Fluidigm Europe has released a technical poster describing how the EP1 system provides an ideal solution for high sample throughput SNP genotyping in animals and plants.
Typically, genetic applications start with the collection of DNA samples.
Blood samples are expensive to collect, as well as complex and costly to ship, store and process.
Hair follicles and ear punches are inefficient to process and can provide low-quality DNA, resulting in failed samples and a requirement to recollect, incurring additional cost, effort and time.
The authors describe how the Fluidigm EP1 system and Dynamic Array Integrated Fluidic Circuits (IFCs) were used to genotype 48 cattle nasal samples in duplicate tested against a 96 SNP parentage panel developed by a USDA-led cattle consortium.
The nasal swab samples were obtained using the Performagene Livestock kit from DNA Genotek.
The SNP genotyping results show 99.3 per cent call rates and 100 per cent concordance using the cattle samples as described.
The SNP genotyping results were obtained in less than half a day and with only minutes of actual hands-on time.
The researchers conclude that Fluidigm's Dynamic Array IFC and EP1 System provide a rapid, high-throughput method of producing high-quality SNP genotyping cattle data.
Fluidigm dynamic arrays deliver high efficiency and throughout for real-time PCR and genotyping applications.
The dynamic array eliminates the endless liquid transfer steps to set each data point.
Dynamic arrays have an on-chip network of channels, chambers, and valves that automatically assemble the PCR reactions.
Each 96.96 Dynamic Array IFC is capable of running 96 samples against 96 SNP assays generating a total of 9,216 genotypes.
Fluidigm's EP1 system provides good data quality, a fast and easy workflow, and cost savings for SNP genotyping studies.
The system delivers high quality SNP genotyping results with better than 99 per cent call rates and 99.75 per cent or greater accuracy.
All of this is achieved with an easy-to-use, high-throughput workflow that can provide up to 9,216 data points per IFC chip with results in four hours of mostly machine time.
The EP1 system, which includes the IFC controller, stand-alone thermal cycler and EP1 reader, provides more than 27,000 genotypes a day.
By adding more IFC controllers and thermal cyclers to be used in conjunction with a single EP1 reader, laboratories can generate more than 200,000 genotypes in a day.
