科研之友
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摘要
Production of expressed sequence tags (ESTs) from a variety of different organisms continuously increased during the last two decades. Research has revealed that ESTs are potentially rich sources for development of microsatellite markers that reveal polymorphisms not only within the source organism, but in related taxa, as well. Conventional EST-microsatellite analyses generally use non-redundant ESTs, however, the use of non-redundant ESTs for the development of microsatellites faces several problems including the low level of polymorphisms, unavailability of microsatellite flanking regions for primer pairs development. In the present study a contig-based approach was used to improve the use of ESTs in microsatellite marker development. Contig-based approach was utilized in ESTs of Cichorium since there are 84,149 ESTs and the use of EST based microsatellite is not common in these crop species. Cichorium endivia L. and C. intybus L. are commercially important as leafy vegetable and extraction of inulin, coffee substitute or fructans. In the present study, microsatellite frequencies between two Cichorium were determined and found that microsatellite frequencies between the two species were different. Using the contig-based approach novel primer pairs were determined and used in a total of 12 feral and 4 cultivated Cichorium samples. Results indicated that contig-based approach provided several advantages over the conventional methods. Results of the present study revealed that contig-based approach will increase the availability of polymorphic microsatellite markers which could allow the investigation of the genetic variability and population structure of Cichorium species and provide the information needed to design appropriate breeding strategies.
- 出版日期2012-4
