Proteomic profiling of rice embryos from a hybrid rice cultivar and its parental lines

Weiwei Wang, Bo Meng, Xiaomeng Ge, Shuhui Song, Yue Yang, Xiaomin Yu, Liguo Wang, Songnian Hu, Siqi Liu, Jun Yu

Research output: Contribution to journalArticlepeer-review

49 Scopus citations


Elite rice hybrids, when compared to their parental lines, exhibit increased yield and other favorable agronomical traits, such as pathogen- and water-stress resistances, which are described as heterosis, and the molecular mechanism of heterosis remains to be elucidated. Since genomic sequences of the paternal (9311) and maternal lines (P64S) of a major rice hybrid variety LYP9 (Liang-You-Pei-Jiu) were acquired recently, we performed a proteomic study on mature embryos of this hybrid triad based on 2-DE and MALDI-TOF MS analyses, and identified 54 differentially expressed proteins involved in major biological processes including nutrient reservoir, response to stress, and metabolism. We observed that most of the storage proteins exhibit overdominance and stress-induced proteins display additivity. We compared proteomic results with transcriptomic data generated from the same embryo samples and found 28 candidate heterosis-associated genes shared by the two datasets. We further traced back to their genomic structures including protein-coding and regulatory regions and found that most of these genes have multiple copies in rice genomes as paralogous genes. Based on alignment of coding and regulation regions, we found that most of the differentially expressed genes at both protein and RNA levels are recent gene duplicates (paralogous genes) with relative little difference in protein-coding regions between orthologous genes (between genes of the two parental genomes) as compared to regulatory regions that harbor numerous indels and base substitutions.

Original languageEnglish (US)
Pages (from-to)4808-4821
Number of pages14
Issue number22
StatePublished - Nov 2008


  • EST
  • Embryo
  • Heterosis
  • Regulatory element
  • Super-hybrid rice

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology


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