Transcription profiling of signal transduction-related genes in sugarcane tissues
Autor(a) principal: | |
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Data de Publicação: | 2005 |
Outros Autores: | , , , , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Institucional da UNESP |
Texto Completo: | http://dx.doi.org/10.1093/dnares/12.1.27 http://hdl.handle.net/11449/3966 |
Resumo: | A collection of 237,954 sugarcane ESTs was examined in search of signal transduction genes. Over 3,500 components involved in several aspects of signal transduction, transcription, development, cell cycle, stress responses and pathogen interaction were compiled into the Sugarcane Signal Transduction (SUCAST) Catalogue. Sequence comparisons and protein domain analysis revealed 477 receptors, 510 protein kinases, 107 protein phosphatases, 75 small GTPases, 17 G-proteins, 114 calcium and inositol metabolism proteins, and over 600 transcription factors. The elements were distributed into 29 main categories subdivided into 409 sub-categories. Genes with no matches in the public databases and of unknown function were also catalogued. A cDNA microarray was constructed to profile individual variation of plants cultivated in the field and transcript abundance in six plant organs (flowers, roots, leaves, lateral buds, and 1(st) and 4(th) internodes). From 1280 distinct elements analyzed, 217 (17%) presented differential expression in two biological samples of at least one of the tissues tested. A total of 153 genes (12%) presented highly similar expression levels in all tissues. A virtual profile matrix was constructed and the expression profiles were validated by real-time PCR. The expression data presented can aid in assigning function for the sugarcane genes and be useful for promoter characterization of this and other economically important grasses. |
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Transcription profiling of signal transduction-related genes in sugarcane tissuesSaccharumSugarcanemicroarraysignal transductiontranscriptomeA collection of 237,954 sugarcane ESTs was examined in search of signal transduction genes. Over 3,500 components involved in several aspects of signal transduction, transcription, development, cell cycle, stress responses and pathogen interaction were compiled into the Sugarcane Signal Transduction (SUCAST) Catalogue. Sequence comparisons and protein domain analysis revealed 477 receptors, 510 protein kinases, 107 protein phosphatases, 75 small GTPases, 17 G-proteins, 114 calcium and inositol metabolism proteins, and over 600 transcription factors. The elements were distributed into 29 main categories subdivided into 409 sub-categories. Genes with no matches in the public databases and of unknown function were also catalogued. A cDNA microarray was constructed to profile individual variation of plants cultivated in the field and transcript abundance in six plant organs (flowers, roots, leaves, lateral buds, and 1(st) and 4(th) internodes). From 1280 distinct elements analyzed, 217 (17%) presented differential expression in two biological samples of at least one of the tissues tested. A total of 153 genes (12%) presented highly similar expression levels in all tissues. A virtual profile matrix was constructed and the expression profiles were validated by real-time PCR. The expression data presented can aid in assigning function for the sugarcane genes and be useful for promoter characterization of this and other economically important grasses.Univ São Paulo, Inst Quim, Dept Bioquim, BR-05508900 São Paulo, BrazilUniv São Paulo, Inst Matemat & Estatist, Dept Estatist, BR-05508090 São Paulo, BrazilUniv Estadual Campinas, Inst Biol, Dept Genet & Evolucao, BR-13083970 Campinas, SP, BrazilUniv Estadual Campinas, Ctr Biol Mol & Engn Genet, BR-13083970 Campinas, SP, BrazilCtr Tecnol Copersucar, BR-13400970 São Paulo, BrazilUniv Estadual Paulista, Fac Ciências Agr & Vet Jaboticabal, Dept Tecnol, Ctr Estocagem Clones,BCCCtr, BR-14870000 São Paulo, BrazilUniv Estadual Paulista, Fac Ciências Agr & Vet Jaboticabal, Dept Tecnol, Ctr Estocagem Clones,BCCCtr, BR-14870000 São Paulo, BrazilOxford University PressUniversidade de São Paulo (USP)Universidade Estadual de Campinas (UNICAMP)Ctr Tecnol CopersucarUniversidade Estadual Paulista (Unesp)Papini-Terzi, F. S.Rocha, F. R.Vencio, RZNOliveira, K. C.Felix, J. D.Vicentini, R.Rocha, C. D.Simoes, ACQUlian, E. C.Di Mauro, SMZDa Silva, A. M.Pereira, CADMenossi, M.Souza, G. M.2014-05-20T13:17:32Z2014-05-20T13:17:32Z2005-02-28info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/article27-38application/pdfhttp://dx.doi.org/10.1093/dnares/12.1.27Dna Research. Oxford: Oxford Univ Press, v. 12, n. 1, p. 27-38, 2005.1340-2838http://hdl.handle.net/11449/396610.1093/dnares/12.1.27WOS:000230919700003WOS000230919700003.pdfWeb of Sciencereponame:Repositório Institucional da UNESPinstname:Universidade Estadual Paulista (UNESP)instacron:UNESPengDna Research5.4152,866info:eu-repo/semantics/openAccess2024-06-07T15:32:11Zoai:repositorio.unesp.br:11449/3966Repositório InstitucionalPUBhttp://repositorio.unesp.br/oai/requestopendoar:29462024-08-05T19:53:31.363530Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP)false |
dc.title.none.fl_str_mv |
Transcription profiling of signal transduction-related genes in sugarcane tissues |
title |
Transcription profiling of signal transduction-related genes in sugarcane tissues |
spellingShingle |
Transcription profiling of signal transduction-related genes in sugarcane tissues Papini-Terzi, F. S. Saccharum Sugarcane microarray signal transduction transcriptome |
title_short |
Transcription profiling of signal transduction-related genes in sugarcane tissues |
title_full |
Transcription profiling of signal transduction-related genes in sugarcane tissues |
title_fullStr |
Transcription profiling of signal transduction-related genes in sugarcane tissues |
title_full_unstemmed |
Transcription profiling of signal transduction-related genes in sugarcane tissues |
title_sort |
Transcription profiling of signal transduction-related genes in sugarcane tissues |
author |
Papini-Terzi, F. S. |
author_facet |
Papini-Terzi, F. S. Rocha, F. R. Vencio, RZN Oliveira, K. C. Felix, J. D. Vicentini, R. Rocha, C. D. Simoes, ACQ Ulian, E. C. Di Mauro, SMZ Da Silva, A. M. Pereira, CAD Menossi, M. Souza, G. M. |
author_role |
author |
author2 |
Rocha, F. R. Vencio, RZN Oliveira, K. C. Felix, J. D. Vicentini, R. Rocha, C. D. Simoes, ACQ Ulian, E. C. Di Mauro, SMZ Da Silva, A. M. Pereira, CAD Menossi, M. Souza, G. M. |
author2_role |
author author author author author author author author author author author author author |
dc.contributor.none.fl_str_mv |
Universidade de São Paulo (USP) Universidade Estadual de Campinas (UNICAMP) Ctr Tecnol Copersucar Universidade Estadual Paulista (Unesp) |
dc.contributor.author.fl_str_mv |
Papini-Terzi, F. S. Rocha, F. R. Vencio, RZN Oliveira, K. C. Felix, J. D. Vicentini, R. Rocha, C. D. Simoes, ACQ Ulian, E. C. Di Mauro, SMZ Da Silva, A. M. Pereira, CAD Menossi, M. Souza, G. M. |
dc.subject.por.fl_str_mv |
Saccharum Sugarcane microarray signal transduction transcriptome |
topic |
Saccharum Sugarcane microarray signal transduction transcriptome |
description |
A collection of 237,954 sugarcane ESTs was examined in search of signal transduction genes. Over 3,500 components involved in several aspects of signal transduction, transcription, development, cell cycle, stress responses and pathogen interaction were compiled into the Sugarcane Signal Transduction (SUCAST) Catalogue. Sequence comparisons and protein domain analysis revealed 477 receptors, 510 protein kinases, 107 protein phosphatases, 75 small GTPases, 17 G-proteins, 114 calcium and inositol metabolism proteins, and over 600 transcription factors. The elements were distributed into 29 main categories subdivided into 409 sub-categories. Genes with no matches in the public databases and of unknown function were also catalogued. A cDNA microarray was constructed to profile individual variation of plants cultivated in the field and transcript abundance in six plant organs (flowers, roots, leaves, lateral buds, and 1(st) and 4(th) internodes). From 1280 distinct elements analyzed, 217 (17%) presented differential expression in two biological samples of at least one of the tissues tested. A total of 153 genes (12%) presented highly similar expression levels in all tissues. A virtual profile matrix was constructed and the expression profiles were validated by real-time PCR. The expression data presented can aid in assigning function for the sugarcane genes and be useful for promoter characterization of this and other economically important grasses. |
publishDate |
2005 |
dc.date.none.fl_str_mv |
2005-02-28 2014-05-20T13:17:32Z 2014-05-20T13:17:32Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://dx.doi.org/10.1093/dnares/12.1.27 Dna Research. Oxford: Oxford Univ Press, v. 12, n. 1, p. 27-38, 2005. 1340-2838 http://hdl.handle.net/11449/3966 10.1093/dnares/12.1.27 WOS:000230919700003 WOS000230919700003.pdf |
url |
http://dx.doi.org/10.1093/dnares/12.1.27 http://hdl.handle.net/11449/3966 |
identifier_str_mv |
Dna Research. Oxford: Oxford Univ Press, v. 12, n. 1, p. 27-38, 2005. 1340-2838 10.1093/dnares/12.1.27 WOS:000230919700003 WOS000230919700003.pdf |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Dna Research 5.415 2,866 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
27-38 application/pdf |
dc.publisher.none.fl_str_mv |
Oxford University Press |
publisher.none.fl_str_mv |
Oxford University Press |
dc.source.none.fl_str_mv |
Web of Science reponame:Repositório Institucional da UNESP instname:Universidade Estadual Paulista (UNESP) instacron:UNESP |
instname_str |
Universidade Estadual Paulista (UNESP) |
instacron_str |
UNESP |
institution |
UNESP |
reponame_str |
Repositório Institucional da UNESP |
collection |
Repositório Institucional da UNESP |
repository.name.fl_str_mv |
Repositório Institucional da UNESP - Universidade Estadual Paulista (UNESP) |
repository.mail.fl_str_mv |
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1808129134425014272 |