Resource Type
Simple Sequence Repeats (SSR) polymorphism confirmation (Q. alba)
Program, Pipeline, Workflow or Method Name
SSR polymorphic test (Q. alba)
Program Version
Data Source
Date Performed
Thursday, August 16, 2018 - 15:28

John Carlson at Pennsylvania State University screened a subset of the above predicted SSRs.


Twelve white oaks were collected, consisting of the two parents of a mapping population and ten unrelated samples from the Pennsylvania State University arboretum (University Park, PA). DNA was extracted using a modified CTAB method, and DNA quality was assessed on 1% agarose gels. Species primer sets were tested against all collected genotypes within a species with a PCR reaction mixture containing between 4-6 ng DNA per reaction volume, and PCR cycles as follows: 95°C-5 min, 35 cycles of 95°C- 30s, 60°C-45s, 72°C-1 min, and a final 72°C-10 min. Both amplification and polymorphism were detected on 2% agarose gels stained with 0.05% (w/v) ethidium bromide. Polymorphism was estimated based on band width.


Of the 100 tested SSRs, 44 successfully amplified and 22 were found to be polymorphic.

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Biological Samples
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