Satellyptus: analysis and database of microsatellites from ESTs of Eucalyptus

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dc.contributor.authorCeresini, Paulo Cezar [UNESP]
dc.contributor.authorSilva, Cristina Lacerda Soares Petrarolha [UNESP]
dc.contributor.authorMissio, Robson Fernando [UNESP]
dc.contributor.authorSouza, Elaine Costa [UNESP]
dc.contributor.authorFischer, Carlos Norberto [UNESP]
dc.contributor.authorGuillherme, Ivan Rizzo [UNESP]
dc.contributor.authorGregorio, Ivo [UNESP]
dc.contributor.authorSilva, Eloiza Helena Tajara da [UNESP]
dc.contributor.authorCicarelli, Regina Maria Barreto [UNESP]
dc.contributor.authorSilva, Marco Túlio Alves da [UNESP]
dc.contributor.authorGarcia, José Fernando [UNESP]
dc.contributor.authorAvelar, Gustavo Arbex [UNESP]
dc.contributor.authorPorto Neto, Laercio Ribeiro [UNESP]
dc.contributor.authorMarçon, André Ricardo [UNESP]
dc.contributor.authorBacci Junior, Mauricio [UNESP]
dc.contributor.authorMarini, Danyelle Cristine [UNESP]
dc.contributor.institutionETH-Zentrum Swiss Federal Institute of Technology Institute of Plant Sciences/Phytopathology
dc.contributor.institutionUniversidade Estadual Paulista (Unesp)
dc.contributor.institutionFundação Educacional de Andradina Faculdades Integradas Stella Maris
dc.date.accessioned2014-05-20T13:30:00Z
dc.date.available2014-05-20T13:30:00Z
dc.date.issued2005-01-01
dc.description.abstractThe main goal of our research was to search for SSRs in the Eucalyptus EST FORESTs database (using a software for mining SSR-motifs). With this objective, we created a database for cataloging Eucalyptus EST-derived SSRs, and developed a bioinformatics tool, named Satellyptus, for finding and analyzing microsatellites in the Eucalyptus EST database. The search for microsatellites in the FORESTs database containing 71,115 Eucalyptus EST sequences (52.09 Mb) revealed 20,530 SSRs in 15,621 ESTs. The SSR abundance detected on the Eucalyptus ESTs database (29% or one microsatellite every four sequences) is considered very high for plants. Amongst the categories of SSR motifs, the dimeric (37%) and trimeric ones (33%) predominated. The AG/CT motif was the most frequent (35.15%) followed by the trimeric CCG/CGG (12.81%). From a random sample of 1,217 sequences, 343 microsatellites in 265 SSR-containing sequences were identified. Approximately 48% of these ESTs containing microsatellites were homologous to proteins with known biological function. Most of the microsatellites detected in Eucalyptus ESTs were positioned at either the 5 or 3 end. Our next priority involves the design of flanking primers for codominant SSR loci, which could lead to the development of a set of microsatellite-based markers suitable for marker-assisted Eucalyptus breeding programs.en
dc.description.affiliationETH-Zentrum Swiss Federal Institute of Technology Institute of Plant Sciences/Phytopathology
dc.description.affiliationUniversidade Estadual Paulista 'Júlio de Mesquita Filho' Departamento de Fitossanidade, Eng. Rural e Solos
dc.description.affiliationFundação Educacional de Andradina Faculdades Integradas Stella Maris
dc.description.affiliationUNESP Departamento de Fitotectnia, Sócio-Economia e Tecnol. de Alimentos
dc.description.affiliationUNESP Departamento de Estatística, Matemática Aplicada e Computação
dc.description.affiliationUNESP Departamento de Biologia
dc.description.affiliationUNESP Departamento de Ciências Biológicas
dc.description.affiliationUNESP Departamento de Apoio, Produção e Saúde Animal
dc.description.affiliationUNESP Centro de Estudos de Insetos Sociais
dc.description.affiliationUnespUniversidade Estadual Paulista 'Júlio de Mesquita Filho' Departamento de Fitossanidade, Eng. Rural e Solos
dc.description.affiliationUnespUNESP Departamento de Fitotectnia, Sócio-Economia e Tecnol. de Alimentos
dc.description.affiliationUnespUNESP Departamento de Estatística, Matemática Aplicada e Computação
dc.description.affiliationUnespUNESP Departamento de Biologia
dc.description.affiliationUnespUNESP Departamento de Ciências Biológicas
dc.description.affiliationUnespUNESP Departamento de Apoio, Produção e Saúde Animal
dc.description.affiliationUnespUNESP Centro de Estudos de Insetos Sociais
dc.format.extent589-600
dc.identifierhttp://dx.doi.org/10.1590/S1415-47572005000400014
dc.identifier.citationGenetics and Molecular Biology. Sociedade Brasileira de Genética, v. 28, n. 3, p. 589-600, 2005.
dc.identifier.doi10.1590/S1415-47572005000400014
dc.identifier.fileS1415-47572005000400014.pdf
dc.identifier.issn1415-4757
dc.identifier.lattes2635092058300854
dc.identifier.lattes3776345573864268
dc.identifier.orcid0000-0003-2381-2792
dc.identifier.scieloS1415-47572005000400014
dc.identifier.urihttp://hdl.handle.net/11449/10171
dc.language.isoeng
dc.publisherSociedade Brasileira de Genética
dc.relation.ispartofGenetics and Molecular Biology
dc.relation.ispartofjcr1.493
dc.relation.ispartofsjr0,638
dc.rights.accessRightsAcesso aberto
dc.sourceSciELO
dc.subjectbioinformatics toolen
dc.subjectgenetic markersen
dc.subjectgene ontologyen
dc.subjectsmall sequence repeatsen
dc.subjectSSRen
dc.titleSatellyptus: analysis and database of microsatellites from ESTs of Eucalyptusen
dc.typeArtigo
unesp.author.lattes2635092058300854[1]
unesp.author.lattes3776345573864268
unesp.author.lattes1858554355077119[5]
unesp.author.orcid0000-0002-5619-1411[15]
unesp.author.orcid0000-0003-2381-2792[1]
unesp.author.orcid0000-0002-5598-6263[5]

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Rio Claro - CEIS - Centro de Estudos de Insetos Sociais