With equipment of last generation, scientists linked to FAPESP Program for Research on Bioenergy (BIOEN) begin to decipher genome of sugar cane. Read the news Pontapé inicial (Authorship: Agência FAPESP).
Transcription Profiling of Signal Transduction - Related Genes in Sugarcane Tissues
Flávia Stal Papini-Terzi, Flávia Riso Rocha, Ricardo Zorzetto Nicoliello Vencio, Kátia Cristina Oliveira, Juliana de Maria Felix, Renato Vicentini, Cristiane de Souza Rocha, Ana Carolina Quirino Simões, Eugênio César Ulian, Sônia Marli Zingaretti di Mauro, Aline Maria da Silva, Carlos Alberto de Bragansca Pereira, Marcelo Menossi and Gláucia Mendes Souza *
|Outlier Searching Method
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 1st and 4th 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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