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Pesquisa : G05.360.340.397 [Categoria DeCS]
Referências encontradas : 36 [refinar]
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Silva, Rosane
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Id: biblio-829250
Autor: Penha, Luciana Loureiro; Hoffmann, Luísa; Souza, Silvanna Sant’Anna de; Martins, Allan Cézar de Azevedo; Bottaro, Thayane; Prosdocimi, Francisco; Faffe, Débora Souza; Motta, Maria Cristina Machado; Ürményi, Turán Péter; Silva, Rosane.
Título: Symbiont modulates expression of specific gene categories in Angomonas deanei
Fonte: Mem. Inst. Oswaldo Cruz;111(11):686-691, Nov. 2016. graf.
Idioma: en.
Resumo: Trypanosomatids are parasites that cause disease in humans, animals, and plants. Most are non-pathogenic and some harbor a symbiotic bacterium. Endosymbiosis is part of the evolutionary process of vital cell functions such as respiration and photosynthesis. Angomonas deanei is an example of a symbiont-containing trypanosomatid. In this paper, we sought to investigate how symbionts influence host cells by characterising and comparing the transcriptomes of the symbiont-containing A. deanei (wild type) and the symbiont-free aposymbiotic strains. The comparison revealed that the presence of the symbiont modulates several differentially expressed genes. Empirical analysis of differential gene expression showed that 216 of the 7625 modulated genes were significantly changed. Finally, gene set enrichment analysis revealed that the largest categories of genes that downregulated in the absence of the symbiont were those involved in oxidation-reduction process, ATP hydrolysis coupled proton transport and glycolysis. In contrast, among the upregulated gene categories were those involved in proteolysis, microtubule-based movement, and cellular metabolic process. Our results provide valuable information for dissecting the mechanism of endosymbiosis in A. deanei.
Descritores: Regulação da Expressão Gênica/fisiologia
Ontologia Genética
RNA de Protozoário/genética
Simbiose/genética
Transcriptoma/genética
Trypanosomatina/genética
-Bactérias/crescimento & desenvolvimento
Perfilação da Expressão Gênica
Genes de Protozoários
Genoma de Protozoário
Genômica
RNA de Protozoário/isolamento & purificação
Trypanosomatina/metabolismo
Limites: Humanos
Animais
Responsável: BR1.1 - BIREME


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Id: lil-774264
Autor: Kotowski Filho, Nelson Peixoto.
Título: Genômica comparativa em ambiente computacional distribuído: aplicabilidade e potencial no estudo de homologia entre protozoários / Comparative genomics in a distributed computing scenario: applicability and potential on protozoa homology study.
Fonte: Rio de Janeiro; s.n; 2015. xvii,198 p. ilus, tab, graf.
Idioma: en; pt.
Tese: Apresentada a Instituto Oswaldo Cruz para obtenção do grau de Doutor.
Resumo: A inferência de homologia entre organismos é uma atividade da genômicacomparativa que possibilita compreender melhor a relação entre os mesmos e, porconseguinte, sua distância evolutiva. Especificamente, a identificação de genesortólogos, ou seja, aqueles que têm sua origem em um ancestral comum, permiteoferecer melhorias na anotação funcional de genes, uma vez que genes ortólogostendem a ter sua função conservada.Com a crescente disponibilidade de genomas através de técnicas de NGS, aconstrução e atualização de bases de dados de ortólogos representam um desafioconstante, pois demandam o estudo e identificação das relações entre os genes detais organismos, em um volume de dados cada vez mais extenso e a um custocomputacional cada vez mais elevado.Nesta tese propomos a solução para nuvem computacional elastic-OrthoSearch, umworkflow científico de genômica comparativa inspirado no OrthoSearch, responsávelpela inferência de homologia entre organismos com o uso de abordagem baseadaem melhores hits recíprocos e perfis de Markov.Também propomos uma metodologia para criação de bases de ortólogos construídaatravés do reuso do OrthoSearch. Esta metodologia mostrou-se capaz de alavancara oferta de grupos ortólogos e assim auxiliar, por exemplo, na identificação de alvosde protozoários...

Homology inference among organisms is a comparative genomics tasks which allowsfor a better understanding on how such organisms are related to each other and ontheir evolutionary distance. Specifically, the identification of orthologous genes –those who share a common ancestor – allows for functional gene annotationimprovements, as orthologous genes tend to preserve their functions.The increasing amount of genomic data provided by the NGS techniques makes theorthologous databases' building and update processes a challenging task. It requiresthe identification and study of the organisms' genes relationships, in an extensivedata volume and at an increasing computational cost.In this thesis we propose elastic-OrthoSearch, a cloud-enabled comparativegenomics scientific workflow, derived from OrthoSearch. It aims at providinghomology inference among organisms, in a reciprocal best hits and Markov profilesapproach.We also propose an improved orthologous database creation methodology built ontop of OrthoSearch. Such methodology has shown means to offer a broaderorthologous groups dataset, which could in turn aid on Protozoa target identification...
Descritores: Homologia de Genes
Genoma de Protozoário
Genômica
Doenças Negligenciadas
Fluxo de Trabalho
-Biologia Computacional
Limites: Animais
Tipo de Publ: Estudo Comparativo
Responsável: BR15.1 - Biblioteca de Ciências Biomédicas


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Id: lil-763088
Autor: Shen, Hai-Mo; Chen, Shen-Bo; Wang, Yue; Chen, Jun-Hu.
Título: Whole-genome sequencing of a Plasmodium vivax isolate from the China-Myanmar border area
Fonte: Mem. Inst. Oswaldo Cruz;110(6):814-816, Sept. 2015. tab, graf.
Idioma: en.
Projeto: International S&T Cooperation Program; . National Science and Technology Major Program; . Health Research in the Public Interest.
Resumo: Currently, there is a trend of an increasing number of Plasmodium vivaxmalaria cases in China that are imported across its Southeast Asia border, especially in the China-Myanmar border area (CMB). To date, little is known about the genetic diversity of P. vivaxin this region. In this paper, we report the first genome sequencing of a P. vivaxisolate (CMB-1) from a vivax malaria patient in CMB. The sequencing data were aligned onto 96.43% of the P. vivaxSalvador I reference strain (Sal I) genome with 7.84-fold coverage as well as onto 98.32% of 14 Sal I chromosomes. Using the de novoassembly approach, we generated 8,541 scaffolds and assembled a total of 27.1 Mb of sequence into CMB-1 scaffolds. Furthermore, we identified all 295 known virgenes, which is the largest subtelomeric multigene family in malaria parasites. These results provide an important foundation for further research onP. vivaxpopulation genetics.
Descritores: DNA de Protozoário/análise
Genoma de Protozoário
Plasmodium vivax/genética
Análise de Sequência de DNA
-China/epidemiologia
Malária/epidemiologia
Mianmar/epidemiologia
Plasmodium vivax/isolamento & purificação
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: BR1.1 - BIREME


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Id: lil-589032
Autor: Araújo, Patricia R; Teixeira, Santuza M.
Título: Regulatory elements involved in the post-transcriptional control of stage-specific gene expression in Trypanosoma cruzi: a review
Fonte: Mem. Inst. Oswaldo Cruz;106(3):257-266, May 2011. ilus.
Idioma: en.
Resumo: Trypanosoma cruzi, a protozoan parasite that causes Chagas disease, exhibits unique mechanisms for gene expression such as constitutive polycistronic transcription of protein-coding genes, RNA editing and trans-splicing. In the absence of mechanism controlling transcription initiation, organized subsets of T. cruzi genes must be post-transcriptionally co-regulated in response to extracellular signals. The mechanisms that regulate stage-specific gene expression in this parasite have become much clearer through sequencing its whole genome as well as performing various proteomic and microarray analyses, which have demonstrated that at least half of the T. cruzi genes are differentially regulated during its life cycle. In this review, we attempt to highlight the recent advances in characterising cis and trans-acting elements in the T. cruzi genome that are involved in its post-transcriptional regulatory machinery.
Descritores: Regulação da Expressão Gênica no Desenvolvimento
Processamento Pós-Transcricional do RNA
RNA Mensageiro
Transcrição Genética
Trypanosoma cruzi
-Genoma de Protozoário
Análise de Sequência com Séries de Oligonucleotídeos
RNA de Protozoário
Trans-Splicing
Trypanosoma cruzi/crescimento & desenvolvimento
Tipo de Publ: Research Support, Non-U.S. Gov't
Revisão
Responsável: BR1.1 - BIREME


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Id: lil-571254
Autor: Almeida, Luiza Freire de Andrade e.
Título: Caracterização de proteínas MAPKs e MKPs no genoma de Schistosoma mansoni: uma abordagem in silico e experimental / Characterization of proteins and MAPKs MKPS in genome of Schistosoma mansoni: An experimental approach in silico.
Fonte: Belo Horizonte; s.n; 2008. 124 p. ilus, tab.
Idioma: pt.
Tese: Apresentada a Santa Casa de Belo Horizonte para obtenção do grau de Mestre.
Resumo: Pouco se sabe a respeito dos mecanismos de transdução de sinal no parasito Schistosoma mansoni. A identificação e caracterização dos mecanismos e das moléculas envolvidas em vias de transdução de sinal são essenciais para se entender a biologia do parasito e interações hospedeiro-parasito. As proteínas MAPK (Mitogen-activated protein kinases) desempenham um importante papel na transdução de sinais extracelulares, controlando vários mecanismos celulares essências. As MKPs são o principal grupo de proteína fosfatases que controlam a magnitude e a duração da ativação das proteínas MAPK. Até o presente momento, nenhuma proteína da fàmília das MAPKs ou proteínas MKPs havia sido detalhadamente caracterizada no parasito S. mansoni. Foi realizada uma análise in silico abragente da versão 3.1 do genoma de S. mansoni utilizando diferentes abordagens de bioinformática, incluindo buscas por similaridade de seqüências realizadas com o algoritmo blast ou com modelos ocultos de Markov (HMM) especificamente elaborados e construídos para identificação de MAPKs e MKPs. Complementarmente foi realizada a anotação manual dos genes que apresentaram hits positivos para proteínas MAPK e MKP utilizando o programa Artemis para integrar as anotações. Com base nesses resultados quatro proteínas foram selecionadas para posterior validação experimental: uma proteína ERK (SmMAPKl), uma proteína JNK (SmMAPK2) e duas proteínas fosfatase de dupla especificidade (SmMKPl e SmMKP2). Análises in silico revelaram ainda que os aminoácidos importantes para a funcionalidade das proteínas estão conservados. Nas MAPKs os resíduos dos domínios CD e ED, essenciais para o reconhecimento dos ativadores, substratos e desativadores, estão conservados. Nas fosfatases, o sítio de ligação as MAPKs está presente e apresenta os aminoácidos essenciais para a interação entre as proteínas. O cDNA de SmMAPK 1, SmMAPK2, SmMKPl e SmMKP2 está presente em todas as fases de desenvolvimento do parasito...

At present, little is known about signal transduction mechanisms in Schistosomes. The identification and characterization of signal transduction mechanisms and molecules are essential to elucidate Schistosoma mansoni host-parasite interactions and parasite biology.Mitogen-activated protein kinases (MAPKs) are important signal transducing enzymes that are involved in many aspects of cellular regulation. Specifically MAP kinase phosphatases (MKPs) that catalyze dephosphorylation of activated MAPK. Therefore, MKPs play an important role in determining the magnitude and duration of MAPK activities. In silicoanalysis using blast or HMMs builted from known MAPK and MKP characterized in related species resulted in the identification of 7 MAPK's and 6 MKP's with strong similarity with Schistosoma mansoni predicted proteome (ab initio gene prediction using Augustus). A highly curated manual annotation of S. mansoni genome supercontigs presenting positive hits for MAPK and MKP was produced using Artemis and in house developed Perl scripts. Based on the quality and confidence of the in silico predictions and annotation we select four targets: one ERK (SmMAPK1), one JNK (SmMAPK2), and 2 MKP (SmMKP1 and SmMKP2).Preliminary results of experimental validation will be presented. In addition, our in silico analysis reveled that all amino acids of the CD and ED domains that are essential for activators, regulators and substrate recognition are conserved in MAPKs and that the Kinaseinteractingmotif are conserved for the 2 MKP identified.
Descritores: Genoma de Protozoário
Quinases de Proteína Quinase Ativadas por Mitógeno
Proteínas
Schistosoma mansoni
Esquistossomose
Limites: Animais
Responsável: BR344.1 - Biblioteca de Ciências Biomédicas Eurydice Pires de SantAnna
BR344.1 Biblioteca de Ciências Biomédicas Eurydice Sant'Anna


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Id: lil-538169
Autor: Alves-Ferreira, Marcelo; Guimarães, Ana Carolina Ramos; Capriles, Priscila Vanessa da Silva Zabala; Dardenne, Laurent E; Degrave, Wim M.
Título: A new approach for potential drug target discovery through in silico metabolic pathway analysis using Trypanosoma cruzi genome information
Fonte: Mem. Inst. Oswaldo Cruz;104(8):1100-1110, Dec. 2009. ilus, tab.
Idioma: en.
Resumo: The current drug options for the treatment of chronic Chagas disease have not been sufficient and high hopes have been placed on the use of genomic data from the human parasite Trypanosoma cruzi to identify new drug targets and develop appropriate treatments for both acute and chronic Chagas disease. However, the lack of a complete assembly of the genomic sequence and the presence of many predicted proteins with unknown or unsure functions has hampered our complete view of the parasite's metabolic pathways. Moreover, pinpointing new drug targets has proven to be more complex than anticipated and has revealed large holes in our understanding of metabolic pathways and their integrated regulation, not only for this parasite, but for many other similar pathogens. Using an in silicocomparative study on pathway annotation and searching for analogous and specific enzymes, we have been able to predict a considerable number of additional enzymatic functions in T. cruzi. Here we focus on the energetic pathways, such as glycolysis, the pentose phosphate shunt, the Krebs cycle and lipid metabolism. We point out many enzymes that are analogous to those of the human host, which could be potential new therapeutic targets.
Descritores: Descoberta de Drogas
Genoma de Protozoário/genética
Redes e Vias Metabólicas/genética
Tripanossomicidas
Trypanosoma cruzi/metabolismo
-Genoma de Protozoário/efeitos dos fármacos
Trypanosoma cruzi/química
Trypanosoma cruzi/genética
Limites: Humanos
Responsável: BR1.1 - BIREME


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Id: lil-520871
Autor: Pena, Sérgio D. J; Machado, Carlos Renato; Macedo, Andréa Mara.
Título: Trypanosoma cruzi: ancestral genomes and population structure
Fonte: Mem. Inst. Oswaldo Cruz;104(supl.1):108-114, July 2009. ilus, tab, graf.
Idioma: en.
Resumo: Although the genome of Trypanosoma cruzi has been completely sequenced, little is known about its population structure and evolution. Since 1999, two major evolutionary lineages presenting distinct epidemiological characteristics have been recognised: T. cruzi I and T. cruzi II. We describe new and important aspects of the population structure of the parasite, and unequivocally characterise a third ancestral lineage that we propose to name T. cruzi III. Through a careful analysis of haplotypes (blocks of genes that are stably transmitted from generation to generation of the parasite), we inferred at least two hybridisation events between the parental lineages T. cruzi II and T. cruzi III. The strain CL Brener, whose genome was sequenced, is one such hybrid. Based on these results, we propose a simple evolutionary model based on three ancestral genomes, T. cruzi I, T. cruzi II and T. cruzi III. At least two hybridisation events produced evolutionarily viable progeny, and T. cruzi III was the cytoplasmic donor for the resulting offspring (as identified by the mitochondrial clade of the hybrid strains) in both events. This model should be useful to inform evolutionary and pathogenetic hypotheses regarding T. cruzi.
Descritores: Evolução Molecular
Genoma de Protozoário/genética
Hibridização Genética
Haplótipos/genética
Trypanosoma cruzi/genética
-DNA Mitocondrial/genética
DNA de Protozoário/genética
Genética Populacional
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: BR1.1 - BIREME


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Id: lil-520065
Autor: Gouveia, J. J. S; Vasconcelos, E. J. R; Pacheco, A. C. L; Araújo-Filho, R; Maia, A. R. S; Kamimura, M. T; Costa, M. P; Viana, D. A; Costa, R. B; Maggioni, R; Oliveira, D. M.
Título: Intraflagellar transport complex in Leishmania spp. In silico genome-wide screening and annotation of gene function
Fonte: Genet. mol. res. (Online);6(4):766-798, 2007. ilus, tab.
Idioma: en.
Conferência: Apresentado em: X-Meeting 2006 - International Conference of the AB3C, 2, Apresentado em: Annual International Conference on Intelligent Systems for Molecular Biology, 14, Fortaleza, Aug. 6-10, 2006.
Resumo: Flagella are constructed and maintained through the highly conserved process of intraflagellar transport (IFT), which is a rapid movement of particles along the axonemal microtubules of cilia/flagella. Particles that are transported by IFT are composed of several protein subunits comprising two complexes (A and B), which are conserved among green algae, nematodes, and vertebrates. To determine whether or not homologues to members of the IFT complex proteins are conserved in Leishmania spp, we scanned genomes, transcriptomes and proteomes of Leishmania species in a search for putative IFT factors, which were then identified in silico, compared, cataloged, and characterized. Since a large proportion of newly identified genes in L. major remain unclassified, with many of these being potentially Leishmania- (or kinetoplastid-) specific, there is a need for detailed analyses of homologs/orthologs that could help us understand the functional assignment of these gene products. We used a combination of integrated bioinformatics tools in a pathogenomics approach to contribute to the annotation of Leishmania genomes, particularly regarding flagellar genes and their roles in pathogenesis. This resulted in the formal in silico identification of eight of these homologs in Leishmania (IFT subunits, 20, 27, 46, 52, 57, 88, 140, and 172), along with others (IFTs 71, 74/72, and 81), as well as sequence comparisons and structural predictions. IFT, an important flagellar pathway in Leishmania, begins to be revealed through screening of trypanosomatid genomes; this information could also be used to better understand fundamental processes in Leishmania, such as motility and pathogenesis.
Descritores: Biologia Computacional/métodos
Flagelos/genética
Genes de Protozoários
Genoma de Protozoário
Leishmania/genética
-Sequência de Aminoácidos
Transporte Biológico
Sequência Conservada
Cílios/genética
Dados de Sequência Molecular
Estrutura Terciária de Proteína
Análise de Sequência de DNA
Homologia de Sequência de Aminoácidos
Subunidades Proteicas/genética
Subunidades Proteicas/química
Limites: Animais
Responsável: BR26.1 - Biblioteca Central


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Id: lil-495745
Autor: Brandão, Adeilton.
Título: Trypanosomatid EST: a neglected information resource regarding flagellated protozoa?
Fonte: Mem. Inst. Oswaldo Cruz;103(6):622-626, Sept. 2008. tab.
Idioma: en.
Descritores: Bases de Dados Genéticas
DNA de Protozoário/genética
Etiquetas de Sequências Expressas
Genoma de Protozoário/genética
Trypanosoma cruzi/genética
-Biblioteca Gênica
Trypanosoma/genética
Limites: Animais
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: BR1.1 - BIREME


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Id: lil-491547
Autor: Kosec, G; Alvarez, V; Cazzulo, J. J.
Título: Cysteine proteinases of Trypanosoma cruzi: from digestive enzymes to programmed cell death mediators
Fonte: Biocell;30(3):479-490, dec. 2006. ilus, tab.
Idioma: en.
Resumo: Trypanosoma cruzi, the parasite causing Chagas disease, contains a number of proteolytic enzymes. The recent completion of the genome sequence of the T. cruzi CL Brener clone suggests the presence of 70 cysteine peptidases, 40 serine peptidases (none of them from the chymotrypsin family), about 250 metallopeptidases (most leishmanolysin homologues), 25 threonine peptidases, and only two aspartyl peptidases, none of them from the pepsin family. The cysteine peptidases belong to 7 families of Clan CA, 3 families of Clan CD, and one each of Clans CE and CF In Clan CA, the C1 family is represented by cruzipains 1 and 2, biochemically well characterized, as well as cathepsin B and two other cathepsins. There are a number of homologues to calpains (family C2), probably non-functional, lacking the Ca-binding domain. Family C54 includes the Atg4 proteinases (autophagins), which seem to be involved in the autophagic process. Clan CD includes family C14, the metacaspases. We have expressed the metacaspases TcMCA3 and TcMCA5, and obtained indirect evidence of their participation in programmed cell death induced by fresh human serum in the parasite. More experiments are required to better define their role in apoptosis.
Descritores: Sequência de Aminoácidos
Cisteína Endopeptidases/genética
Cisteína Endopeptidases/metabolismo
Cisteína Endopeptidases/química
Trypanosoma cruzi/crescimento & desenvolvimento
Trypanosoma cruzi/enzimologia
Trypanosoma cruzi/genética
-Apoptose
Sistema Livre de Células
Genoma de Protozoário
Estágios do Ciclo de Vida
Dados de Sequência Molecular
Proteínas de Protozoários/genética
Proteínas de Protozoários/metabolismo
Proteínas de Protozoários/química
Alinhamento de Sequência
Transfecção
Limites: Humanos
Animais
Tipo de Publ: Research Support, Non-U.S. Gov't
Responsável: AR40.1 - Biblioteca de la Facultad de Ciencias Médicas de la UNCuyo



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