelulares , Animales , Niño , Humanos , Ratones , Corticoesteroides/farmacología , Corticoesteroides/uso terapéutico , Desoxirribonucleasa I/metabolismo , Desoxirribonucleasa I/uso terapéutico , Trampas Extracelulares/metabolismo , Inflamación/metabolismo , Neutrófilos/metabolismo , Quimiocina CCL4/metabolismo
3.
Mol Cell Biochem ; 478(4): 887-898, 2023 Apr.
Artículo en Inglés | MEDLINE | ID: mdl-36112238

RESUMEN

Colon cancer is a common malignant tumor of the digestive tract. Tea catechin exerts anti-tumor effects in colon cancer. This work aimed to determine the functions of epigallocatechin-3-gallate (EGCG), one of the main active components of Tea catechins, in the progression of colon cancer. In this work, enzyme-linked immune-sorbent assay, quantitative real-time PCR and western blotting was utilized to examine the levels of IL-1ß, TNF-α, STAT3, p-STAT3 and CXCL8 in colon cancer patients and healthy controls. Compared with healthy controls, the levels of IL-1ß and TNF-α were significantly increased in the peripheral blood of colon cancer patients, and the expression of STAT3, p-STAT3 and CXCL8 was elevated in the neutrophils derived from colon cancer patients. Moreover, neutrophils were treated with phorbol ester (PMA) or DNase I to induce or impede the formation of neutrophil extracellular traps (NETs). Both STAT3 overexpression and PMA treatment promoted the expression of CXCL8, myeloperoxidase (MPO) and citrullinated histone H3 (H3Cit) in the colon cancer-derived neutrophils, indicating that STAT3 overexpression facilitated the formation of NETs. STAT3 deficiency suppressed the formation of NETs, which consistent with the results of DNase I treatment. Transwell assay was utilized to detect the migration and invasion of colon cancer cell line SW480. EGCG treatment suppressed the formation of NETs and the expression of STAT3 and CXCL8 in the colon cancer-derived neutrophils, and then inhibited the migration and invasion of SW480 cells. In conclusion, this work demonstrated that EGCG inhibited the formation of NETs and subsequent suppressed the migration and invasion of colon cancer cells by regulating STAT3/CXCL8 signalling pathway. Thus, this study suggests that EGCG may become a potential drug for colon cancer therapy.


Asunto(s)
Catequina , Neoplasias del Colon , Trampas Extracelulares , Humanos , Catequina/farmacología , Trampas Extracelulares/metabolismo , Factor de Necrosis Tumoral alfa/metabolismo , Neoplasias del Colon/tratamiento farmacológico , Neoplasias del Colon/patología , Neutrófilos/metabolismo , , Desoxirribonucleasa I/metabolismo , Desoxirribonucleasa I/farmacología , Factor de Transcripción STAT3/metabolismo
4.
Nat Biotechnol ; 39(1): 35-40, 2021 01.
Artículo en Inglés | MEDLINE | ID: mdl-32690970

RESUMEN

Current base editors (BEs) catalyze only base transitions (C to T and A to G) and cannot produce base transversions. Here we present BEs that cause C-to-A transversions in Escherichia coli and C-to-G transversions in mammalian cells. These glycosylase base editors (GBEs) consist of a Cas9 nickase, a cytidine deaminase and a uracil-DNA glycosylase (Ung). Ung excises the U base created by the deaminase, forming an apurinic/apyrimidinic (AP) site that initiates the DNA repair process. In E. coli, we used activation-induced cytidine deaminase (AID) to construct AID-nCas9-Ung and found that it converts C to A with an average editing specificity of 93.8% ± 4.8% and editing efficiency of 87.2% ± 6.9%. For use in mammalian cells, we replaced AID with rat APOBEC1 (APOBEC-nCas9-Ung). We tested APOBEC-nCas9-Ung at 30 endogenous sites, and we observed C-to-G conversions with a high editing specificity at the sixth position of the protospacer between 29.7% and 92.2% and an editing efficiency between 5.3% and 53.0%. APOBEC-nCas9-Ung supplements the current adenine and cytidine BEs (ABE and CBE, respectively) and could be used to target G/C disease-causing mutations.


Asunto(s)
Sistemas CRISPR-Cas/genética , Citosina/metabolismo , ADN Glicosilasas , Edición Génica/métodos , Desaminasas APOBEC-1/genética , Desaminasas APOBEC-1/metabolismo , Adenina/metabolismo , Animales , Emparejamiento Base/genética , Proteína 9 Asociada a CRISPR/genética , Proteína 9 Asociada a CRISPR/metabolismo , Citidina Desaminasa , Reparación del ADN/genética , Desoxirribonucleasa I/genética , Desoxirribonucleasa I/metabolismo , Escherichia coli/genética , Guanina/metabolismo , Ratas , Uracil-ADN Glicosidasa
5.
Physiol Genomics ; 52(5): 217-221, 2020 05 01.
Artículo en Inglés | MEDLINE | ID: mdl-32275178
6.
Cold Spring Harb Protoc ; 2019(10)2019 10 01.
Artículo en Inglés | MEDLINE | ID: mdl-31575796

RESUMEN

RNA samples prepared using monophasic lysis reagents may contain small amounts of contaminating genomic DNA, which must be removed if the RNA will be used in subsequent analyses such as reverse transcriptase-polymerase chain reaction (RT-PCR) or quantitative real-time RT-PCR. In addition, the presence of contaminating DNA can render the quantitative determination of RNA in a sample inaccurate. The most common and effective method for removing trace to moderate amounts of DNA contamination from RNA samples is digestion with DNase I, as described here.


Asunto(s)
Contaminación de ADN , ADN/genética , Desoxirribonucleasas/metabolismo , ARN/genética , Reacción en Cadena de la Polimerasa de Transcriptasa Inversa/métodos , Ribonucleasas/metabolismo , ADN/aislamiento & purificación , ADN/metabolismo , Desoxirribonucleasa I/antagonistas & inhibidores , Desoxirribonucleasa I/metabolismo , Ácido Edético/química , Ácido Edético/metabolismo , Ácido Edético/farmacología , Activación Enzimática/efectos de los fármacos , Hidrólisis , ARN/metabolismo , ARN Mensajero/genética , ARN Mensajero/metabolismo , Reproducibilidad de los Resultados
7.
Genome Biol ; 20(1): 123, 2019 06 17.
Artículo en Inglés | MEDLINE | ID: mdl-31208436

RESUMEN

BACKGROUND: Cold stress can greatly affect plant growth and development. Plants have developed special systems to respond to and tolerate cold stress. While plant scientists have discovered numerous genes involved in responses to cold stress, few studies have been dedicated to investigation of genome-wide chromatin dynamics induced by cold or other abiotic stresses. RESULTS: Genomic regions containing active cis-regulatory DNA elements can be identified as DNase I hypersensitive sites (DHSs). We develop high-resolution DHS maps in potato (Solanum tuberosum) using chromatin isolated from tubers stored under room (22 °C) and cold (4 °C) conditions. We find that cold stress induces a large number of DHSs enriched in genic regions which are frequently associated with differential gene expression in response to temperature variation. Surprisingly, active genes show enhanced chromatin accessibility upon cold stress. A large number of active genes in cold-stored tubers are associated with the bivalent H3K4me3-H3K27me3 mark in gene body regions. Interestingly, upregulated genes associated with the bivalent mark are involved in stress response, whereas downregulated genes with the bivalent mark are involved in developmental processes. In addition, we observe that the bivalent mark-associated genes are more accessible than others upon cold stress. CONCLUSIONS: Collectively, our results suggest that cold stress induces enhanced chromatin accessibility and bivalent histone modifications of active genes. We hypothesize that in cold-stored tubers, the bivalent H3K4me3-H3K27me3 mark represents a distinct chromatin environment with greater accessibility, which may facilitate the access of regulatory proteins required for gene upregulation or downregulation in response to cold stress.


Asunto(s)
Ensamble y Desensamble de Cromatina , Respuesta al Choque por Frío , Regulación de la Expresión Génica de las Plantas , Código de Histonas , Solanum tuberosum/metabolismo , Desoxirribonucleasa I/metabolismo , Histonas/metabolismo
8.
Chem Biodivers ; 16(5): e1900069, 2019 May.
Artículo en Inglés | MEDLINE | ID: mdl-30883015

RESUMEN

DNase I inhibitory potential of water extract of nine Hypericum species (H. umbellatum, H. barbatum, H. rumeliacum, H. rochelii, H. perforatum, H. tetrapterum, H. olympicum, H. hirsutum, H. linarioides) and the most important Hypericum secondary metabolites (hypericin, hyperforin, quercetin, and rutin) was investigated. All examined Hypericum extracts inhibited DNase I with IC50 below 800 µg/ml, whereby H. perforatum was the most potent (IC50 =391.26±68.40 µg/ml). Among the investigated Hypericum secondary metabolites, rutin inhibited bovine pancreatic DNase I in a non-competitive manner with IC50 value of 108.90±9.73 µm. DNase I inhibitory ability of rutin was further confirmed on DNase I in rat liver homogenate (IC50 =137.17±16.65 µm). Due to the involvement of DNase I in apoptotic processes the results of this study indicate the importance of frequent rutin and H. perforatum consumption in daily human nutrition. Rutin is a dietary component that can contribute to male infertility prevention by showing dual mechanism of sperm DNA protection, DNase I inhibition and antioxidant activity.


Asunto(s)
Desoxirribonucleasa I/antagonistas & inhibidores , Hypericum/química , Rutina/química , Animales , Sitios de Unión , Dominio Catalítico , Cromatografía Líquida de Alta Presión , ADN/química , ADN/metabolismo , Desoxirribonucleasa I/metabolismo , Flavonoides/análisis , Flavonoides/química , Hypericum/metabolismo , Concentración 50 Inhibidora , Hígado/enzimología , Simulación del Acoplamiento Molecular , Extractos Vegetales/química , Ratas , Rutina/metabolismo , Espectrometría de Masa por Ionización de Electrospray
9.
J Surg Res ; 235: 513-520, 2019 03.
Artículo en Inglés | MEDLINE | ID: mdl-30691836

RESUMEN

BACKGROUND: Necrotizing enterocolitis (NEC) is one of the most devastating diseases in neonates and is characterized by high morbidity and mortality. It has been suggested that neutrophils play a crucial role in NEC pathogenesis and contribute to the hyperinflammatory reaction after bacterial colonization, which ultimately induces NEC. The aim of this study was to investigate whether dissolution of neutrophil extracellular traps (NETs) by systemic DNase1 therapy reduces NEC manifestation and morbidity. METHODS: NEC was induced in neonatal mice by gavage feeding of lipopolysaccharide mixed in Neocate, followed by hypoxia q12 h for 5d. Inactivated DNase1 and DNase1 were administered intraperitoneally twice daily in the control and treatment groups, respectively, starting on day 5 for 72 h. Survival, NEC score, intestinal damage (Chiu score, malondialdehyde [MDA], glutathione peroxidase [GPx]), inflammation (neutrophil elastase [NE], myeloperoxidase [MPO], toll-like receptor 4 [TLR4]), and NETs markers (SYTOX orange, cell-free DNA [cfDNA], DNase, citrullinated Histone 3 [H3cit]) were then assessed. RESULTS: In total, 44 neonatal mice were used in the experiment. Mice in the treatment group demonstrated significantly reduced NEC rates (44 versus 86%, P = 0.029) and improved survival in comparison to controls (65 versus 35%, P = 0.01). Furthermore, mice treated with DNase1 showed significantly less tissue damage (cfDNA, Chiu score), oxidative stress (MDA, GPx), and inflammation (NE, MPO, H3cit, TLR4), which ultimately lead to a significant reduction in mortality. CONCLUSIONS: The results of the study indicate that systemic DNase1 treatment leads to a significant reduction in tissue damage, NEC severity, and mortality. Therefore, after validation of our findings in human subjects, DNase1 treatment should be considered as a therapeutic option in neonates diagnosed with NEC.


Asunto(s)
Desoxirribonucleasa I/uso terapéutico , Enterocolitis Necrotizante/terapia , Trampas Extracelulares/metabolismo , Animales , Animales Recién Nacidos , Desoxirribonucleasa I/metabolismo , Evaluación Preclínica de Medicamentos , Enterocolitis Necrotizante/patología , Femenino , Intestinos/patología , Ratones Endogámicos C57BL , Embarazo
10.
Cell Rep ; 21(13): 3728-3739, 2017 12 26.
Artículo en Inglés | MEDLINE | ID: mdl-29281823

RESUMEN

CRISPR-Cas systems provide bacteria and archaea with sequence-specific protection against invading mobile genetic elements. In the presence of divalent metal ions, Cas9 and Cas12a (formerly Cpf1) proteins target and cleave DNA that is complementary to a cognate guide RNA. The recognition of a protospacer adjacent motif (PAM) sequence in the target DNA by Cas9 and Cas12a is essential for cleavage. This RNA-guided DNA targeting is widely used for gene-editing methods. Here, we show that Francisella tularensis novicida (Fno) Cas12a, FnoCas9, and Streptococcus pyogenes Cas9 (SpyCas9) cleave DNA without a guide RNA in the presence of Mn2+ ions. Substrate requirements for the RNA-independent activity vary. FnoCas9 preferentially nicks double-stranded plasmid, SpyCas9 degrades single-stranded plasmid, and FnoCas12a cleaves both substrates. These observations suggest that the identities and levels of intracellular metals, along with the Cas9/Cas12a ortholog employed, could have significant impacts in genome editing applications.


Asunto(s)
Proteína 9 Asociada a CRISPR/metabolismo , Proteínas Asociadas a CRISPR/metabolismo , División del ADN , ARN/metabolismo , Secuencia de Bases , Dominio Catalítico , ADN/química , ADN/metabolismo , Desoxirribonucleasa I/metabolismo , Cinética , Manganeso/metabolismo , Conformación de Ácido Nucleico , Proteolisis , Especificidad por Sustrato , Factores de Tiempo , Tripsina/metabolismo
11.
Int J Mol Sci ; 15(10): 18023-39, 2014 Oct 09.
Artículo en Inglés | MEDLINE | ID: mdl-25302614

RESUMEN

This study was aimed at assessing the DNA damage protective activity of different types of extracts (aqueous, methanolic and acetonic) using an in vitro DNA nicking assay. Several parameters were optimized using the pUC18 plasmid, especially FeSO4, EDTA, solvent concentrations and incubation time. Special attention has been paid to removing the protective and damaging effect of the solvent and FeSO4 respectively, as well as to identifying the relevant positive and negative controls. For each solvent, the optimal conditions were determined: (i) for aqueous extracts, 0.33 mM of FeSO4 and 0.62 mM of EDTA were incubated for 20 min at 37 °C; (ii) for acetone extracts, 1.16% solvent were incubated for 15 min at 37 °C with 1.3 mM of FeSO4 and 2.5 mM of EDTA and (iii) for methanol extracts, 0.16% solvent, were incubated for 1.5 h at 37 °C with 0.33 mM of FeSO4 and 0.62 mM of EDTA. Using the optimized conditions, the DNA damage protective activity of aqueous, methanolic and acetonic extracts of an Amazonian palm berry (Oenocarpus bataua) and green tea (Camellia sinensis) was assessed. Aqueous and acetonic Oenocarpus bataua extracts were protective against DNA damage, whereas aqueous, methanolic and acetonic extracts of Camellia sinensis extracts induced DNA damage.


Asunto(s)
Antioxidantes/química , Arecaceae/química , Camellia sinensis/química , Desoxirribonucleasa I/metabolismo , Extractos Vegetales/química , Antioxidantes/metabolismo , Arecaceae/metabolismo , Camellia sinensis/metabolismo , Cromanos/química , Cromanos/metabolismo , Roturas del ADN de Cadena Simple , Pruebas de Enzimas , Ácido Gálico/química , Ácido Gálico/metabolismo , Radical Hidroxilo/química , Extractos Vegetales/metabolismo , Hojas de la Planta/química , Hojas de la Planta/metabolismo , Plásmidos/genética , Plásmidos/metabolismo , Quercetina/química , Quercetina/metabolismo
12.
Microbiologyopen ; 3(4): 557-67, 2014 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-25044339

RESUMEN

Nontypeable Hemophilus influenzae (NTHi) is a Gram-negative bacterial pathogen that causes chronic biofilm infections of the ears and airways. The biofilm matrix provides structural integrity to the biofilm and protects biofilm cells from antibiotic exposure by reducing penetration of antimicrobial compounds into the biofilm. Extracellular DNA (eDNA) has been found to be a major matrix component of biofilms formed by many species of Gram-positive and Gram-negative bacteria, including NTHi. Interestingly, the cation chelator ethylenediaminetetra-acetic acid (EDTA) has been shown to reduce the matrix strength of biofilms of several bacterial species as well as to have bactericidal activity against various pathogens. EDTA exerts its antimicrobial activity by chelating divalent cations necessary for growth and membrane stability and by destabilizing the matrix thus enhancing the detachment of bacterial cells from the biofilm. In this study, we have explored the role of divalent cations in NTHi biofilm development and stability. We have utilized in vitro static and continuous flow models of biofilm development by NTHi to demonstrate that magnesium cations enhance biofilm formation by NTHi. We found that the divalent cation chelator EDTA is effective at both preventing NTHi biofilm formation and at treating established NTHi biofilms. Furthermore, we found that the matrix destablilizers EDTA and DNaseI increase the susceptibility of NTHi biofilms to ampicillin and ciprofloxacin. Our observations indicate that DNaseI and EDTA enhance the efficacy of antibiotic treatment of NTHi biofilms. These observations may lead to new strategies that will improve the treatment options available to patients with chronic NTHi infections.


Asunto(s)
Ampicilina/farmacología , Antibacterianos/farmacología , Biopelículas/efectos de los fármacos , Ciprofloxacina/farmacología , Desoxirribonucleasa I/metabolismo , Ácido Edético/metabolismo , Haemophilus influenzae/fisiología , Infecciones por Haemophilus/microbiología , Haemophilus influenzae/efectos de los fármacos , Haemophilus influenzae/aislamiento & purificación , Humanos , Pruebas de Sensibilidad Microbiana
13.
PLoS One ; 8(2): e52390, 2013.
Artículo en Inglés | MEDLINE | ID: mdl-23390487

RESUMEN

The Angelman/Prader-Willi syndrome (AS/PWS) domain contains at least 8 imprinted genes regulated by a bipartite imprinting center (IC) associated with the SNRPN gene. One component of the IC, the PWS-IC, governs the paternal epigenotype and expression of paternal genes. The mechanisms by which imprinting and expression of paternal genes within the AS/PWS domain - such as MKRN3 and NDN - are regulated by the PWS-IC are unclear. The syntenic region in the mouse is organized and imprinted similarly to the human domain with the murine PWS-IC defined by a 6 kb interval within the Snrpn locus that includes the promoter. To identify regulatory elements that may mediate PWS-IC function, we mapped the location and allele-specificity of DNase I hypersensitive (DH) sites within the PWS-IC in brain cells, then identified transcription factor binding sites within a subset of these DH sites. Six major paternal-specific DH sites were detected in the Snrpn gene, five of which map within the 6 kb PWS-IC. We postulate these five DH sites represent functional components of the murine PWS-IC. Analysis of transcription factor binding within multiple DH sites detected nuclear respiratory factors (NRF's) and YY1 specifically on the paternal allele. NRF's and YY1 were also detected in the paternal promoter region of the murine Mrkn3 and Ndn genes. These results suggest that NRF's and YY1 may facilitate PWS-IC function and coordinately regulate expression of paternal genes. The presence of NRF's also suggests a link between transcriptional regulation within the AS/PWS domain and regulation of respiration. 3C analyses indicated Mkrn3 lies in close proximity to the PWS-IC on the paternal chromosome, evidence that the PWS-IC functions by allele-specific interaction with its distal target genes. This could occur by allele-specific co-localization of the PWS-IC and its target genes to transcription factories containing NRF's and YY1.


Asunto(s)
Síndrome de Angelman/genética , Regulación de la Expresión Génica , Factores Nucleares de Respiración/genética , Síndrome de Prader-Willi/genética , Elementos Reguladores de la Transcripción , Factor de Transcripción YY1/genética , Proteínas Nucleares snRNP/genética , Alelos , Síndrome de Angelman/metabolismo , Síndrome de Angelman/patología , Animales , Secuencia de Bases , Sitios de Unión , Desoxirribonucleasa I/metabolismo , Sitios Genéticos , Impresión Genómica , Humanos , Ratones , Ratones Transgénicos , Datos de Secuencia Molecular , Factores Nucleares de Respiración/metabolismo , Síndrome de Prader-Willi/metabolismo , Síndrome de Prader-Willi/patología , Unión Proteica , Sintenía , Transcripción Genética , Factor de Transcripción YY1/metabolismo , Proteínas Nucleares snRNP/metabolismo
14.
Mol Microbiol ; 87(1): 30-48, 2013 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-23106203

RESUMEN

The two-component system AfsQ1/Q2 of Streptomyces coelicolor was identified in our previous work as a pleiotropic regulator for antibiotic biosynthesis and morphological differentiation under the condition of a minimal medium supplemented with 75 mM glutamate. In this work, we report the dissection of the mechanism underlying the function of AfsQ1/Q2 on antibiotic production and also the identification of the AfsQ1/Q2 regulon. The results showed that AfsQ1/Q2 stimulated antibiotic ACT, RED and CDA production directly through the pathway-specific activator genes actII-ORF4, redZ and cdaR respectively. In addition, expression of sigQ that encodes a sigma factor and is divergently transcribed from afsQ1 was also subject to direct regulation by AfsQ1/Q2. The precise AfsQ1 binding sites in the upstream regions of these target genes were determined by DNase I footprinting assays coupled with site-directed DNA mutagenesis. By computational prediction and functional analysis, at least 17 new AfsQ1 targets were identified, including pstS gene encoding a high-affinity phosphate-binding protein and two developmental genes whiD, bldM. For the AfsQ1/Q2 regulon, an AfsQ1 binding motif comprising the sequence GTnAC-n(6) -GTnAC has been defined. Interestingly, we found from electrophoretic mobility shift assays and transcriptional analysis that AfsQ1/Q2 can also function as a repressor for nitrogen assimilation, and AfsQ1 can compete with GlnR for the promoter regions of glnA and nirB, suggesting the cross-regulation between AfsQ1/Q2 and GlnR in nitrogen metabolism. These findings suggested that AfsQ1/Q2 is important not only for antibiotic biosynthesis but also in maintaining the metabolic homeostasis of nutrient utilization under the stress of high concentration of glutamate in S. coelicolor.


Asunto(s)
Proteínas Bacterianas/metabolismo , Regulón/genética , Streptomyces coelicolor/genética , Streptomyces coelicolor/metabolismo , Transactivadores/metabolismo , Antibacterianos/biosíntesis , Proteínas Bacterianas/genética , Huella de ADN , ADN Bacteriano/genética , Proteínas de Unión al ADN/genética , Proteínas de Unión al ADN/metabolismo , Desoxirribonucleasa I/metabolismo , Ensayo de Cambio de Movilidad Electroforética , Regulación Bacteriana de la Expresión Génica , Ácido Glutámico/metabolismo , Mutagénesis Sitio-Dirigida , Mutación , Nitrógeno/metabolismo , Regiones Promotoras Genéticas , Transactivadores/genética , Factores de Transcripción/genética , Factores de Transcripción/metabolismo , Activación Transcripcional
15.
Biochemistry ; 51(51): 10250-8, 2012 Dec 21.
Artículo en Inglés | MEDLINE | ID: mdl-23215638

RESUMEN

Recombinant human DNase I (Pulmozyme, dornase alfa) is used for the treatment of cystic fibrosis where it improves lung function and reduces the number of exacerbations. The physiological mechanism of action is thought to involve the reduction of the viscoelasticity of cystic fibrosis sputum by hydrolyzing high concentrations of DNA into low-molecular mass fragments. Here we describe the 1.95 Å resolution crystal structure of recombinant human DNase I (rhDNase I) in complex with magnesium and phosphate ions, both bound in the active site. Complementary mutagenesis data of rhDNase I coupled to a comprehensive structural analysis of the DNase I-like superfamily argue for the key catalytic role of Asn7, which is invariant among mammalian DNase I enzymes and members of this superfamily, through stabilization of the magnesium ion coordination sphere. Overall, our combined structural and mutagenesis data suggest the occurrence of a magnesium-assisted pentavalent phosphate transition state in human DNase I during catalysis, where Asp168 may play a key role as a general catalytic base.


Asunto(s)
ADN/metabolismo , Desoxirribonucleasa I/metabolismo , Magnesio/metabolismo , Fosfatos/metabolismo , Asparagina/metabolismo , Catálisis , Dominio Catalítico , Cristalografía por Rayos X , Desoxirribonucleasa I/genética , Humanos , Modelos Moleculares , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Viscosidad
16.
Invest Ophthalmol Vis Sci ; 53(13): 8253-63, 2012 Dec 17.
Artículo en Inglés | MEDLINE | ID: mdl-23169882

RESUMEN

PURPOSE: We determined whether nucleases are deficient in the tear fluid of dry eye disease (DED) patients, and whether this causes extracellular DNA (eDNA) and neutrophil extracellular trap (NET) accumulation in the precorneal tear film, thus causing ocular surface inflammation. METHODS: Exfoliated cells adhered to Schirmer test strips were collected on glass slides, and immunofluorescence confocal microscopy was used to evaluate neutrophils, eDNA, NETs, and their molecular components. Similar experiments were performed with mucoid films collected from the inferior conjunctival fornix or bulbar conjunctiva. We used quantitative PCR to evaluate eDNA signaling pathways and inflammatory cytokine expression. We also determined the amount of ocular surface eDNA and evaluated tear fluid nuclease activity. RESULTS: eDNA, NETs, and neutrophils were present on the ocular surface in DED patients and abundant in mucoid films. NETs consisted of eDNA, histones, cathelicidin, and neutrophil elastase. Tear fluid nuclease activity was decreased significantly in DED patients, whereas the amount of eDNA on the ocular surface was increased significantly. Expression of genes downstream of eDNA signaling, such as TLR9, MyD88, and type I interferon, as well as the inflammatory cytokines interleukin-6 and tumor necrosis factor-α, was significantly increased in DED patients. CONCLUSIONS: Extracellular DNA production and clearance mechanisms are dysregulated in DED. Nuclease deficiency in tear fluid allows eDNA and NETs to accumulate in precorneal tear film, and results in ocular surface inflammation. These findings point to novel therapeutic interventions in severe DED based on clearance of eDNA, NETs, and other molecular components from the ocular surface.


Asunto(s)
Péptidos Catiónicos Antimicrobianos/metabolismo , ADN/metabolismo , Desoxirribonucleasa I/metabolismo , Síndromes de Ojo Seco/metabolismo , Elastasa de Leucocito/metabolismo , Lipocalina 1/metabolismo , Lágrimas/enzimología , Conjuntiva/metabolismo , Ensayo de Inmunoadsorción Enzimática , Transferencia Resonante de Energía de Fluorescencia , Técnica del Anticuerpo Fluorescente Indirecta , Expresión Génica , Histonas/metabolismo , Humanos , Microscopía Confocal , Neutrófilos/fisiología , Reacción en Cadena de la Polimerasa , Saliva/metabolismo , Transducción de Señal/fisiología , Catelicidinas
17.
Genes Immun ; 12(2): 126-35, 2011 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-21248773

RESUMEN

Transcriptional regulation has a critical role in the coordinate and context-specific expression of a cluster of genes encoding members of the tumour necrosis factor (TNF) superfamily found at chromosome 6p21, comprising TNF, LTA (encoding lymphotoxin-α) and LTB (encoding lymphotoxin-ß). This is important, as dysregulated expression of these genes is implicated in susceptibility to many autoimmune, inflammatory and infectious diseases. We describe here a novel regulatory element in the fourth exon of LTB, which is highly conserved, localises to the only CpG island in the locus, and is associated with a DNase I hypersensitive site and specific histone modifications. We find evidence of binding by Yin Yang 1 (YY1), cyclic AMP response element (CRE)-binding protein (CREB) and CCCTC-binding factor (CTCF) to this region in Jurkat T cells, which is associated with transcriptional repression on reporter gene analysis. Chromatin conformation capture experiments show evidence of DNA looping, involving interaction of this element with the LTB promoter, LTA promoter and TNF 3' untranslated region (UTR). Small interfering RNA (siRNA) experiments demonstrate a functional role for YY1 and CREB in LTB expression. Our findings provide evidence of additional complexity in the transcriptional regulation of LTB with implications for coordinate expression of genes in this important genomic locus.


Asunto(s)
ADN/química , Exones , Linfotoxina beta/genética , Elementos Reguladores de la Transcripción , Factor de Unión a CCCTC , Secuencia Conservada , Proteína de Unión a Elemento de Respuesta al AMP Cíclico/genética , Proteína de Unión a Elemento de Respuesta al AMP Cíclico/metabolismo , Desoxirribonucleasa I/genética , Desoxirribonucleasa I/metabolismo , Regulación de la Expresión Génica , Genes Reguladores , Humanos , Células Jurkat , Regiones Promotoras Genéticas , Proteínas Represoras/genética , Proteínas Represoras/metabolismo , Transcripción Genética , Células Tumorales Cultivadas , Factor de Transcripción YY1/genética , Factor de Transcripción YY1/metabolismo
18.
Mol Cell Biol ; 31(4): 700-9, 2011 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-21173166

RESUMEN

The interaction of architectural proteins such as the linker histone H1 and high-mobility-group (HMG) proteins with nucleosomes leads to changes in chromatin structure and histone modifications and alters the cellular transcription profile. The interaction of HMG proteins with chromatin is dynamic. However, it is not clear whether the proteins are constantly and randomly redistributed among all the nucleosomes or whether they preferentially associate with, and turn over at, specific regions in chromatin. To address this question, we examined the genome-wide distribution of the nucleosome binding protein HMGN1 and compared it to that of regulatory chromatin marks. We find that HMGN1 is not randomly distributed throughout the genome. Instead, the protein preferentially localizes to DNase I hypersensitive (HS) sites, promoters, functional enhancers, and transcription factor binding sites. Our results suggest that HMGN1 is part of the cellular machinery that modulates transcriptional fidelity by generating, maintaining, or preferentially interacting with specific sites in chromatin.


Asunto(s)
Cromatina/genética , Cromatina/metabolismo , Proteína HMGN1/genética , Proteína HMGN1/metabolismo , Secuencias Reguladoras de Ácidos Nucleicos , Secuencia de Bases , Sitios de Unión/genética , Inmunoprecipitación de Cromatina , Cartilla de ADN/genética , Desoxirribonucleasa I/metabolismo , Exones , Perfilación de la Expresión Génica , Histonas/metabolismo , Humanos , Técnicas In Vitro , Intrones , Nucleosomas , Regiones Promotoras Genéticas , Unión Proteica , Factor de Transcripción YY1/metabolismo
19.
Reproduction ; 140(3): 445-52, 2010 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-20584992

RESUMEN

Sperm DNA damage may have adverse effects on reproductive outcome. Sperm DNA breaks can be detected by several tests, which evaluate DNA integrity from different and complementary perspectives and offer a new class of biomarkers of the male reproductive function and of its possible impairment after environmental exposure. The remodeling of sperm chromatin produces an extremely condensed nuclear structure protecting the nuclear genome from adverse environments. This nuclear remodeling is species specific, and differences in chromatin structure may lead to a dissimilar DNA susceptibility to mutagens among species. In this study, the capacity of the comet assay in its two variants (alkaline and neutral) to detect DNA/chromatin integrity has been evaluated in human, mouse, and bull sperm. The hypothesis that chromatin packaging might influence the amount of induced and detectable DNA damage was tested by treating sperm in vitro with DNAse I, whose activity is strictly dependent upon its DNA accessibility. Furthermore, hydrogen peroxide (H2O2) was used to assess whether spermatozoa of the three species showed a different sensitivity to oxidative stress. DNAse I-induced damage was also assessed by the sperm chromatin structure assay and the TUNEL assay, and the performances of these two assays were compared and correlated with the comet assay results. Results showed a different sensitivity to DNAse I treatment among the species with human sperm resulting the most susceptible. On the contrary, no major differences among species were observed after H2O2 treatment. Furthermore, the three tests show a good correlation in revealing sperm with DNA strand breaks.


Asunto(s)
Fragmentación del ADN , Desoxirribonucleasa I/metabolismo , Peróxido de Hidrógeno/farmacología , Oxidantes/farmacología , Estrés Oxidativo/efectos de los fármacos , Espermatozoides/efectos de los fármacos , Animales , Bovinos , Ensamble y Desensamble de Cromatina/efectos de los fármacos , Ensayo Cometa , Relación Dosis-Respuesta a Droga , Humanos , Etiquetado Corte-Fin in Situ , Masculino , Ratones , Ratones Endogámicos C57BL , Espermatozoides/enzimología , Espermatozoides/patología
20.
Toxicol In Vitro ; 24(2): 586-96, 2010 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-19853652

RESUMEN

In recent times, Cr(III)(picolinate)(3) [Cr(III)(pic)(3)] a nutritional supplement, is gaining attention because of its clastogenic and mutagenic properties. Earlier studies of ours indicated that Cr(III)(pic)(3) is cytotoxic to lymphocytes with ROS and mitochondrial events playing a role in bringing about apoptosis. Now, we report that, autoschizis is induced in lymphocytes in a concentration and time dependent manner which is confirmed through TEM and SEM. Lymphocytes treated with concentrations of 100microM of Cr(III)(pic)(3) exhibit features such as cytoplasmic bleb, self excision of cytoplasm, cytoplasmic leakage and membrane bound bodies formed from the excised pieces apart from apoptosis and necrosis. Though autoschizis has been described in tumor cell lines treated with menadione and ascorbate, occurrence of this cell death in normal T-lymphocytes is reported here. The cellular events that accompany autoschizis are found to be increase in intracellular Reactive Oxygen Species (ROS) and cytoplasmic lactate dehydrogenase, loss of mitochondrial membrane potential (MMP) and depletion of ATP. Further, autoschizis is effected through increases in DNase I and DNase II activity with a concomitant decrease in caspase-3 activity which leads to a random cleavage of the DNA as demonstrated by a smear like pattern after electrophoresis on agarose gel.


Asunto(s)
Muerte Celular/efectos de los fármacos , Quelantes del Hierro/toxicidad , Leucocitos Mononucleares/efectos de los fármacos , Ácidos Picolínicos/toxicidad , Caspasa 3/genética , Caspasa 3/metabolismo , Supervivencia Celular/efectos de los fármacos , ADN/química , Desoxirribonucleasa I/metabolismo , Suplementos Dietéticos/efectos adversos , Relación Dosis-Respuesta a Droga , Endodesoxirribonucleasas/metabolismo , Regulación Enzimológica de la Expresión Génica , Humanos
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