DNA FINGERPRINTING OF COCA LEAVES TO ESTABLISH COCA GENOTYPES
Sustainable Perennial Crops
2012 Annual Report
1a.Objectives (from AD-416):
Develop a set of standardized genetic markers for coca DNA that will make it possible to conclusively identify the different coca species in Colombia.
1b.Approach (from AD-416):
These coca leaf samples will be used for DNA and RNA extractions, as well as DNA and cDNA sequencing. Selected genes with unique regions from the resulting DNA and cDNA sequences will be used for identifying varietal and species differences. The project will look for short sequence repeats (SSRs) and single nucleotide polymorphism (SNPs) markers. Once identified these marker regions will be validated and screened for their ability to show varietal differences within the coca samples.
This interagency agreement provided funds to develop molecular markers and conduct the genetic diversity analysis of Erythroxylum species. Through this project new plant varieties were acquired and placed into the Beltsville, MD collection. Short sequence repeats or SSR markers were developed resulting in 15 primers that can separate both E.c.c. and E.n. varieties of Erythroxylum into separate groupings. An additional 30 primers were screened to add more differentiation power to the SSR analysis. In addition, 150 single nucleotide polymorphic or SNP primers were screened revealing 85 functional markers. These primers were validated for their ability to show differences within specific populations of coca plants. Both marker systems are now being compared for efficacy and cost. This information will be used by researchers and drug control specialists to understand the genetic diversity that exists within this plant species.