New insights in the sugarcane transcriptome responding to drought stress as revealed by superSAGE.
In the scope of the present work, four SuperSAGE libraries have been generated, using bulked root tissues from four drought-tolerant accessions as compared with four bulked sensitive genotypes, aiming to generate a panel of differentially expressed stress-responsive genes. Both groups were submitted to 24 hours of water deficit stress. The SuperSAGE libraries produced 8,787,315 tags (26 bp) that, after exclusion of singlets, allowed the identification of 205,975 unitags. Most relevant BlastN matches comprised 567,420 tags, regarding 75,404 unitags with 164,860 different ESTs. To optimize the annotation efficiency, the Gene Ontology (GO) categorization was carried out for 186,191 ESTs (BlastN against Uniprot-SwissProt), permitting the categorization of 118,208 ESTs (63.5%). In an attempt to elect a group of the best tags to be validated by RTqPCR, the GO categorization of the tag-related ESTs allowed the in silico identification of 213 upregulated unitags responding basically to abiotic stresses, from which 145 presented no hits after BlastN analysis, probably concerning new genes still uncovered in previous studies. The present report analyzes the sugarcane transcriptome under drought stress, using a combination of high-throughput transcriptome profiling by SuperSAGE with the Solexa sequencing technology, allowing the identification of potential target genes during the stress response.
Department of Genetics, Federal University of Pernambuco, 50670-901 Recife, PE, Brazil. kido.ufpe@gmail.com
Éderson Akio
ÉA
Kido
José Ribamar Costa
JR
Ferreira Neto
Roberta Lane de Oliveira
RL
Silva
Valesca
V
Pandolfi
Ana Carolina Ribeiro
AC
Guimarães
Daniela Truffi
DT
Veiga
Sabrina Moutinho
SM
Chabregas
Sérgio
S
Crovella
Ana Maria
AM
Benko-Iseppon
D055864:Droughts; D020869:Gene Expression Profiling / Q000379:methods*; D018869:Heat-Shock Response / Q000502:physiology*; D010940:Plant Proteins / Q000378:metabolism*; D031786:Saccharum / Q000378:metabolism*; D059467:Transcriptome / Q000502:physiology*
D010940:Plant Proteins