| Full text | |
| Author(s): |
Cardoso-Silva, Claudio Benicio
[1]
;
Costa, Estela Araujo
[1]
;
Mancini, Melina Cristina
[1]
;
Almeida Balsalobre, Thiago Willian
[1]
;
Costa Canesin, Lucas Eduardo
[1]
;
Pinto, Luciana Rossini
[2]
;
Carneiro, Monalisa Sampaio
[3]
;
Franco Garcia, Antonio Augusto
[4]
;
de Souza, Anete Pereira
[5, 1]
;
Vicentini, Renato
[1]
Total Authors: 10
|
| Affiliation: | [1] Univ Campinas UNICAMP, Ctr Mol Biol & Genet Engn CBMEG, Campinas, SP - Brazil
[2] Ctr Avancado Pesquisa Tecnol Agronegocio Cana IAC, Ribeirao Preto, SP - Brazil
[3] Univ Fed Sao Carlos, Dept Biotecnol & Prod Vegetal & Anim, Ctr Ciencias Agr, Araras, SP - Brazil
[4] Univ Sao Paulo, Dept Genet, Escola Super Agr Luiz de Queiroz, Piracicaba, SP - Brazil
[5] Univ Estadual Campinas UNICAMP, Inst Biol, Dept Biol Vegetal, Campinas, SP - Brazil
Total Affiliations: 5
|
| Document type: | Journal article |
| Source: | PLoS One; v. 9, n. 2 FEB 11 2014. |
| Web of Science Citations: | 39 |
| Abstract | |
Sugarcane is an important crop and a major source of sugar and alcohol. In this study, we performed de novo assembly and transcriptome annotation for six sugarcane genotypes involved in bi-parental crosses. The de novo assembly of the sugarcane transcriptome was performed using short reads generated using the Illumina RNA-Seq platform. We produced more than 400 million reads, which were assembled into 72,269 unigenes. Based on a similarity search, the unigenes showed significant similarity to more than 28,788 sorghum proteins, including a set of 5,272 unigenes that are not present in the public sugarcane EST databases; many of these unigenes are likely putative undescribed sugarcane genes. From this collection of unigenes, a large number of molecular markers were identified, including 5,106 simple sequence repeats (SSRs) and 708,125 single-nucleotide polymorphisms (SNPs). This new dataset will be a useful resource for future genetic and genomic studies in this species. (AU) | |
| FAPESP's process: | 08/52197-4 - Genomic-assisted breeding of sugarcane: using molecular markers for understanding the genetic architecture of quantitative traits and to implement marker assisted selection |
| Grantee: | Anete Pereira de Souza |
| Support Opportunities: | Program for Research on Bioenergy (BIOEN) - Thematic Grants |
| FAPESP's process: | 08/58031-0 - Sugarcane energetic balance: a systems approach towards understanding regulation of sucrose metabolism and sugar signaling |
| Grantee: | Renato Vicentini dos Santos |
| Support Opportunities: | Program for Research on Bioenergy (BIOEN) - Young Investigators Grants |