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Transcriptome-based analysis of the ARF gene family of Narcissus tazetta ‘Huanghua 2’(PDF)

Chinese Journal of Applied & Environmental Biology[ISSN:1006-687X/CN:51-1482/Q]

2019 03
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Transcriptome-based analysis of the ARF gene family of Narcissus tazetta ‘Huanghua 2’
LI Quanchao LIU Yang XIAO Yaoyu LI Ling YANG Zhengfan & CHEN Xiaojing**
College of Horticulture, Fujian Agriculture and Forestry University, Fuzhou 350002, China
Narcissus transcriptome sequencing ARF family bioinformatics analysis expression analysis

Auxin Response Factors (AFRs) play important roles in regulating the expression of auxin-responsive genes during plant growth and development. To understand the genes in the ARF family of Narcissus tazetta ‘Huanghua 2’ using transcriptome data, the NR, NT, Swiss-Prot, PFAM, and NCBI websites and the online software SMART were used to simultaneously annotate and screen the ARF family genes of this plant. The ExPASy-ProtParam tool, SOPMA, Prot Comp, MEME, MAGA, and Heml software packages were used to analyze the physical and chemical properties of the amino acid sequences and the secondary structure, subcellular localization, and conservative motifs of the proteins encoded by these genes, as well as the phylogenetic trees and expression patterns of these genes in bulblets at different stages of germination. The results of screening found 21 ARF family genes in Narcissus. Bioinformatics analyses showed that 12 full-length ARF proteins were encoded by these genes, which ranged from 193 to 1 096 aa in length, with predicted molecular weights (Mr) varying from 20.46 to 122.2 and isoelectric points ranging from 5.19 to 7.97. All of these were unstable hydrophilic proteins, and they were predicted to be subcellularly localized in the nucleus. Evolutionary trees and motifs analysis showed that the 21 NtARF proteins were divided into three groups. Group III could be further divided into three subgroups, and the similarly branching ARF transcription factors all had the same or similar motifs. The proteins NtARF8, NtARF13, NtARF15, NtARF17, and NtARF21 all showed higher expression levels than others, and thus may promote the germination of small bulblets by positively regulating their content of auxins. This study indicated that the NtARF family may play an important role in the propagation of Narcissus by cuttings, and laid the foundation for further studies of the functions of genes in the ARF family of Narcissus.


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Last Update: 2019-06-25