Patent Document ID: 20150159217
Application ID: 14550805
Patent Flag: 0

Claim One:
1. A method for genotyping genetic markers in one or more samples, comprising the steps of: (a) reducing complexity of at least two nucleic acid samples using amplified fragment length polymorphism (AFLP) technology to produce at least two reproducible subsets of amplified adaptor-ligated restriction fragments from the at least two nucleic acid samples, wherein each reproducible subset comprises a unique identifier tag and wherein the AFLP technology uses primers having no selective nucleotides; (b) sequencing a pool of the at least two reproducible subsets of amplified adaptor-ligated restriction fragments using sequencing by synthesis on a solid support; (c) aligning the sequences of the reproducible subsets of amplified adaptor-ligated restriction fragments; (d) identifying AFLP and/or single-nucleotide polymorphism (SNP) markers within a selection of amplified adaptor-ligated restriction fragments that are sequenced with a redundancy of at least 6; and (e) determining dominant or co-dominant genotypes of the genetic markers in the selected amplified adaptor-ligated restriction fragments that are sequenced with the redundancy of at least 6.