Transcription profiling of maize to evaluate target preparation methods for single-feature polymorphism detection in large complex plant genomes

ABSTRACT: We tested four gene enrichment and complexity reduction target preparation methods for scoring SFPs on the Affymetrix GeneChip 18k Maize Genome Array (“Maize GeneChip”). Methylation filtration (MF), Cot filtration (CF), mRNA-derived cRNA, and amplified fragment length polymorphism (AFLP) methods were applied to three diverse maize inbred lines (B73, Mo17, and CML69) with three replications per line (36 Maize GeneChips). Due to large amounts of repetitive, mobile DNA, the maize genome requires a target preparation method that offers both a high level of gene enrichment and accurate scoring of SFPs. The objectives of this research are (i) to determine which target preparation method (CF, MF, mRNA, or AFLP) optimally enriches for gene sequences complementary to probe sequences on the

ORGANISM(S): Zea mays

SUBMITTER: PLEXdb Curator Sudhansu Dash 

PROVIDER: E-GEOD-12770 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress