Analyses of the sugarcane pan-transcriptome

• Grant number: 23/12496-2
• Support Opportunities: Scholarships in Brazil - Scientific Initiation
• Start date: January 01, 2024
• End date: December 31, 2024
• Field of knowledge: Biological Sciences - Biology
• Principal Investigator: Diego Mauricio Riano Pachon
• Grantee: Hellen Regina Silvestre Silva
• Host Institution: Centro de Energia Nuclear na Agricultura (CENA). Universidade de São Paulo (USP). Piracicaba , SP, Brazil
• Company: Universidade de São Paulo (USP). Escola Politécnica (EP)
• Associated research grant: 20/15230-5 - Research Centre for Greenhouse Gas Innovation - RCG2I, AP.PCPE

Abstract

Sugarcane plays an important role in the economy and energy matrix of Brazil, being one of its largest producers. Sugarcane is responsible for the generation of sugar, ethanol, and electricity, essential for the country's economy, and genetic research is being conducted to enhance the productivity of this crop. Recently, at the Center for Nuclear Energy in Agriculture (CENA), research was conducted focusing on the inference and functional annotation of the sugarcane pan-transcriptome (FAPESP 2019/24796-5). In that study, public transcriptome data from 48 commercial sugarcane hybrids were analyzed, allowing the inference of the crops's pan-transcriptome. The results revealed a pan-transcriptome containing 5,077,629 transcripts, considering the 48 genotypes analyzed. In the current project, the data from this pan-transcriptome will serve as a basis for assembling transcriptomes of additional genotypes and for analyzing differences among the identified transcript groups. Additionally, metrics such as dn/ds, nucleotide diversity, and enrichment of functional categories and protein domains in gene/transcript groups will be calculated. These analyses will provide a better understanding of the characteristics of the sugarcane pan-transcriptome.