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Type: Artigo de periódico
Title: Analysis And Functional Annotation Of An Expressed Sequence Tag Collection For Tropical Crop Sugarcane.
Author: Vettore, André L
da Silva, Felipe R
Kemper, Edson L
Souza, Glaucia M
da Silva, Aline M
Ferro, Maria Inês T
Henrique-Silva, Flavio
Giglioti, Eder A
Lemos, Manoel V F
Coutinho, Luiz L
Nobrega, Marina P
Carrer, Helaine
França, Suzelei C
Bacci Júnior, Mauricio
Goldman, Maria Helena S
Gomes, Suely L
Nunes, Luiz R
Camargo, Luis E A
Siqueira, Walter J
Van Sluys, Marie-Anne
Thiemann, Otavio H
Kuramae, Eiko E
Santelli, Roberto V
Marino, Celso L
Targon, Maria L P N
Ferro, Jesus A
Silveira, Henrique C S
Marini, Danyelle C
Lemos, Eliana G M
Monteiro-Vitorello, Claudia B
Tambor, José H M
Carraro, Dirce M
Roberto, Patrícia G
Martins, Vanderlei G
Goldman, Gustavo H
de Oliveira, Regina C
Truffi, Daniela
Colombo, Carlos A
Rossi, Magdalena
de Araujo, Paula G
Sculaccio, Susana A
Angella, Aline
Lima, Marleide M A
de Rosa Júnior, Vicente E
Siviero, Fábio
Coscrato, Virginia E
Machado, Marcos A
Grivet, Laurent
Di Mauro, Sonia M Z
Nobrega, Francisco G
Menck, Carlos F M
Braga, Marilia D V
Telles, Guilherme P
Cara, Frank A A
Pedrosa, Guilherme
Meidanis, João
Arruda, Paulo
Abstract: To contribute to our understanding of the genome complexity of sugarcane, we undertook a large-scale expressed sequence tag (EST) program. More than 260,000 cDNA clones were partially sequenced from 26 standard cDNA libraries generated from different sugarcane tissues. After the processing of the sequences, 237,954 high-quality ESTs were identified. These ESTs were assembled into 43,141 putative transcripts. Of the assembled sequences, 35.6% presented no matches with existing sequences in public databases. A global analysis of the whole SUCEST data set indicated that 14,409 assembled sequences (33% of the total) contained at least one cDNA clone with a full-length insert. Annotation of the 43,141 assembled sequences associated almost 50% of the putative identified sugarcane genes with protein metabolism, cellular communication/signal transduction, bioenergetics, and stress responses. Inspection of the translated assembled sequences for conserved protein domains revealed 40,821 amino acid sequences with 1415 Pfam domains. Reassembling the consensus sequences of the 43,141 transcripts revealed a 22% redundancy in the first assembling. This indicated that possibly 33,620 unique genes had been identified and indicated that >90% of the sugarcane expressed genes were tagged.
Subject: Computational Biology
Dna, Complementary
Dna, Plant
Expressed Sequence Tags
Gene Expression Regulation, Plant
Gene Library
Molecular Sequence Data
Organ Specificity
Plant Proteins
Polymorphism, Genetic
Protein Structure, Tertiary
Sequence Analysis, Dna
Signal Transduction
Rights: fechado
Identifier DOI: 10.1101/gr.1532103
Date Issue: 2003
Appears in Collections:Artigos e Materiais de Revistas Científicas - Unicamp

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