Development of EST-based new SSR markers in seabuckthorn
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EST-based SSR markers were developed by screening a collection of 1584 clustered ESTs of seabuckthorn (Hippophae rhamnoides). PCR primers were designed for the amplification of 30 microsatellite loci. Two to five allelic bands were displayed by nine primer pairs in H. rhamnoides genotypes and by eleven primer pairs in H. salicifolia genotypes. None of the thirty primer pairs detected polymorphism in H. tibetana genotypes. Considering the high polymorphism detected in the tested genotypes and their direct origin from the genic regions, these EST-SSR markers hold immense promise in seabuckthorn genome analysis, molecular breeding and population genetics.
KeywordsHippophae rhamnoides Expressed sequence tags Simple sequence repeats (SSRs) Cross-amplification
This research and AJ was supported by Defense Research and Development Organization (DRDO), India through a sponsored project (Project No. LSRB-146/FS/2008). RG thanks Indian Council of Medical Research (ICMR), India for financial support. Authors wish to thank Defense Institute of High Altitude Research (DIHAR), Leh, India for providing genotypes used in this study.
- Grover A, Sharma PC (2004) Occurrence of simple sequence repeats in potato ESTs is not random: An in silico study on distribution and length of simple sequence repeats. Potato J 31:95–102Google Scholar
- Grover A, Sharma PC (2007) Microsatellite motifs with moderate GC content are clustered around genes on Arabidopsis thaliana chromosome 2. In Silico Biol 7:0021Google Scholar
- Grover A, Jain A, Sharma PC (2010) Microsatellite markers: potential and opportunities in Medicinal plants. In: Arora R (ed) Medicinal plant biotechnology. (CAB International, Oxon, United Kingdom) (in press)Google Scholar
- Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols in the series methods in molecular biology. Humana, Totowa, pp 365–386Google Scholar
- Shi Z, Su B, Guo Y (1987) Mixed afforestation with Chinese pine and sea-buckthorn. Ningxia Agric Forest Sci Technol 5:54Google Scholar