Nonsyntenic genes drive highly dynamic complementation of gene expression in Maize hybrids

Anja Paschold, Nicholas Larson, Caroline Marcon, James C. Schnable, Cheng Ting Yeh, Christa Lanz, Dan Nettleton, Hans Peter Piepho, Patrick S. Schnable, Frank Hochholdinger

Research output: Contribution to journalArticle

25 Citations (Scopus)

Abstract

Maize (Zea mays) 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 (SPE) pattern was detected for 2341 genes with up to 1287 SPE patterns per tissue. As a consequence, the number of active genes in hybrids exceeded that of their parents in each tissue by >400. SPE 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 SPE 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, SPE 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.

Original languageEnglish (US)
Pages (from-to)3939-3948
Number of pages10
JournalPlant Cell
Volume26
Issue number10
DOIs
StatePublished - Oct 1 2014

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single parents
Zea mays
Gene Expression
gene expression
corn
Genes
genes
Organ Specificity
Eukaryota
transcriptomics
inbred lines
eukaryotic cells
tissues
Genome
genomics
genetic variation
genome

ASJC Scopus subject areas

  • Plant Science
  • Cell Biology

Cite this

Paschold, A., Larson, N., Marcon, C., Schnable, J. C., Yeh, C. T., Lanz, C., ... Hochholdinger, F. (2014). Nonsyntenic genes drive highly dynamic complementation of gene expression in Maize hybrids. Plant Cell, 26(10), 3939-3948. https://doi.org/10.1105/tpc.114.130948

Nonsyntenic genes drive highly dynamic complementation of gene expression in Maize hybrids. / Paschold, Anja; Larson, Nicholas; Marcon, Caroline; Schnable, James C.; Yeh, Cheng Ting; Lanz, Christa; Nettleton, Dan; Piepho, Hans Peter; Schnable, Patrick S.; Hochholdinger, Frank.

In: Plant Cell, Vol. 26, No. 10, 01.10.2014, p. 3939-3948.

Research output: Contribution to journalArticle

Paschold, A, Larson, N, Marcon, C, Schnable, JC, Yeh, CT, Lanz, C, Nettleton, D, Piepho, HP, Schnable, PS & Hochholdinger, F 2014, 'Nonsyntenic genes drive highly dynamic complementation of gene expression in Maize hybrids', Plant Cell, vol. 26, no. 10, pp. 3939-3948. https://doi.org/10.1105/tpc.114.130948
Paschold, Anja ; Larson, Nicholas ; Marcon, Caroline ; Schnable, James C. ; Yeh, Cheng Ting ; Lanz, Christa ; Nettleton, Dan ; Piepho, Hans Peter ; Schnable, Patrick S. ; Hochholdinger, Frank. / Nonsyntenic genes drive highly dynamic complementation of gene expression in Maize hybrids. In: Plant Cell. 2014 ; Vol. 26, No. 10. pp. 3939-3948.
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