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KMID : 0381120130350010001
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Genes and Genomics
2013 Volume.35 No. 1 p.1 ~ p.12
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Comparative analysis of EST-derived markers for allelic variation in Jatropha curcas L. and cross transferability among economically important species of Euphorbiaceae
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Saisug Wachira
Ukoskit Kittipat
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Abstract
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The large number of expressed sequence tags (ESTs) now available has facilitated the development of molecular markers in many plant species. In the present study, primer pairs amplifying 133 ESTs containing simple sequence repeats (EST-SSR) and 112 intron-length polymorphism (ILP) markers were designed from Jatropha unigenes and unique transcripts from cassava, respectively. Of the primers designed, 71 and 57 were polymorphic for EST-SSR and ILP markers, respectively, in 59 Jatropha accessions. A similar average polymorphism information content (PIC) was observed for each marker system (0.37 for EST-SSR and 0.35 for ILP), suggesting that the two marker systems were similarly effective in determining polymorphisms in Jatropha. A comparison of PCR amplification ability between the two types of markers and cross species transferability indicated that ILP markers, for which a large proportion (68.6 %) of both primers was found in the coding sequence, were significantly more transferable in J. gossypifolia, cassava, rubber tree, and castor bean than EST-SSR markers, for which most (78.9 %) of one or both primers were located in the untranslated regions. This may be attributed to sequence conservation at the primer binding sites in the protein coding region. A comparison between two dendrograms constructed on the basis of EST-SSRs and ILPs revealed that discrimination of same-species alleles by EST-SSRs is clearer than that by ILPs, while ILPs seem to be more reliable for identification between species. The EST-derived markers developed in the present study should be useful for genetic diversity and comparative mapping across species in Euphorbiaceae.
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KEYWORD
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Jatropha, Euphorbiaceae ILP, EST, SSR
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