Campus Units
Agronomy, Genetics, Development and Cell Biology, Statistics, Genetics and Genomics, Center for Plant Genomics
Document Type
Article
Publication Version
Published Version
Publication Date
12-2010
Journal or Book Title
PloS ONE
Volume
5
Issue
12
First Page
e14178
DOI
10.1371/journal.pone.0014178
Abstract
To date, microarray-based genotyping of large, complex plant genomes has been complicated by the need to perform genome complexity reduction to obtain sufficiently strong hybridization signals. Genome complexity reduction techniques are, however, tedious and can introduce unwanted variables into genotyping assays. Here, we report a microarray-based genotyping technology for complex genomes (such as the 2.3 GB maize genome) that does not require genome complexity reduction prior to hybridization. Approximately 200,000 long oligonucleotide probes were identified as being polymorphic between the inbred parents of a mapping population and used to genotype two recombinant inbred lines. While multiple hybridization replicates provided ∼97% accuracy, even a single replicate provided ∼95% accuracy. Genotyping accuracy was further increased to >99% by utilizing information from adjacent probes. This microarray-based method provides a simple, high-density genotyping approach for large, complex genomes.
Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 License.
Copyright Owner
Fu et al.
Copyright Date
2010
Language
en
File Format
application/pdf
Recommended Citation
Fu, Yan; Springer, Nathan M.; Ying, Kai; Yeh, Cheng-Ting; Iniguez, A. Leonardo; Richmond, Todd; Wu, Wei; Barbazuk, Brad; Nettleton, Dan; Jeddeloh, Jeff; and Schnable, Patrick S., "High-Resolution Genotyping via Whole Genome Hybridizations to Microarrays Containing Long Oligonucleotide Probes" (2010). Statistics Publications. 199.
https://lib.dr.iastate.edu/stat_las_pubs/199
Included in
Agriculture Commons, Computational Biology Commons, Genomics Commons, Microarrays Commons, Plant Breeding and Genetics Commons
Comments
This article is published as Fu Y, Springer NM, Ying K, Yeh C-T, Iniguez AL, Richmond T, et al. (2010) High-Resolution Genotyping via Whole Genome Hybridizations to Microarrays Containing Long Oligonucleotide Probes. PLoS ONE 5(12): e14178. doi: 10.1371/journal.pone.0014178.