Nonsyntenic Genes Drive Highly Dynamic Complementation of Gene Expression in Maize Hybrids

dc.contributor.author Paschold, Anja
dc.contributor.author Larson, Nick
dc.contributor.author Marcon, Caroline
dc.contributor.author Schnable, James
dc.contributor.author Yeh, Cheng-Ting
dc.contributor.author Lanz, Christa
dc.contributor.author Nettleton, Dan
dc.contributor.author Piepho, Hans-Peter
dc.contributor.author Schnable, Patrick
dc.contributor.author Hochholdinger, Frank
dc.contributor.department Statistics
dc.contributor.department Agronomy
dc.contributor.department Center for Plant Genomics
dc.date 2019-08-25T17:17:35.000
dc.date.accessioned 2020-07-02T06:57:16Z
dc.date.available 2020-07-02T06:57:16Z
dc.date.copyright Wed Jan 01 00:00:00 UTC 2014
dc.date.issued 2014-10-01
dc.description.abstract <p>Maize (<em>Zea mays</em>) displays an exceptional level of structural genomic diversity, which is likely unique among higher eukaryotes. In this study, we surveyed how the genetic divergence of two maize inbred lines affects the transcriptomic landscape in four different primary root tissues of their F1-hybrid progeny. An extreme instance of complementation was frequently observed: genes that were expressed in only one parent but in both reciprocal hybrids. This single-parent expression (<a href="http://www.plantcell.org/content/26/10/3939#def-3" id="x-x-x-xref-def-3-1">SPE</a>) pattern was detected for 2341 genes with up to 1287 <a href="http://www.plantcell.org/content/26/10/3939#def-3" id="x-x-x-xref-def-3-2">SPE</a> patterns per tissue. As a consequence, the number of active genes in hybrids exceeded that of their parents in each tissue by >400. <a href="http://www.plantcell.org/content/26/10/3939#def-3" id="x-x-x-xref-def-3-3">SPE</a>patterns are highly dynamic, as illustrated by their excessive degree of tissue specificity (80%). The biological significance of this type of complementation is underpinned by the observation that a disproportionally high number of <a href="http://www.plantcell.org/content/26/10/3939#def-3" id="x-x-x-xref-def-3-4">SPE</a> genes (75 to 82%) is nonsyntenic, as opposed to all expressed genes (36%). These genes likely evolved after the last whole-genome duplication and are therefore younger than the syntenic genes. In summary, <a href="http://www.plantcell.org/content/26/10/3939#def-3" id="x-x-x-xref-def-3-5">SPE</a> genes shape the remarkable gene expression plasticity between root tissues and complementation in maize hybrids, resulting in a tissue-specific increase of active genes in F1-hybrids compared with their inbred parents.</p>
dc.description.comments <p>This article is published as Paschold, Anja, Nick B. Larson, Caroline Marcon, James C. Schnable, Cheng-Ting Yeh, Christa Lanz, Dan Nettleton, Hans-Peter Piepho, Patrick S. Schnable, and Frank Hochholdinger. "Nonsyntenic genes drive highly dynamic complementation of gene expression in maize hybrids." <em>The Plant Cell</em> 26, no. 10 (2014): 3939-3948. doi: <a href="https://doi.org/10.1105/tpc.114.130948" target="_blank">10.1105/tpc.114.130948</a>. Copyright American Society of Plant Biologists. Posted with permission.</p>
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dc.identifier archive/lib.dr.iastate.edu/stat_las_pubs/219/
dc.identifier.articleid 1223
dc.identifier.contextkey 14884392
dc.identifier.s3bucket isulib-bepress-aws-west
dc.identifier.submissionpath stat_las_pubs/219
dc.identifier.uri https://dr.lib.iastate.edu/handle/20.500.12876/90531
dc.language.iso en
dc.source.bitstream archive/lib.dr.iastate.edu/stat_las_pubs/219/2014_Nettleton_NonsyntenicGenes.pdf|||Fri Jan 14 22:39:33 UTC 2022
dc.source.uri 10.1105/tpc.114.130948
dc.subject.disciplines Agronomy and Crop Sciences
dc.subject.disciplines Genomics
dc.subject.disciplines Plant Biology
dc.subject.disciplines Plant Breeding and Genetics
dc.subject.disciplines Statistical Models
dc.title Nonsyntenic Genes Drive Highly Dynamic Complementation of Gene Expression in Maize Hybrids
dc.type article
dc.type.genre article
dspace.entity.type Publication
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relation.isOrgUnitOfPublication fdd5c06c-bdbe-469c-a38e-51e664fece7a
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