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Type: Artigo de periódico
Title: Survey In The Sugarcane Expressed Sequence Tag Database (sucest) For Simple Sequence Repeats.
Author: Pinto, Luciana Rossini
Oliveira, Karine Miranda
Ulian, Eugênio César
Garcia, Antonio Augusto Franco
de Souza, Anete Pereira
Abstract: Sugarcane microsatellites or simple sequence repeats (SSR) were developed in an economical and practical way by mining EST databases. A survey in the SUCEST (sugarcane EST) database revealed a total of 2005 clusters out of 43,141 containing SSRs. Of these, 8.2% were dinucleotide, 30.5% were trinucleotide, and 61.3% were tetranucleotide repeats. Except for dinucleotides, the CG-rich motif types were the most common. Differences in abundance of trinucleotide motif types were observed between EST-SSRs and those isolated from sugarcane genomic libraries. Among the different cDNA libraries used for EST sequencing, SSRs were more frequent in the ones derived from leaf roll (LR). Twenty-three out of 30 tested SSRs produced scorable polymorphisms in 18 sugarcane commercial clones. These EST-SSRs showed a moderate level of polymorphism with some SSRs producing unique fingerprints. The number of alleles observed among the 18 clones evaluated varied from 2 to 15, with an average of 6.04 alleles/locus. The polymorphism information content (PIC) values ranged from 0.28 to 0.90 with a mean of 0.66. The EST-SSRs screened over both parents (SP 80-180; SP 80-4966) and 6 F1 individuals produced 52 segregating markers that could potentially be used for sugarcane mapping. The EST-SSRs were found in clusters that had significant homology to proteins involved in important metabolic pathways such as sugar biosynthesis, proving that EST-SSRs are a valuable tool for the construction of a functional sugarcane map.
Subject: Alleles
Dna Primers
Databases, Nucleic Acid
Expressed Sequence Tags
Microsatellite Repeats
Polymorphism, Genetic
Citation: Genome / National Research Council Canada = Génome / Conseil National De Recherches Canada. v. 47, n. 5, p. 795-804, 2004-Oct.
Rights: fechado
Identifier DOI: 10.1139/g04-055
Date Issue: 2004
Appears in Collections:Unicamp - Artigos e Outros Documentos

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