Full text
| |
| Author(s): |
Alícia Lie de Mélo
Total Authors: 1
|
| Document type: | Doctoral Thesis |
| Press: | São Paulo. |
| Institution: | Universidade de São Paulo (USP). Instituto de Matemática e Estatística (IME/SBI) |
| Defense date: | 2024-09-20 |
| Examining board members: |
Glaucia Mendes Souza;
Ariane Machado Lima;
Robson Francisco de Souza;
Marcelo Menossi Teixeira
|
| Advisor: | Glaucia Mendes Souza; Alan Mitchell Durham |
| Abstract | |
Sugarcane is widely recognized for its use in sugar and alcoholic beverages production, but it also plays a crucial role in energy generation as biofuel, charcoal, and other combustible materials. Given this diversity of applications, developing plants with characteristics better suited for each purpose is strategic to increase efficiency in producing these products. This strategy involves understanding metabolic regulation networks and developing biotechnological tools to rearrange network connections to produce a plant with desired traits. To achieve this, it is necessary to characterize the promoter region, which can be done by analyzing the composition of transcription factor binding sites within it. This type of study can be divided into two approaches: i) detection of transcription factor binding sites with known motifs, and ii) de novo motif discovery. These two approaches were combined into a promoter region analysis pipeline, where the promoter is defined as an 800 bp region upstream of the TSS, and sequences were masked for low-complexity regions. The FIMO software was used to detect known motifs described in the PlantTFDB database. The new de novo motif discovery analysis was based on previous work developed in our group and was enhanced with additional filtering steps to ensure more reliable results. To relate gene expression to promoter architecture, a script was developed that selects promoter architectures based on clustering of expression profiles. Additionally, a set of drought-responsive genes and another set expressed in the leaf were analyzed using this protocol, resulting in the identification of candidate promoter architectures related to drought response and specific to leaf tissue, with potential biotechnological applications in sugarcane. (AU) | |
| FAPESP's process: | 18/17561-9 - Regulatory elements of carbon metabolism in sugar cane |
| Grantee: | Alícia Lie de Melo |
| Support Opportunities: | Scholarships in Brazil - Doctorate (Direct) |