New statistical methods make genotyping faster and more cost effective


  • Chip Hunter - USDA-ARS CMAVE, Gainesville, FL


Mutant libraries are made using transposon insertion mutagenesis. Many of these have been characterized but in breeding it is necessary to determine if the mutation is wild-type, heterozygous or homozygous. This is often done with qPCR but the process is time-consuming and expensive. We are working with Chip Hunter to develop the statistical methods and software to pull down the mutation sites and sequence them in parallel. The project has required us to apply new statistical methods for the analysis of compositional count data to accurately predict genotype.