Frequency and distribution of microsatellites from ESTs of citrus

Genetics and Molecular Biology

Darío Abel Palmieri²  Valdenice Moreira Novelli²  Marinês Bastianel²  Mariângela Cristofani-yaly²  Gustavo Astúa-monge²  Eduardo Fermino Carlos²  Antonio Carlos De Oliveira¹  Marcos Antonio Machado² 

[1] ,Instituto Agronômico de Campinas Centro APTA Citros Sylvio Moreira Cordeirópolis SP ,Brazil

关键词: Citrus spp.;    Poncirus trifoliata;    ESTs;    microsatellites;    in silico polymorphism;   

DOI  :  10.1590/S1415-47572007000500029

来源: SciELO

【 摘 要 】

Nearly 65,000 citrus EST (Expressed Sequence Tags) have been investigated using the CitEST project database. Microsatellites were investigated in the unigene sequences from Citrus spp. and Poncirus trifoliata. From these sequences, approximately 35% of the non-redundant ESTs contained SSRs. The frequencies of different SSR motifs were similar between Citrus spp and trifoliate orange. In general, mononucleotide repeats appeared to be the most abundant SSRs in the CitEST database, but we also identify di-, tri-, tetra-, penta- and hexanucleotide repeats. The AG/CT and AAG/CTT were the most common dinucleotide and trinucleotide motifs, with frequencies of 54.4% and 25.2%, respectively. Primer sequences flanking SSR motifs were successfully designed and synthesized. After in silico polymorphism analysis, a subset of sixty-eight primers was validated in different Citrus spp. and Poncirus trifoliata. PCR-amplification revealed polymorphism in citrus with all tested primer pairs and showed the potential of these markers for linkage mapping. Our study showed that the CitEST database can be exploited for the development of SSR markers that can amplify Citrus spp. and related genus for comparative mapping and other genetic analyses.

【 授权许可】

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