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| Author(s): |
Osvaldo Reis Junior
Total Authors: 1
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| Document type: | Master's Dissertation |
| Press: | Campinas, SP. |
| Institution: | Universidade Estadual de Campinas (UNICAMP). Instituto de Biologia |
| Defense date: | 2014-02-25 |
| Examining board members: |
Gonçalo Amarante Guimarães Pereira;
Michel Eduardo Beleza Yamagishi;
Marcelo Mendes Brandão
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| Advisor: | Gonçalo Amarante Guimarães Pereira |
| Abstract | |
Next-generation sequencing technologies generate large numbers of sequences in a short time and at low cost. The high-throughput sequencing of cDNA, known as RNA-seq, has allowed precise analyses of entire transcriptomes without the need of previous knowledge on genomic sequences, as required by microarrays. However, there are many discussions about the methods used for read alignment, identification of differentially expressed genes and assembly of transcriptomes. Since 2000, the Genomics and Expression Laboratory (LGE), has been studying the Witches' Broom Disease (WBD) of cacao (Theobroma cacao), which is caused by the basidiomycete fungus Moniliophthora perniciosa. Recently, 54 RNA-seq libraries of this plant-pathogen interaction were sequenced by our group in order to help in the elucidation of the complex biology of the disease. Thus, this work aims to generate information about the transcription profile of M. perniciosa and T. cacao during the Witches' Broom Disease (WBD). The results are divided into three main sections, the first is an analysis of alignment and gene expression under the conditions and sampled tissues. In the second section, we analyze the initial stage of the disease, known as green broom, where through differential expression analysis we could identify genes related to mechanisms of interaction between cacao and the fungus M. perniciosa. In the last section, we developed a strategy to identify possible sequences of long noncoding RNAs (lncRNA) and applied this strategy in the fungus M. perniciosa. In general these data present an important advance in the study of this disease and may be used in future work (AU) | |
| FAPESP's process: | 11/03050-3 - Identification of transcripts and expression patterns using RNA-seq |
| Grantee: | Osvaldo Reis Júnior |
| Support Opportunities: | Scholarships in Brazil - Master |