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Registro Completo |
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Biblioteca(s): |
Embrapa Agricultura Digital. |
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Data corrente: |
06/12/2011 |
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Data da última atualização: |
24/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
SOUZA, R.; LOBO, F. P. |
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Afiliação: |
RAONI SOUZA, Fundação Ezequiel Dias; FRANCISCO PEREIRA LOBO, CNPTIA. |
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Título: |
Use of an enrichment analysis strategy to detect potential new drug targets in fungal genomes. |
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Ano de publicação: |
2011 |
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Fonte/Imprenta: |
In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 7.; INTERNATIONAL CONFERENCE OF THE IBEROAMERICAN SOCIETY FOR BIOINFORMATICS, 3., 2011, Florianópolis. Proceedings... Florianópolis: Associação Brasileira de Bioinformática e Biologia Computacional, 2011. |
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Páginas: |
Não paginado. |
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Idioma: |
Inglês |
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Notas: |
X-MEETING 2011. |
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Conteúdo: |
Fungi are a major class of pathogens in several animal and plant species, having a great agricultural, veterinary and medical importance. The search for anti-fungal drugs is an especially hard task due to the relative phylogenetic relatedness of fungi to their animal and vegetal hosts when compared with other classes of parasites, such as bacteria. This phylogenetic relatedness causes most of the potential druggable genes in fungi to be essential for both fungal and host genomes. This class of essential genes would tend to be observed at high frequencies in both groups. Essential genes specific of fungal species, however, would tend to be significantly more present in fungal genomes when compared with the frequency of the same gene in host genomes. In this study we used a software previously developed by our group named KOMODO (Kegg Orthology enrichMent analysis ? Online DetectiOn) that detects significantly under- or over-represented groups of homologous genes (as defined by KO groups) in one taxon when compared with the other. We used KOMODO to compare the Fungi and Eukarya taxa and identify significantly overrepresented KO groups in fungal genomes when compared with the eukaryotic background distribution of KO groups. Since each analysis using KOMODO tests thousands of hypotheses (one statistical test for each KO group surveyed), False Discovery Ratio approaches are implemented to control Type I error ratios and generate corrected q-values. Our software also displays the groups of biased homologous genes hierarchically classified according to their statistical significance and displayed into their proper biochemical roles as defined by Kegg Pathways into a dynamically generated webpage. The visual observation of the differentially represented genes adds an important source of information to help the biological comprehension of the phenomena behind the biased distributions detected. From the set of 2611 shared KO groups between Fungi and Eukarya taxa we found 88 of them to be significantly overrepresented in fungal genomes (q-value cutoff of <= 10e-5). These genes were then manually surveyed in scientific literature to verify if any of them was previously studied as essential and/or as a potential anti-fungal target. We found that some of these KO groups were already successfully evaluated as essential genes for fungal pathogenesis and/or survival, highlighting the ability of KOMODO to detect interesting gene candidates. More interestingly was the finding that most of the genes detected were never surveyed for their potential role in fungal survival. Additionally, several of these genes belong to essential pathways (such as sugar, amino acid and nucleotide metabolism), and could be considered as potential candidates for future studies to detect new essential genes for fungal survival. This study of case demonstrated the utility of KOMODO to detect both known and potentially new druggable genes by looking for enriched genes in fungal genomes when compared with other eukaryotes. As the number of complete genomes increase, we believe that a similar strategy could be used to survey other classes of eukaryotic parasites (such as protozoa, helminths and arthropods) for potential gene targets as well, making KOMODO a valuable tool to detect (and, consequently, prioritize) new drug targets in the figure of parasite-specific essential genes. MenosFungi are a major class of pathogens in several animal and plant species, having a great agricultural, veterinary and medical importance. The search for anti-fungal drugs is an especially hard task due to the relative phylogenetic relatedness of fungi to their animal and vegetal hosts when compared with other classes of parasites, such as bacteria. This phylogenetic relatedness causes most of the potential druggable genes in fungi to be essential for both fungal and host genomes. This class of essential genes would tend to be observed at high frequencies in both groups. Essential genes specific of fungal species, however, would tend to be significantly more present in fungal genomes when compared with the frequency of the same gene in host genomes. In this study we used a software previously developed by our group named KOMODO (Kegg Orthology enrichMent analysis ? Online DetectiOn) that detects significantly under- or over-represented groups of homologous genes (as defined by KO groups) in one taxon when compared with the other. We used KOMODO to compare the Fungi and Eukarya taxa and identify significantly overrepresented KO groups in fungal genomes when compared with the eukaryotic background distribution of KO groups. Since each analysis using KOMODO tests thousands of hypotheses (one statistical test for each KO group surveyed), False Discovery Ratio approaches are implemented to control Type I error ratios and generate corrected q-values. Our software also displays the ... Mostrar Tudo |
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Palavras-Chave: |
Genoma de fungos; Software; Software KOMODO. |
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Thesaurus Nal: |
Fungi; Genome. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/49491/1/newdrug.pdf
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Marc: |
LEADER 04252nam a2200205 a 4500
001 1908758
005 2020-01-24
008 2011 bl uuuu u00u1 u #d
100 1 $aSOUZA, R.
245 $aUse of an enrichment analysis strategy to detect potential new drug targets in fungal genomes.$h[electronic resource]
260 $aIn: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 7.; INTERNATIONAL CONFERENCE OF THE IBEROAMERICAN SOCIETY FOR BIOINFORMATICS, 3., 2011, Florianópolis. Proceedings... Florianópolis: Associação Brasileira de Bioinformática e Biologia Computacional$c2011
300 $aNão paginado.
500 $aX-MEETING 2011.
520 $aFungi are a major class of pathogens in several animal and plant species, having a great agricultural, veterinary and medical importance. The search for anti-fungal drugs is an especially hard task due to the relative phylogenetic relatedness of fungi to their animal and vegetal hosts when compared with other classes of parasites, such as bacteria. This phylogenetic relatedness causes most of the potential druggable genes in fungi to be essential for both fungal and host genomes. This class of essential genes would tend to be observed at high frequencies in both groups. Essential genes specific of fungal species, however, would tend to be significantly more present in fungal genomes when compared with the frequency of the same gene in host genomes. In this study we used a software previously developed by our group named KOMODO (Kegg Orthology enrichMent analysis ? Online DetectiOn) that detects significantly under- or over-represented groups of homologous genes (as defined by KO groups) in one taxon when compared with the other. We used KOMODO to compare the Fungi and Eukarya taxa and identify significantly overrepresented KO groups in fungal genomes when compared with the eukaryotic background distribution of KO groups. Since each analysis using KOMODO tests thousands of hypotheses (one statistical test for each KO group surveyed), False Discovery Ratio approaches are implemented to control Type I error ratios and generate corrected q-values. Our software also displays the groups of biased homologous genes hierarchically classified according to their statistical significance and displayed into their proper biochemical roles as defined by Kegg Pathways into a dynamically generated webpage. The visual observation of the differentially represented genes adds an important source of information to help the biological comprehension of the phenomena behind the biased distributions detected. From the set of 2611 shared KO groups between Fungi and Eukarya taxa we found 88 of them to be significantly overrepresented in fungal genomes (q-value cutoff of <= 10e-5). These genes were then manually surveyed in scientific literature to verify if any of them was previously studied as essential and/or as a potential anti-fungal target. We found that some of these KO groups were already successfully evaluated as essential genes for fungal pathogenesis and/or survival, highlighting the ability of KOMODO to detect interesting gene candidates. More interestingly was the finding that most of the genes detected were never surveyed for their potential role in fungal survival. Additionally, several of these genes belong to essential pathways (such as sugar, amino acid and nucleotide metabolism), and could be considered as potential candidates for future studies to detect new essential genes for fungal survival. This study of case demonstrated the utility of KOMODO to detect both known and potentially new druggable genes by looking for enriched genes in fungal genomes when compared with other eukaryotes. As the number of complete genomes increase, we believe that a similar strategy could be used to survey other classes of eukaryotic parasites (such as protozoa, helminths and arthropods) for potential gene targets as well, making KOMODO a valuable tool to detect (and, consequently, prioritize) new drug targets in the figure of parasite-specific essential genes.
650 $aFungi
650 $aGenome
653 $aGenoma de fungos
653 $aSoftware
653 $aSoftware KOMODO
700 1 $aLOBO, F. P.
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Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
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| Registros recuperados : 115 | |
| 21. |  | MOREIRA, A. P.; LIMA, J. J. F.; OLIVEIRA, F. C.; CHAGAS, E. C.; CAMPOS, C. M. Histomorfometria intestinal de Pacus alimentados com dieta contendo óleo essencial de Ocimum gratissimum. In: REUNIÃO ANUAL DA SOCIEDADE BRASILEIRA DE ZOOTECNIA, 55.; CONGRESSO BRASILEIRO DE ZOOTECNIA, 28., 2018, Goiânia. Construindo saberes, formando pessoas e transformando a produção animal: anais eletrônicos. Goiânia: Sociedade Brasileira de Zootecnia, 2018.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Amazônia Ocidental. |
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| 24. | | BUSO, R. R.; CAMPOS, C. C.; SANTOS, T. R.; SAUT, J. P. E.; SANTOS, R. M. Retenção de placenta e endometrite subclínica: prevalência e relação com o desempenho reprodutivo de vacas leiteiras mestiças. Pesquisa Veterinária Brasileira, Rio de Janeiro, v. 38, n. 1, p. 1-5, janeiro 2018. Título em inglês: Retained placenta and subclinical endometritis: prevalence and relation with reproductive performance of crossbred dairy cows.| Biblioteca(s): Embrapa Unidades Centrais. |
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| 26. | | DAVILA, A. M. R.; SOUZA, S. S.; CAMPOS, C.; SILVA, R. A. M. S. The seroprevalence of equine Trypanosomosis in the Pantanal. Memorias do Instituto Oswaldo Cruz, Rio de Janeiro, v.94, n.2, p.199-202, mar./apr., 1999.| Biblioteca(s): Embrapa Pantanal. |
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| 31. | | LANGE, A.; WRUCK, F. J.; BEHLING, M.; CAMPOS, C. I.; CAVALLI, E.; ABREU, D. The third year of an integrated crop-livestock-forest system at the Amazon Biome: soybean. In: WORLD CONGRESS ON INTEGRATED CROP-LIVESTOCK-FOREST SYSTEMS; INTERNATIONAL SYMPOSIUM ON INTEGRATED CROP-LIVESTOCK SYSTEMS, 3., 2015, Brasília, DF. Towards sustainable intensification: proceedings. Brasília, DF: Embrapa, 2015. p. 172.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agrossilvipastoril. |
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| 32. | | LANGE, A.; WRUCK, F. J.; BEHLING, M.; CAMPOS, C. I.; CAVALLI, E.; ABREU, D. The third year of an integrated crop-livestock-forest system at the AmazonBiome: soybean In: WORLD CONGRESS ON INTEGRATED CROP-LIVESTOCK-FOREST SYSTEMS; INTERNATIONAL SYMPOSIUM ON INTEGRATED CROP-LIVESTOCK SYSTEMS, 3., 2015, Brasília, DF. Towards sustainable intensification: proceedings. Brasília, DF: Embrapa, 2015. p. 172.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Arroz e Feijão. |
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| 34. | | LEANDRO, T. T.; CARMO, T. D. do; CAMPOS, C. R.; SILVA, R. P. da; CAMPOS, C. N.; SILVEIRA, M. C. T. da; ALVARENGA, R. C.; GONTIJO NETO, M. M. Desempenho de novilhas Nelore e Nelore x Angus em sistema de Integração Lavoura-Pecuária da Embrapa Milho e Sorgo. In: CONGRESSO NACIONAL DE MILHO E SORGO, 33., 2022, Sete Lagoas. Brasil: 200 anos de independência: sustentabilidade e desafios para a cadeia produtiva de grãos: resumos. Sete Lagoas: Associação Brasileira de Milho e Sorgo, 2022. Evento online.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Pecuária Sul. |
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| 35. | | LEANDRO, T. T.; CARMO, T. D. do; CAMPOS, C. R.; SILVA, R. P. da; CAMPOS, C. N.; SILVEIRA, M. C. T. da; ALVARENGA, R. C.; GONTIJO NETO, M. M. Desempenho de novilhas Nelore e Nelore x Angus em sistema de Integração Lavoura-Pecuária da Embrapa Milho e Sorgo. In: CONGRESSO NACIONAL DE MILHO E SORGO, 33., 2022, Sete Lagoas. Brasil: 200 anos de independência: sustentabilidade e desafios para a cadeia produtiva de grãos: resumos. Sete Lagoas: Associação Brasileira de Milho e Sorgo, 2022. Evento online.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Milho e Sorgo. |
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| 36. | | AVILA, R. G.; MAGALHAES, P. C.; LAVINSKY, A. O.; ALVARENGA, A. A. de; GOMES JUNIOR, C. C.; CAMPOS, C. N. Alterações nos componentes de trocas gasosas e eficiência do fotossistema II em genótipos de milho submetidos a estresse hídrico no pré-florecimento. In: CONGRESSO NACIONAL DE MILHO E SORGO, 31., 2016, Bento Gonçalves. Milho e sorgo: inovações, mercados e segurança alimentar: anais. Sete Lagoas: Associação Brasileira de Milho e Sorgo, 2016.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Milho e Sorgo. |
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| 37. | | COSTA, N. D.; RESENDE, G. M. de; DIAS, R. de C. S.; ROCHA, R. de C.; CAMPOS, C. de O. Avaliacao de cultivares de melao no tropico Semi-Arido. Horticultura Brasileira, Brasília, DF, v. 13, n. 1, p. 78, maio, 1995.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Semiárido. |
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| 38. | | SALES-CAMPOS, C.; EIRA, A. F. da; JESUS, M. A. de; CAMPAGNOLLI, F.; ANDRADE, M. C. N. de. Crescimento micelial de Pleurotus ostreatus em resíduo de Simarouba amara. Pesquisa Agropecuária Brasileira, Brasília, DF, v. 43, n. 11, p. 1633-1635, nov. 2008. Notas Científicas.
Título em inglês: Mycelial growth of Pleurotus ostreatus in Simarouba amara sawdust.| Biblioteca(s): Embrapa Unidades Centrais. |
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| 40. | | LEANDRO, T. T.; CAMPOS, C. R.; SANTOS, F. C. dos; GOTARDO, N. L.; SILVEIRA, M. C. T. da. Características de uma pastagem tropical e da produção de bovinos de corte, em fazenda comercial, visando intensificação sustentável. In: SIMPÓSIO DE INICIAÇÃO CIENTÍFICA DA EMBRAPA PECUÁRIA SUL, 12., 2022, Bagé, RS. Resumos... Bagé: Embrapa Pecuária Sul, 2022. p. 12. Ana Cristina Mazzocato, editora técnica.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Milho e Sorgo. |
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| Registros recuperados : 115 | |
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