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Pesquisa : G03.493 [Categoria DeCS]
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Id: biblio-828196
Autor: Medeiros, Julliane Dutra; Cantão, Maurício Egídio; Cesar, Dionéia Evangelista; Nicolás, Marisa Fabiana; Diniz, Cláudio Galuppo; Silva, Vânia Lúcia; Vasconcelos, Ana Tereza Ribeiro de; Coelho, Cíntia Marques.
Título: Comparative metagenome of a stream impacted by the urbanization phenomenon
Fonte: Braz. j. microbiol;47(4):835-845, Oct.-Dec. 2016. graf.
Idioma: en.
Resumo: Abstract Rivers and streams are important reservoirs of freshwater for human consumption. These ecosystems are threatened by increasing urbanization, because raw sewage discharged into them alters their nutrient content and may affect the composition of their microbial community. In the present study, we investigate the taxonomic and functional profile of the microbial community in an urban lotic environment. Samples of running water were collected at two points in the São Pedro stream: an upstream preserved and non-urbanized area, and a polluted urbanized area with discharged sewage. The metagenomic DNA was sequenced by pyrosequencing. Differences were observed in the community composition at the two sites. The non-urbanized area was overrepresented by genera of ubiquitous microbes that act in the maintenance of environments. In contrast, the urbanized metagenome was rich in genera pathogenic to humans. The functional profile indicated that the microbes act on the metabolism of methane, nitrogen and sulfur, especially in the urbanized area. It was also found that virulence/defense (antibiotic resistance and metal resistance) and stress response-related genes were disseminated in the urbanized environment. The structure of the microbial community was altered by uncontrolled anthropic interference, highlighting the selective pressure imposed by high loads of urban sewage discharged into freshwater environments.
Descritores: Urbanização
Microbiologia da Água
Rios/microbiologia
Metagenoma
Microbiota
-Filogenia
RNA Ribossômico 16S/genética
Ecossistema
Metabolismo Energético
Redes e Vias Metabólicas
Metagenômica
Código de Barras de DNA Taxonômico
Limites: Seres Humanos
Responsável: BR1.1 - BIREME


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Id: lil-788960
Autor: Lazim, Zainab Mat; Hadibarata, Tony.
Título: Ligninolytic fungus Polyporus sp. S133 mediated metabolic degradation of fluorene
Fonte: Braz. j. microbiol;47(3):610-616, July-Sept. 2016. tab, graf.
Idioma: en.
Projeto: Fundamental Research Grant Scheme; . Universiti Teknologi Malaysia.
Resumo: ABSTRACT This study aimed to investigate the impact of nonionic surfactants on the efficacy of fluorine degradation by Polyporus sp. S133 in a liquid culture. Fluorene was observed to be degraded in its entirety by Polyporus sp. S133 subsequent to a 23-day incubation period. The fastest cell growth rate was observed in the initial 7 days in the culture that was supplemented with Tween 80. The degradation process was primarily modulated by the activity of two ligninolytic enzymes, laccase and MnP. The highest laccase activity was stimulated by the addition of Tween 80 (2443 U/L) followed by mixed surfactant (1766 U/L) and Brij 35 (1655 U/L). UV-vis spectroscopy, TLC analysis and mass spectrum analysis of samples subsequent to the degradation process in the culture medium confirmed the biotransformation of fluorene. Two metabolites, 9-fluorenol (λmax 270, tR 8.0 min and m/z 254) and protocatechuic acid (λmax 260, tR 11.3 min and m/z 370), were identified in the treated medium.
Descritores: Polyporus/metabolismo
Fluorenos/metabolismo
-Solubilidade
Biodegradação Ambiental
Biotransformação
Biomassa
Poluentes Ambientais/metabolismo
Redes e Vias Metabólicas
Polyporus/enzimologia
Metaboloma
Metabolômica/métodos
Fluorenos/química
Responsável: BR1.1 - BIREME


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Id: biblio-889240
Autor: Ser, Hooi-Leng; Tan, Wen-Si; Mutalib, Nurul-Syakima Ab; Yin, Wai-Fong; Chan, Kok-Gan; Goh, Bey-Hing; Lee, Learn-Han.
Título: Genome sequence of Streptomyces gilvigriseus MUSC 26T isolated from mangrove forest
Fonte: Braz. j. microbiol;49(2):207-209, Apr.-June 2018. tab.
Idioma: en.
Projeto: PVC Award Grant; . Biotek Abadi; . MOSTI eScience funds; . UM-MOHE HIR Nature Microbiome.
Resumo: Abstract Streptomycetes remain as one of the important sources for bioactive products. Isolated from the mangrove forest, Streptomyces gilvigriseus MUSC 26T was previously characterised as a novel streptomycete. The high quality draft genome of MUSC 26T contained 5,213,277 bp with G + C content of 73.0%. Through genome mining, several gene clusters associated with secondary metabolites production were revealed in the genome of MUSC 26T. These findings call for further investigations into the potential exploitation of the strain for production of pharmaceutically important compounds.
Descritores: Streptomyces/genética
Genoma Bacteriano
Microbiologia Ambiental
-Streptomyces/isolamento & purificação
Composição de Bases
Produtos Biológicos/metabolismo
Análise de Sequência de DNA
Biologia Computacional
Zonas Úmidas
Redes e Vias Metabólicas/genética
Metabolismo Secundário
Responsável: BR1.1 - BIREME


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Id: biblio-889231
Autor: Silva, Paula Renata Alves da; Simões-Araújo, Jean Luiz; Vidal, Márcia Soares; Cruz, Leonardo Magalhães; Souza, Emanuel Maltempi de; Baldani, José Ivo.
Título: Draft genome sequence of Paraburkholderia tropica Ppe8 strain, a sugarcane endophytic diazotrophic bacterium
Fonte: Braz. j. microbiol;49(2):210-211, Apr.-June 2018.
Idioma: en.
Projeto: CNPq/INCT-FBN; . FAPERJ-CNE; . Embrapa; . CAPES/EMBRAPA; . José Ivo Baldani.
Resumo: Abstract Paraburkholderia tropica (syn Burkholderia tropica) are nitrogen-fixing bacteria commonly found in sugarcane. The Paraburkholderia tropica strain Ppe8 is part of the sugarcane inoculant consortium that has a beneficial effect on yield. Here, we report a draft genome sequence of this strain elucidating the mechanisms involved in its interaction mainly with Poaceae. A genome size of approximately 8.75 Mb containing 7844 protein coding genes distributed in 526 subsystems was de novo assembled with ABySS and annotated by RAST. Genes related to the nitrogen fixation process, the secretion systems (I, II, III, IV, and VI), and related to a variety of metabolic traits, such as metabolism of carbohydrates, amino acids, vitamins, and proteins, were detected, suggesting a broad metabolic capacity and possible adaptation to plant association.
Descritores: Genoma Bacteriano
Burkholderiaceae/genética
Endófitos/genética
-Proteínas de Bactérias/genética
Análise de Sequência de DNA
Biologia Computacional
Saccharum/microbiologia
Burkholderiaceae/isolamento & purificação
Redes e Vias Metabólicas/genética
Anotação de Sequência Molecular
Endófitos/isolamento & purificação
Responsável: BR1.1 - BIREME


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Id: lil-756641
Autor: Peixoto, Mauricio Cupello.
Título: Análise e identificação de produtos do catabolismo de heme nas formas epimastigotas de Trypanosoma cruzi / Analysis and identification of heme catabolism products in Trypanosoma cruzi epimastigotes forms.
Fonte: Rio de Janeiro; s.n; 2014. 152 f p.
Idioma: pt.
Tese: Apresentada a Universidade do Estado do Rio de Janeiro para obtenção do grau de Doutor.
Resumo: O Trypanosoma cruzi, agente etiológico da doença de Chagas, possui um ciclo de vida complexo, deve lidar com diversas condições do ambiente e depende dos hospedeiros para suprir suas necessidades nutricionais. Uma delas é a necessidade de captar a molécula de heme (Fe-protoporfirina IX) que será utilizada como fator de crescimento. Os mecanismos envolvendo o metabolismo de heme são cruciais para a sobrevivência do T. cruzi pois o parasito não possui várias enzimas de biossíntese dessa porfirina e o heme livre pode apresentar citotoxicidade para célula. Na tentativa de perseguir o destino final do heme no parasito, nós estudamos essa via inexplorada no T. cruzi. Nessa tese, nós demonstramos que epimastigotas cultivados com heme, produziram os compostos, α-meso hidroxiheme, verdoheme e biliverdina (identificados por HPLC acoplado á espectrofotômetria). Além disso, nós observamos através de análise dos extratos de epimastigotas no espectrômetro de massas (LQT Orbitrap), espécies iônicas de m/z 583,4 e m/z 619,3. A fragmentação subsequente desses íons originaram espécies filhas típicas das moléculas de biliverdina e verdoheme, respectivamente. Nós observamos também, espécies iônicas de m/z 1397,4 e m/z 1135,4. A fragmentação dessas espécies produziram íons, sendo um deles com a mesma massa molecular de heme (m/z 616,3). Essa espécie iônica por sua vez, gerou fragmentos iônicos idênticos a uma molécula de heme, confirmando que esses intermediários são produtos da modificação da porfirina. Baseado nesses resultados, nós propomos um modelo onde o catabolismo de heme em T. cruzi, envolveria a conjugação da bis(glutationil)spermina, um derivado da tripanotiona presente em tripanossomatídeos, à porfirina (m/z 1137,4), seguido da remoção de dois resíduos de ácidos glutâmicos (m/z 1135,4)...

Trypanosoma cruzi, the causal agent of Chagas disease, has a complex life cycle and they must cope with diverse environmental conditions and depends on hosts for its nutritional needs. One of the nutritional characteristic is that they need a heme compound (Fe-protoporphyrin IX) as a growth factor. The mechanisms involved in these processes are crucial for their survival mainly because of trypanosomatids lack of the complete heme biosynthetic pathway and the cytotoxic activity of free heme. Following the fate of this porphyrin in the parasite we studied this missing pathway in T. cruzi. Here, we show that epimastigotes cultivated with heme yielded the compounds, α-meso hydroxyheme, verdoheme and biliverdin (as determined by HPLC with diode array detector). Furthermore, we observed ion species of m/z 583.4 and m/z 619.3 from epimastigotes extracts detected by direct infusion on LQT Orbitrap platform. A tipical biliverdin and verdoheme doughter-ion species were generated by m/z 583.4 and m/z 619.3 fragmentations, respectively. We also observed an ion species at m/z 1397.4 and m/z 1135. The subsequent fragmentation of this species produced a daughter-ions whose one with the same molecular mass as heme (m/z 616.4). This species, in turn, generated daughter species identical to an authentic heme, confirming that these intermediates were modified heme products. Based on these findings, we propose that heme catabolism in T. cruzi involves a additions of Bis(glutathionyl)spermine, a low molecular mass thiols occurring in trypanosomatids, to heme (m/z 1397.4), followed by removal of the glutamic residues (m/z 1135)...
Descritores: Biliverdina
Heme/metabolismo
Trypanosoma cruzi/fisiologia
-Homeostase
Heme/fisiologia
Redes e Vias Metabólicas
Trypanosoma cruzi/crescimento & desenvolvimento
Limites: Seres Humanos
Responsável: BR1365.1 - Biblioteca Biomédica A - CB/A


  6 / 12 LILACS  
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Id: lil-748233
Autor: Mercimek, Hatice Aysun; Dincer, Sadik; Guzeldag, Gulcihan; Ozsavli, Aysenur; Matyar, Fatih; Arkut, Afet; Kayis, Fikret; Ozdenefe, Melis Sumengen.
Título: Degradation of 2,4,6-trinitrotoluene by P. aeruginosa and characterization of some metabolites
Fonte: Braz. j. microbiol;46(1):103-111, 05/2015. graf.
Idioma: en.
Resumo: Degradation of 2,4,6-trinitrotoluene (TNT), a nitroaromatic explosive found in the soil and ground water, was investigated using Pseudomonas aeruginosa in in vitro experiments. Biodegradable abilitiy of this bacteria was performed with 50 and 75 mg L−1 TNT concentrations in a defined liquid medium for 96 h time period. Treatment of TNT in supernatant samples taken at 0, 6, 12, 24, 48, 72 and 96 h from agitated vessels was followed by reverse-phase high-performance liquid chromatography (HPLC). In cultures supplemented with 50 and 75 mgL−1 TNT, after 96 h of incubation 46% and 59% reduction were detected respectively. Two metabolites as degradation intermediates with nitrite release into the medium, 2,4-dinitrotoluene (2,4-DNT) and 4-aminodinitrotoluene (4-ADNT), were elucidated by thin layer chromatography (TLC) and gas chromatography-mass spectrometry (GC-MS). These findings clearly indicate that Pseudomonas aeruginosa can be used in bioremediation of TNT contaminated sites.
Descritores: Redes e Vias Metabólicas
Pseudomonas aeruginosa/metabolismo
Trinitrotolueno/metabolismo
-Compostos de Anilina/análise
Biotransformação
Cromatografia Líquida de Alta Pressão
Cromatografia em Camada Delgada
Meios de Cultura
Dinitrobenzenos/análise
Cromatografia Gasosa-Espectrometria de Massas
Fatores de Tempo
Responsável: BR1.1 - BIREME


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Id: lil-741280
Autor: Yu, Fang-Bo; Li, Xiao-Dan; Ali, Shinawar Waseem; Shan, Sheng-Dao; Luo, Lin-Ping; Guan, Li-Bo.
Título: Further characterization of o-nitrobenzaldehyde degrading bacterium Pseudomonas sp: ONBA-17 and deduction on its metabolic pathway
Fonte: Braz. j. microbiol;45(4):1303-1308, Oct.-Dec. 2014. graf, tab.
Idioma: en.
Projeto: China National Natural Science Foundation. Agricultural and Forestry Carbon Sinks and Ecological Environmental Remediation; . Zhejiang Provincial Natural Science Foundation; . Qingnianbajian Program of Zhejiang Agricultural and Forestry University.
Resumo: A previously reported o-nitrobenzaldehyde (ONBA) degrading bacterium Pseudomonas sp. ONBA-17 was further identified and characterized. Based on results of DNA base composition and DNA-DNA hybridization, the strain was identified as P. putida. Its degradation effect enhanced with increase of inoculum amount and no lag phase was observed. Higher removal rate was achieved under shaking conditions. All tested ONBA with different initial concentrations could be completely degraded within 5 d. In addition, degradative enzyme(s) involved was confirmed as intra-cellular distributed and constitutively expressed. Effects of different compounds on relative activity of degradative enzyme(s) within cell-free extract were also evaluated. Finally, 2-nitrobenzoic acid and 2, 3-dihydroxybenzoic acid were detected as metabolites of ONBA degradation by P. putida ONBA-17, and relevant metabolic pathway was preliminary proposed. This study might help with future research in better understanding of nitroaromatics biodegradation.
Descritores: Benzaldeídos/metabolismo
Redes e Vias Metabólicas
Pseudomonas putida/metabolismo
-Biotransformação
Hidroxibenzoatos/metabolismo
Nitrobenzoatos/metabolismo
Pseudomonas putida/classificação
Pseudomonas putida/genética
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: BR1.1 - BIREME


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Id: lil-688595
Autor: Procópio, Luciano; Silva, Michele de Cassia Pereira e; Elsas, Jan Dirk van; Seldin, Lucy.
Título: Transcriptional profiling of genes involved in n-hexadecane compounds assimilation in the hydrocarbon degrading Dietzia cinnamea P4 strain
Fonte: Braz. j. microbiol;44(2):639-647, 2013. ilus, graf, tab.
Idioma: en.
Resumo: The petroleum-derived degrading Dietzia cinnamea strain P4 recently had its genome sequenced and annotated. This allowed employing the data on genes that are involved in the degradation of n-alkanes. To examine the physiological behavior of strain P4 in the presence of n-alkanes, the strain was grown under varying conditions of pH and temperature. D. cinnamea P4 was able to grow at pH 7.0-9.0 and at temperatures ranging from 35 ºC to 45 ºC. Experiments of gene expression by real-time quantitative RT-PCR throughout the complete growth cycle clearly indicated the induction of the regulatory gene alkU (TetR family) during early growth. During the logarithmic phase, a large increase in transcriptional levels of a lipid transporter gene was noted. Also, the expression of a gene that encodes the protein fused rubredoxin-alkane monooxygenase was enhanced. Both genes are probably under the influence of the AlkU regulator.
Descritores: Actinomycetales/genética
Actinomycetales/metabolismo
Alcanos/metabolismo
Perfilação da Expressão Gênica
Genes Bacterianos
Hidrocarbonetos/metabolismo
Redes e Vias Metabólicas/genética
-Actinomycetales/crescimento & desenvolvimento
Biotransformação
Concentração de Íons de Hidrogênio
Reação em Cadeia da Polimerase em Tempo Real
Temperatura Ambiente
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: BR1.1 - BIREME


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Id: lil-657506
Autor: Digirolamo, Fabio A; Miranda, Mariana R; Bouvier, León A; Cámara, María M; Cánepa, Gaspar E; Pereira, Claudio A.
Título: La vía de transducción de señales TOR de mamíferos está presente en Trypanosoma cruzi: Reconstrucción in silico y posibles funciones / The mammalian TOR pathway is present in Trypanosoma cruzi: In silico reconstruction and possible functions
Fonte: Medicina (B.Aires);72(3):221-226, jun. 2012. ilus, tab.
Idioma: es.
Projeto: Consejo Nacional de Investigaciones Científicas y Técnicas; . Agencia Nacional de Promoción Científica y Tecnológica. PIP 2010-0685.
Resumo: La vía TOR ("Target Of Rapamycin") de mamíferos es una red proteica de regulación para una amplia gama de procesos involucrados en el crecimiento y la diferenciación celular, constituyendo un interruptor funcional entre el metabolismo anabólico y catabólico de la célula. El Trypanosoma cruzi, agente etiológico de la enfermedad de Chagas, tiene un ciclo de vida muy complejo con diferentes estadios morfológicos en varios hospedadores. Este ciclo de vida implica que los parásitos enfrentan grandes fluctuaciones en el medio extracelular que deben ser detectadas y a las cuales deben responder adaptando su metabolismo. Un candidato a ser el mediador entre los receptores/sensores del medio y la respuesta adaptativa celular es la vía TOR. En este trabajo integramos los datos bibliográficos de la vía TOR de organismos tripanosomátidos con un análisis in silico (simulación computacional de procesos o estructuras biológicas) del genoma del parásito. Se proponen además posibles efectores y procesos regulados por esta ruta metabólica. Teniendo en cuenta que existe muy poca información sobre los mecanismos de transducción de señales en tripanosomátidos, consideramos que el mapa presentado en este trabajo puede ser una referencia para futuros trabajos experimentales.

The mammalian TOR pathway ("Target Of Rapamycin") is a regulatory protein network involved in a wide range of processes including cell growth and differentiation, providing a functional switch between anabolic and catabolic cell metabolism. Trypanosoma cruzi, the etiologic agent of Chagas disease, has a complex life cycle with different morphological stages in various hosts. This life cycle implies that parasites have to deal with fluctuations in the extracellular medium that should be detected and counteracted adapting their metabolism. A candidate to be the mediator between the receptors / sensors of the environment and cellular adaptive response is the TOR pathway. In this paper we integrate the bibliographic data of the TOR pathway in trypanosomatids by in silico analysis (computer simulation of biological structures and processes) of the parasite's genome. Possible effectors and processes regulated by this metabolic pathway are also proposed. Given that the information on the mechanisms of signal transduction in trypanosomatids is scarce, we consider the model presented in this work may be a reference for future experimental work.
Descritores: Doença de Chagas/parasitologia
Serina-Treonina Quinases TOR/genética
Trypanosoma cruzi/genética
-Simulação por Computador
Estágios do Ciclo de Vida
Redes e Vias Metabólicas
Mamíferos/genética
Transdução de Sinais
Serina-Treonina Quinases TOR/metabolismo
Limites: Animais
Tipo de Publ: Research Support, Non-U.S. Gov't
Revisão
Responsável: AR1.2 - Instituto de Investigaciónes Epidemiológicas


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Id: lil-564596
Autor: Solís, Christian; Negrón, Luisa.
Título: Estudio bioinformático del metabolismo de Mycobacterium tuberculosis bajo condiciones de hipoxia / Bioinformatic analysis of Mycobacterium tuberculosis metabolism under hypoxic conditions
Fonte: An. Fac. Med. (Perú);69(3):168-171, jul.-sept. 2008. graf.
Idioma: es.
Resumo: Objetivo: Predecir, usando métodos bioinformáticos, las vías metabólicas preferentemente activas en Mycobacterium tuberculosis (MT), bajo condiciones de hipoxia. Diseño: Análisis biológico. Lugar: Instituto de Química Biológica, Microbiología y Biotecnología Marco Antonio Garrido Malo, Facultad de Farmacia y Bioquímica, UNMSM. Material biológico: Genes de Mycobacterium tuberculosis. Métodos: Inicialmente se seleccionó 355 genes de MT H37Rv, cuya expresión ha sido demostrada que es inducida bajo condiciones de hipoxia, y 359 cuya expresión es reprimida. Usando la información de secuencia de los genes con expresión inducida y reprimida, se analizó de modo comparativo la posición en el genoma de cada grupo de genes, así como algunas propiedades fisicoquímicas (punto isoeléctrico y momento hidrofóbico) de sus proteínas correspondientes. Posteriormente, a cada gen se le asignó una vía metabólica o regulatoria, usando la información sobre MT de la librería de genes y genomas de Kyoto (KEGG), y el procesamiento de secuencias, empleando el programa PATH-A. Principales medidas de resultados: Vías metabólicas en genes de Mycobacterium tuberculosis, bajo condiciones de hipoxia. Resultados: No se encontró diferencias entre los genes con expresión inducida y reprimida, en su distribución en el genoma de MT, así como en la distribución de los valores para las propiedades fisicoquímicas analizadas en sus productos. De los 355 genes con expresión inducida iniciales, solamente fue posible asignar al menos una vía metabólica a 95, usando KEGG, y 57, usando PATH-A. Conclusiones: El análisis comparativo de las vías metabólicas asignadas a los genes con expresión inducida y reprimida reveló que, bajo condiciones de hipoxia, se encuentran reprimidos muchos genes relacionados a vías metabólicas que implican gasto de ATP, encontrándose inducidos algunos genes cuyas proteínas participan en vías del metabolismo central.

Objective: To predict by using bioinformatic tools Mycobacterium tuberculosis (MT) metabolic pathways under hypoxic conditions. Design: Biology analysis. Setting: Instituto de Química Biológica, Microbiología y Biotecnología Marco Antonio Garrido Malo Biological, Microbiologic and Biotechnologic Chemistry Institute, Faculty of Pharmacy and Biochemistry, UNMSM. Biologic material: Mycobacterium tuberculosis genes. Methods: The study began with the selection of 355 genes of MT H37Rv whose expression has been shown by other studies is induced by hypoxic conditions and 359 genes whose expression was repressed. Up and down expressed genes were comparatively analyzed, localizing genes of each group within the MT genome and predicting some physicochemical properties (isoelectric point and hydrophobic moment) for their protein products. In order to assign a metabolic or regulatory pathway to each gene, Kyoto Encyclopedia of Genes and Genomes (KEGG) and PATH-A sequence analysis tool were used. Main outcome measures: Metabolic pathways in Mycobacterium tuberculosis genes under hypoxia conditions. Results: From the initial 355 up expressed genes, it was possible to assign metabolic pathways to only 95 using KEGG and 57 using PATH-A. Conclusions: There were no differences between up and down expressed genes for their genome distribution and values for studied physicochemical properties of their protein products. The comparative analysis of the assigned metabolic pathways to down and up-expressed genes revealed that under hypoxic conditions several metabolic pathways related to ATP spent were down-expressed, being induced some genes whose proteins participate incentral metabolism pathways such as the pyruvate metabolism, glycolysis and citric acid cycle.
Descritores: Hipóxia
Redes e Vias Metabólicas
Mycobacterium tuberculosis
Limites: Seres Humanos
Responsável: PE1.1 - Oficina Universitária de Biblioteca



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