SNP Mining from Maize 454 EST Sequences
- 1Donald Danforth Plant Science Center, St. Louis, MO 63132, USA
- 2Bioinformatics and Computational Biology, Iowa State University, Ames, IA 50011, USA
- 3Department of Agronomy; Department of Genetics, Development, and Cell Biology; and Center for Plant Genomics; Iowa State University, Ames, IA 50011, USA
- ↵4Corresponding author (bbarbazuk{at}danforthcenter.org)
INTRODUCTION
In this protocol, 454 expressed sequence tags (ESTs) are generated by sequencing shoot apical meristem (SAM) cDNA from maize inbred lines on the 454 Life Sciences GS-20 sequencing system. The computational tool PolyBayes (Marth et al. 1999) is then used to identify single-nucleotide polymorphisms (SNPs). PolyBayes has been used successfully to identify SNPs in many different systems, including maize, and is particularly recommended for identifying SNPs in 454 sequences.
