Development of EGene platform for functional annotation and database integration: application and validation on transcript sequences of Eimeria spp. of domestic fowl.

Author(s)

Luiz Thibério Lira Diniz Rangel

• Document type: Master's Dissertation
• Press: São Paulo.
• Institution: Universidade de São Paulo (USP). Instituto de Ciências Biomédicas (ICB/SDI)
• Defense date: 2012-01-19

Examining board members

Arthur Gruber; Paulo Sérgio Lopes de Oliveira; Carlos Eduardo Winter

• Advisor: Arthur Gruber

Abstract

Protozoan parasites of the genus Eimeria cause enteric diseases in the domestic fowl. Our group has generated 15,000 ORESTES sequences for each one of the three most important species: E. tenella, E. maxima and E. acervulina. In the present work, we report the development of some components for EGene platform (Durham et al. Bioinformatics 21: 2812-2813, 2005) and their application in the functional annotation of reconstructed transcripts of Eimeria spp. Orthology analyses have identified genes conserved across different apicomplexan parasites, as well as genes restricted to the genus Eimeria. Digital expression profiles obtained from read countings of the assembled transcripts were submitted to clustering analyses. The profiles were unambiguously associated with the distinct developmental stages and strongly correlated with the order of the stages in the parasite life cycle. All sequencing data, annotation and comparative analysis were made available at The Eimeria Transcript Database (http://www.coccidia.icb.usp.br/eimeriatdb), a public web resource. (AU)

• FAPESP's process: 09/12643-8 - Development of EGene platform for functional annotation and database integration: application and validation on transcript sequences of Eimeria spp. of domestic fowl
• Grantee: Luiz Thibério Lira Diniz Rangel
• Support Opportunities: Scholarships in Brazil - Master