Genome-wide analysis and molecular dissection of the SPL gene family in Salvia miltiorrhiza

• Published in: Journal of integrative plant biology Vol. 56; no. 1; pp. 38 - 50
• Main Authors: Zhang, Linsu, Wu, Bin, Zhao, Degang, Li, Caili, Shao, Fenjuan, Lu, Shanfa
• Format: Journal Article
• Language: English
• Published: China (Republic : 1949- ) Blackwell Publishing Ltd 2014; Center for Research and Development of Fine Chemicals, Guizhou University, Guiyang 550025, China%Institute of Medicinal Plant Development, the Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100193, China
• Subjects: Amino Acid Motifs; Amino Acid Sequence; Arabidopsis; Arabidopsis - genetics; chemistry; Cloning, Molecular; Consensus Sequence; Conserved Sequence; Conserved Sequence - genetics; correlation; Gene Expression Profiling; gene expression regulation; Gene Expression Regulation, Developmental; Gene Expression Regulation, Plant; genes; Genes, Plant; Genes, Plant - genetics; genetics; Genome, Plant; Genome, Plant - genetics; growth and development; medicinal plants; metabolism; MicroRNAs; MicroRNAs - metabolism; miR156; miR172; molecular cloning; Molecular Sequence Data; Multigene Family; Oriental traditional medicine; Phylogeny; plant growth; Plant Proteins; Plant Proteins - chemistry; Plant Proteins - genetics; Promoter Regions, Genetic; Protein Binding; Protein Binding - genetics; Protein Structure, Tertiary; Reproducibility of Results; Salvia miltiorrhiza; Salvia miltiorrhiza - genetics; Sequence Analysis, DNA; SPL; SQUAMOSA promoter binding protein domain; SQUAMOSA promoter binding protein-likes; transcription factors; 中国传统医学; 丹参; 分子克隆; 基因家族; 基因组分析; 植物生长; 解剖; miR156; Salvia miltiorrhiza; miR172; SQUAMOSA promoter binding protein-likes; SQUAMOSA promoter binding protein domain
• ISSN: 1672-9072; 1744-7909; 1744-7909
• DOI: 10.1111/jipb.12111

SQUAMOSA promoter binding protein‐likes (SPLs) are plant‐specific transcription factors playing vital regulatory roles in plant growth and development. There is no information about SPLs in Salvia miltiorrhiza (Danshen), a significant medicinal plant widely used in Traditional Chinese medicine (TCM) for >1,700 years and an emerging model plant for TCM studies. Through genome‐wide identification and subsequent molecular cloning, we identified a total 15 SmSPLs with divergent sequence features, gene structures, and motifs. Comparative analysis showed sequence conservation between SmSPLs and their Arabidopsis counterparts. A phylogenetic tree clusters SmSPLs into six groups. Many of the motifs identified commonly exist in a group/subgroup, implying their functional redundancy. Eight SmSPLs were predicted and experimentally validated to be targets of miR156/157. SmSPLs were differentially expressed in various tissues of S. milltiorrhiza. The expression of miR156/157‐targeted SmSPLs was increased with the maturation of S. miltiorrhiza, whereas the expression of miR156/157 was decreased, confirming the regulatory roles of miR156/157 in SmSPLs and suggesting the functions of SmSPLs in S. miltiorrhiza development. The expression of miR156/157 was negatively correlated with miR172 during the maturation of S. miltiorrhiza. The results indicate the significance and complexity of SmSPL‐, miR156‐, and miR172‐mediated regulation of developmental timing in S. miltiorrhiza.