How should I do a paternity test in a plant mapping population? I.e. to test if the progenies are or not from the parent. I'll appreciate it if anyone can recommend some literature.
Your quality results of the linkage and association analysis are based on the quality of your pedigree. You have to contrast that your pedigree is true. Not contrasted pedigrees could lead you to wrong results.
try with STR markers or SNPs for individual identification and perform the genealogic compatibility between your samples http://www.ncbi.nlm.nih.gov/pubmed/16360294