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Registro Completo |
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Biblioteca(s): |
Embrapa Agricultura Digital; Embrapa Pecuária Sudeste. |
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Data corrente: |
02/12/2010 |
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Data da última atualização: |
27/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
GIACHETTO, P. F.; YAMAGISHI, M. E. B.; SANTOS, E. H. dos; IBELLI, A. M. G.; REGITANO, L. C. de A. |
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Afiliação: |
POLIANA FERNANDA GIACHETTO, CNPTIA; MICHEL EDUARDO BELEZA YAMAGISHI, CNPTIA; EDGARD HENRIQUE DOS SANTOS, CNPTIA; ADRIANA MERCIA GUARATINI IBELLI, CPPSE; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE. |
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Título: |
Transcriptional networks reconstruction: identification of genes involved on cattle response to tick Rhipicephalus (Boophilus) microplus infestation. |
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Ano de publicação: |
2010 |
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Fonte/Imprenta: |
In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.], 2010. |
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Páginas: |
p. 154. |
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Idioma: |
Inglês |
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Notas: |
Na publicação: Regitano, L.C.A. X-meeting 2010. |
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Conteúdo: |
In tropical countries, losses caused by tick infestation in cattle lead to a great impact on animal production systems. Weight and feed conversion reduction, together with diseases transmitted by the parasite are some of the problems that lead to economic losses of billion dollars a year. In a general way, Bos taurus indicus cattle are less susceptible to infestation with Rhipicephalus (Boophilus) microplus than Bos taurus taurus cattle but the immunological basis of this difference is not understood. Since we are interested in finding genes that may be involved in mechanism of bovine response to tick for use in animal breeding, we investigated transcriptional networks in the response of these different genotypes of cattle to tick infestation. Recent studies show that co-expression networks can be used to identify a set of candidate genes underlying specific phenotypes and some gene co-expression network methods have been successfully applied in a variety of studies. In this study, Weighted Gene Co-expression Network Analysis (WGCNA) was applied, using microarray expression data. This systems biology analysis method starts out by identification of modules of genes based on patterns of gene co-expression, defined as sets of highly correlated (connected) genes, which may represent molecular networks involved in a common biological pathway. Genes highly connected within these modules are thought to drive the group, and are considered to be hub genes . Skin samples were collected from bovines of different genotypes before (BI) and after (AI) artificial tick infestation and mRNA used for GeneChip Bovine Genome Array hybridization. Microarray data were processed using affy /Bioconductor software package. We follow a general framework for constructing gene co-expression networks and used the WGCNA R package. The power adjacency function was applied to the co-expression measurement, the absolute Pearson correlation coefficient, to derive the adjacency matrix; we used a soft thresholding approach by raising each correlation to a fixed power (?=6). Modules were defined using the dynamic hybrid tree cutting algorithm of the dynamicTreeCut R package. Our analysis identified 8 modules. Each of the modules was labeled with a unique color as an identifier and characterized for enrichment of functionally-related genes. Interesting modules were defined as those enriched with genes involved in immune response and containing differentialy expressed genes (DEG), wigh were identified separately in each module. The blue module (n=220 genes) was enriched for genes belonging to Chemokine signaling pathway , Focal adhesion and Cell adhesion molecules pathways, and had the greatest number of DEG. These DEG, together with the hub genes inside the blue module are candidate genes elected for further studies aiming the understanding of mechanisms involved in tick tolerance by cattle. Supported by: Embrapa, CNPq. MenosIn tropical countries, losses caused by tick infestation in cattle lead to a great impact on animal production systems. Weight and feed conversion reduction, together with diseases transmitted by the parasite are some of the problems that lead to economic losses of billion dollars a year. In a general way, Bos taurus indicus cattle are less susceptible to infestation with Rhipicephalus (Boophilus) microplus than Bos taurus taurus cattle but the immunological basis of this difference is not understood. Since we are interested in finding genes that may be involved in mechanism of bovine response to tick for use in animal breeding, we investigated transcriptional networks in the response of these different genotypes of cattle to tick infestation. Recent studies show that co-expression networks can be used to identify a set of candidate genes underlying specific phenotypes and some gene co-expression network methods have been successfully applied in a variety of studies. In this study, Weighted Gene Co-expression Network Analysis (WGCNA) was applied, using microarray expression data. This systems biology analysis method starts out by identification of modules of genes based on patterns of gene co-expression, defined as sets of highly correlated (connected) genes, which may represent molecular networks involved in a common biological pathway. Genes highly connected within these modules are thought to drive the group, and are considered to be hub genes . Skin samples were collecte... Mostrar Tudo |
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Palavras-Chave: |
Dados de microarranjos. |
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Thesagro: |
Gado; Genética Animal. |
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Thesaurus Nal: |
Animal genetics; Rhipicephalus microplus. |
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Categoria do assunto: |
--
H Saúde e Patologia |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/23811/1/p154-out.pdf
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Marc: |
LEADER 03866nam a2200241 a 4500
001 1868527
005 2020-01-27
008 2010 bl uuuu u00u1 u #d
100 1 $aGIACHETTO, P. F.
245 $aTranscriptional networks reconstruction$bidentification of genes involved on cattle response to tick Rhipicephalus (Boophilus) microplus infestation.$h[electronic resource]
260 $aIn: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 6., 2010, Ouro Preto. Abstracts... [S.l.: s.n.]$c2010
300 $ap. 154.
500 $aNa publicação: Regitano, L.C.A. X-meeting 2010.
520 $aIn tropical countries, losses caused by tick infestation in cattle lead to a great impact on animal production systems. Weight and feed conversion reduction, together with diseases transmitted by the parasite are some of the problems that lead to economic losses of billion dollars a year. In a general way, Bos taurus indicus cattle are less susceptible to infestation with Rhipicephalus (Boophilus) microplus than Bos taurus taurus cattle but the immunological basis of this difference is not understood. Since we are interested in finding genes that may be involved in mechanism of bovine response to tick for use in animal breeding, we investigated transcriptional networks in the response of these different genotypes of cattle to tick infestation. Recent studies show that co-expression networks can be used to identify a set of candidate genes underlying specific phenotypes and some gene co-expression network methods have been successfully applied in a variety of studies. In this study, Weighted Gene Co-expression Network Analysis (WGCNA) was applied, using microarray expression data. This systems biology analysis method starts out by identification of modules of genes based on patterns of gene co-expression, defined as sets of highly correlated (connected) genes, which may represent molecular networks involved in a common biological pathway. Genes highly connected within these modules are thought to drive the group, and are considered to be hub genes . Skin samples were collected from bovines of different genotypes before (BI) and after (AI) artificial tick infestation and mRNA used for GeneChip Bovine Genome Array hybridization. Microarray data were processed using affy /Bioconductor software package. We follow a general framework for constructing gene co-expression networks and used the WGCNA R package. The power adjacency function was applied to the co-expression measurement, the absolute Pearson correlation coefficient, to derive the adjacency matrix; we used a soft thresholding approach by raising each correlation to a fixed power (?=6). Modules were defined using the dynamic hybrid tree cutting algorithm of the dynamicTreeCut R package. Our analysis identified 8 modules. Each of the modules was labeled with a unique color as an identifier and characterized for enrichment of functionally-related genes. Interesting modules were defined as those enriched with genes involved in immune response and containing differentialy expressed genes (DEG), wigh were identified separately in each module. The blue module (n=220 genes) was enriched for genes belonging to Chemokine signaling pathway , Focal adhesion and Cell adhesion molecules pathways, and had the greatest number of DEG. These DEG, together with the hub genes inside the blue module are candidate genes elected for further studies aiming the understanding of mechanisms involved in tick tolerance by cattle. Supported by: Embrapa, CNPq.
650 $aAnimal genetics
650 $aRhipicephalus microplus
650 $aGado
650 $aGenética Animal
653 $aDados de microarranjos
700 1 $aYAMAGISHI, M. E. B.
700 1 $aSANTOS, E. H. dos
700 1 $aIBELLI, A. M. G.
700 1 $aREGITANO, L. C. de A.
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Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
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Registro Completo
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Biblioteca(s): |
Embrapa Agroindústria de Alimentos. |
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Data corrente: |
25/06/2018 |
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Data da última atualização: |
28/08/2023 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
B - 4 |
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Autoria: |
MARTINS, V. de C.; GODOY, R. L. de O.; GOVÊA, A. C. M. S.; SANTIAGO, M. C. P. de A.; BORGUINI, R. G.; BRAGA, E. C. de O.; PACHECO, S.; NASCIMENTO, L. da S. de M. do. |
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Afiliação: |
Víctor de Carvalho Martins, UFRJ; RONOEL LUIZ DE OLIVEIRA GODOY, CTAA; Ana Cristina Miranda Senna Gouvêa, CTAA; MANUELA CRISTINA P DE A SANTIAGO, CTAA; RENATA GALHARDO BORGUINI, CTAA; Elaine Cristina de Oliveira Braga, UFRJ; SIDNEY PACHECO, CTAA; LUZIMAR DA SILVA DE M DO NASCIMENTO, CTAA. |
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Título: |
Fraud investigation in commercial coffee by chromatography. |
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Ano de publicação: |
2018 |
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Fonte/Imprenta: |
Food Quality and Safety, Oxford, v. 20, p 1-13, 2018. |
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DOI: |
https://doi.org/10.1093/fqsafe/fyy017 |
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Idioma: |
Inglês |
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Notas: |
Review. |
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Conteúdo: |
Coffee is currently the second largest commodity on the world market today, and there is great concern about the quality of the beans exported from producer countries to Europe and USA. Practices such as using blends of different species and adding low-cost raw materials, such as chicory, corn, and soybean, impair the sensory and functional characteristics of the drink made from roasted and ground coffee beans. There is a need to adopt more efficient analytical methods than the microscopy technique currently used. The first chromatographic method used to determine fraud was reported in 1958. This method used paper chromatography to differentiate between coffee and chicory based on the free reducing sugars. As of the 1980s, different methods involving high-performance liquid chromatography and gas chromatography were developed in order to demonstrate geographic authenticity, distinction between species, occurrence of adulteration, and the presence of defective beans by determining the monosaccharides, oligosaccharides, tocopherols, fatty acids, volatiles, diterpenes, sterols, and phenolic substances, among others. As far as the authors know, there are no papers published in the literature that have compiled such an extensive set of information about these chromatographic methods as here. Over the last 2 years, there has been a trend to develop analytical methods for ultra-performance liquid chromatography coupled with tandem mass spectrometry to confirm fraud in coffee, due to high sensitivity and selectivity. MenosCoffee is currently the second largest commodity on the world market today, and there is great concern about the quality of the beans exported from producer countries to Europe and USA. Practices such as using blends of different species and adding low-cost raw materials, such as chicory, corn, and soybean, impair the sensory and functional characteristics of the drink made from roasted and ground coffee beans. There is a need to adopt more efficient analytical methods than the microscopy technique currently used. The first chromatographic method used to determine fraud was reported in 1958. This method used paper chromatography to differentiate between coffee and chicory based on the free reducing sugars. As of the 1980s, different methods involving high-performance liquid chromatography and gas chromatography were developed in order to demonstrate geographic authenticity, distinction between species, occurrence of adulteration, and the presence of defective beans by determining the monosaccharides, oligosaccharides, tocopherols, fatty acids, volatiles, diterpenes, sterols, and phenolic substances, among others. As far as the authors know, there are no papers published in the literature that have compiled such an extensive set of information about these chromatographic methods as here. Over the last 2 years, there has been a trend to develop analytical methods for ultra-performance liquid chromatography coupled with tandem mass spectrometry to confirm fraud in coffee, due t... Mostrar Tudo |
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Thesagro: |
Adulteração; Café; Carboidrato; Cromatografia; Cromatografia Gasosa; Grão; Método de Análise. |
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Thesaurus NAL: |
Adulterated products; Analytical methods; Carbohydrates; Coffee (beverage); Coffee beans; Gas chromatography-mass spectrometry; Ultra-performance liquid chromatography; Volatile compounds. |
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Categoria do assunto: |
Q Alimentos e Nutrição Humana |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/178931/1/fyy017-1-versao-final.pdf
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Marc: |
LEADER 02747naa a2200409 a 4500
001 2092721
005 2023-08-28
008 2018 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1093/fqsafe/fyy017$2DOI
100 1 $aMARTINS, V. de C.
245 $aFraud investigation in commercial coffee by chromatography.$h[electronic resource]
260 $c2018
500 $aReview.
520 $aCoffee is currently the second largest commodity on the world market today, and there is great concern about the quality of the beans exported from producer countries to Europe and USA. Practices such as using blends of different species and adding low-cost raw materials, such as chicory, corn, and soybean, impair the sensory and functional characteristics of the drink made from roasted and ground coffee beans. There is a need to adopt more efficient analytical methods than the microscopy technique currently used. The first chromatographic method used to determine fraud was reported in 1958. This method used paper chromatography to differentiate between coffee and chicory based on the free reducing sugars. As of the 1980s, different methods involving high-performance liquid chromatography and gas chromatography were developed in order to demonstrate geographic authenticity, distinction between species, occurrence of adulteration, and the presence of defective beans by determining the monosaccharides, oligosaccharides, tocopherols, fatty acids, volatiles, diterpenes, sterols, and phenolic substances, among others. As far as the authors know, there are no papers published in the literature that have compiled such an extensive set of information about these chromatographic methods as here. Over the last 2 years, there has been a trend to develop analytical methods for ultra-performance liquid chromatography coupled with tandem mass spectrometry to confirm fraud in coffee, due to high sensitivity and selectivity.
650 $aAdulterated products
650 $aAnalytical methods
650 $aCarbohydrates
650 $aCoffee (beverage)
650 $aCoffee beans
650 $aGas chromatography-mass spectrometry
650 $aUltra-performance liquid chromatography
650 $aVolatile compounds
650 $aAdulteração
650 $aCafé
650 $aCarboidrato
650 $aCromatografia
650 $aCromatografia Gasosa
650 $aGrão
650 $aMétodo de Análise
700 1 $aGODOY, R. L. de O.
700 1 $aGOVÊA, A. C. M. S.
700 1 $aSANTIAGO, M. C. P. de A.
700 1 $aBORGUINI, R. G.
700 1 $aBRAGA, E. C. de O.
700 1 $aPACHECO, S.
700 1 $aNASCIMENTO, L. da S. de M. do
773 $tFood Quality and Safety, Oxford$gv. 20, p 1-13, 2018.
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Embrapa Agroindústria de Alimentos (CTAA) |
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