Abstract
BackgroundNAC (NAM, ATAF1/2, and CUC2) transcription factors play an important role in plant growth and development. However, in tumorous stem mustard (Brassica juncea var. tumida), one of the economically important crops cultivated in southwest China and some southeast Asian countries, reports on the identification of NAC family genes are lacking. In this study, we conducted a genome-wide investigation of the NAC family genes in B. juncea var. tumida, based on its recently published genome sequence data.MethodsThe NAC genes were identified in B. juncea var. tumida using the bioinformatics approach on the whole genome level. Additionally, the expression of BjuNAC genes was analyzed under high- and low-temperature stresses by quantitative real-time PCR (qRT-PCR).ResultsA total of 300 BjuNAC genes were identified, of which 278 were mapped to specific chromosomes. Phylogenetic analysis of B. juncea var. tumida, Brassica rapa, Brassica nigra, rice and Arabidopsis thaliana NAC proteins revealed that all NAC genes were divided into 18 subgroups. Furthermore, gene structure analysis showed that most of the NAC genes contained two or three exons. Conserved motif analysis revealed that BjuNAC genes contain a conserved NAM domain. Additionally, qRT-PCR data indicated that thirteen BjuNAC genes with a varying degree of up-regulation during high-temperature stress. Conversely, four BjuNAC genes (BjuNAC006, BjuNAC083, BjuNAC170 and BjuNAC223) were up-regulated and two BjuNAC genes (BjuNAC074 and BjuNAC295) down-regulated under low temperature, respectively. Together, the results of this study provide a strong foundation for future investigation of the biological function of NAC genes in B. juncea var. tumida.
Highlights
Plant transcription factors are a group of regulators that inhibit the transcription rate of target genes by regulating their expression during plant growth and development to facilitate the response to various biotic and abiotic stresses
NAC transcription factors are named after no apical meristem (NAM) proteins found in Petunia hybrids (Souer et al, 1996), Arabidopsis transcription activation factor (ATAF1/2) proteins, and cup-shaped cotyledon (CUC2) proteins of Arabidopsis thaliana (Aida et al, 1997)
The redundant and non-NAM domaincontaining genes were removed by domain identification using the SMART and NCBI websites, and 300 BjuNAC genes were extracted for further analysis
Summary
Plant transcription factors are a group of regulators that inhibit the transcription rate of target genes by regulating their expression during plant growth and development to facilitate the response to various biotic and abiotic stresses Genome-wide identification and characterization of NAC genes in Brassica juncea var. Transcription factors form a transcriptional complex of regulatory genes by binding to DNA sequences or interacting with other proteins (Welner et al, 2015; Kim, Nam & Lim, 2016). The NAC (NAM, ATAF1/2, and CUC2) transcription factor family is one of the largest families of transcription factors in plants. NAC (NAM, ATAF1/2, and CUC2) transcription factors play an important role in plant growth and development. We conducted a genome-wide investigation of the NAC family genes in B. juncea var. The NAC genes were identified in B. juncea var. Conserved motif analysis revealed that BjuNAC genes contain a conserved NAM domain. The results of this study provide a strong foundation for future investigation of the biological function of NAC genes in B. juncea var. The results of this study provide a strong foundation for future investigation of the biological function of NAC genes in B. juncea var. tumida
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