Please use this identifier to cite or link to this item: http://repositorio.unicamp.br/jspui/handle/REPOSIP/79238
Type: Artigo de periódico
Title: De Novo Assembly and Transcriptome Analysis of Contrasting Sugarcane Varieties
Author: Cardoso-Silva, CB
Costa, EA
Mancini, MC
Balsalobre, TWA
Canesin, LEC
Pinto, LR
Carneiro, MS
Garcia, AAF
de Souza, AP
Vicentini, R
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.
Country: EUA
Editor: Public Library Science
Rights: aberto
Identifier DOI: 10.1371/journal.pone.0088462
Date Issue: 2014
Appears in Collections:Unicamp - Artigos e Outros Documentos

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