High-Resolution Genotyping via Whole Genome Hybridizations to Microarrays Containing Long Oligonucleotide Probes

dc.contributor.author Fu, Yan
dc.contributor.author Nettleton, Dan
dc.contributor.author Springer, Nathan
dc.contributor.author Ying, Kai
dc.contributor.author Yeh, Cheng-Ting
dc.contributor.author Iniguez, A. Leonardo
dc.contributor.author Richmond, Todd
dc.contributor.author Wu, Wei
dc.contributor.author Barbazuk, Brad
dc.contributor.author Nettleton, Dan
dc.contributor.author Jeddeloh, Jeff
dc.contributor.author Schnable, Patrick
dc.contributor.department Statistics
dc.contributor.department Agronomy
dc.contributor.department Genetics, Development and Cell Biology
dc.contributor.department Genetics and Genomics
dc.contributor.department Center for Plant Genomics
dc.date 2019-08-23T22:43:34.000
dc.date.accessioned 2020-07-02T06:57:08Z
dc.date.available 2020-07-02T06:57:08Z
dc.date.copyright Fri Jan 01 00:00:00 UTC 2010
dc.date.issued 2010-12-01
dc.description.abstract <p>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.</p>
dc.description.comments <p>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: <a href="https://doi.org/10.1371/journal.pone.0014178">10.1371/journal.pone.0014178</a>.</p>
dc.format.mimetype application/pdf
dc.identifier archive/lib.dr.iastate.edu/stat_las_pubs/199/
dc.identifier.articleid 1204
dc.identifier.contextkey 14841665
dc.identifier.s3bucket isulib-bepress-aws-west
dc.identifier.submissionpath stat_las_pubs/199
dc.identifier.uri https://dr.lib.iastate.edu/handle/20.500.12876/90508
dc.language.iso en
dc.source.bitstream archive/lib.dr.iastate.edu/stat_las_pubs/199/2010_Nettleton_HighResolution.PDF|||Fri Jan 14 22:01:00 UTC 2022
dc.source.uri 10.1371/journal.pone.0014178
dc.subject.disciplines Agriculture
dc.subject.disciplines Computational Biology
dc.subject.disciplines Genomics
dc.subject.disciplines Microarrays
dc.subject.disciplines Plant Breeding and Genetics
dc.title High-Resolution Genotyping via Whole Genome Hybridizations to Microarrays Containing Long Oligonucleotide Probes
dc.type article
dc.type.genre article
dspace.entity.type Publication
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