Abstract
BackgroundTranscription factors GATAs are involved in plant developmental processes and respond to environmental stresses through binding DNA regulatory regions to regulate their downstream genes. However, little information on the GATA genes in Brassica napus is available. The release of the reference genome of B. napus provides a good opportunity to perform a genome-wide characterization of GATA family genes in rapeseed.ResultsIn this study, 96 GATA genes randomly distributing on 19 chromosomes were identified in B. napus, which were classified into four subfamilies based on phylogenetic analysis and their domain structures. The amino acids of BnGATAs were obvious divergence among four subfamilies in terms of their GATA domains, structures and motif compositions. Gene duplication and synteny between the genomes of B. napus and A. thaliana were also analyzed to provide insights into evolutionary characteristics. Moreover, BnGATAs showed different expression patterns in various tissues and under diverse abiotic stresses. Single nucleotide polymorphisms (SNPs) distributions of BnGATAs in a core collection germplasm are probably associated with functional disparity under environmental stress condition in different genotypes of B. napus.ConclusionThe present study was investigated genomic structures, evolution features, expression patterns and SNP distributions of 96 BnGATAs. The results enrich our understanding of the GATA genes in rapeseed.
Highlights
Transcription factors GATAs are involved in plant developmental processes and respond to environmental stresses through binding DNA regulatory regions to regulate their downstream genes
The results indicate that Brassica napus GATA (BnGATA) clustered into four subfamilies are significantly different with genetic structures and expression patterns, and which are more complex than the GATA Transcription factors (TFs) in A. thaliana
We found that BnGATA genes had a plentiful genetic variation of Single nucleotide polymorphisms (SNP) in a core collection of B. napus
Summary
Transcription factors GATAs are involved in plant developmental processes and respond to environmental stresses through binding DNA regulatory regions to regulate their downstream genes. Transcription factors (TFs) regulate gene expression by recognizing and combining cis-acting elements on the promoter regions of target genes [1]. TFs play key roles in plant developmental processes, hormones signaling pathways and disease resistance responses. Many studies have been proved that the GATA TFs are responsible for plant growth development, flowering, chlorophyll synthesis, greening and senescence. The cross-repressive interactions between GNC/GNL and MADS-box transcription factor SOC1 (Suppressor of Overexpression of Constans1) affect flowering time [12, 13]. Auxin response factors ARF2 and ARF7 can repress the expression of GNC and GNL genes [10,11,12, 14]. Over-expression of TaZIM-A1, a member of the GATA family, caused the delay of flowering and the decrease of thousand-kernel weight [17]
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