Abstract
Dof (DNA binding with one finger) proteins play important roles in plant development and defense regulatory networks. In the present study, we report a genome-wide analysis of rose Dof genes (RchDof), including phylogenetic inferences, gene structures, chromosomal locations, gene duplications, and expression diversity. A total of 24 full-length RchDof genes were identified in Rosa chinensis, which were assigned to nine distinct subgroups. These RchDof genes were unevenly distributed on rose chromosomes. The genome-scale analysis of synteny indicated that segmental duplication events may have played a major role in the evolution of the RchDof gene family. Analysis of cis-acting elements revealed putative functions of Dofs in rose during development as well as under numerous biotic and abiotic stress conditions. Moreover, the expression profiles derived from qRT-PCR experiments demonstrated distinct expression patterns in various tissues, and gene expression divergence existed among the duplicated RchDof genes, suggesting a fundamentally functional divergence of the duplicated Dof paralogs in rose. The gene expression analysis of RchDofs under drought and salt stress conditions was also performed. The present study offered novel insights into the evolution of RchDofs and can aid in the further functional characterization of its candidate genes.
Highlights
Plants have developed diverse molecular mechanisms to survive against various types of biotic and abiotic stress conditions
We identified 24 non-redundant RchDof genes and named them as RchDof1 to RchDof24 based on the order of the gene IDs (Supplementary Table 2)
The detailed information of these RchDof genes regarding the type of genes and the Dof domains is shown in Supplementary Table 2 and Figure 1
Summary
Plants have developed diverse molecular mechanisms to survive against various types of biotic and abiotic stress conditions. Numerous transcription factors have been identified in plants, which confer tolerance to a broad range of stress conditions. They are important regulators for adjusting gene expression by binding to specific DNA sequences at their promoter region (Wray et al, 2003). The Dof (DNA binding with one finger) gene family is one of the plant-specific transcription factors that is widespread in higher plants. The Dof gene family contains a highly conserved Dof domain at the N-terminus of approximately 52 residues in length. The Dof domain has a C2–C2 finger structure (CX2CX21CX2C) that can bind to a core sequence (AT/AAAAG) in plant gene
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