Transcriptome-wide identification and expression analysis of chrysanthemum SBP-like transcription factors

Aiping Song; Tianwei Gao; Dan Wu; Jingjing Xin; Sumei Chen; Zhiyong Guan; Haibin Wang; Lili Jin; Fadi Chen

doi:10.1016/j.plaphy.2016.02.009

Transcriptome-wide identification and expression analysis of chrysanthemum SBP-like transcription factors

Plant Physiol Biochem. 2016 May:102:10-6. doi: 10.1016/j.plaphy.2016.02.009. Epub 2016 Feb 8.

Authors

Aiping Song¹, Tianwei Gao², Dan Wu³, Jingjing Xin⁴, Sumei Chen⁵, Zhiyong Guan⁶, Haibin Wang⁷, Lili Jin⁸, Fadi Chen⁹

Affiliations

¹ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China; Jiangsu Province Engineering Lab for Modern Facility Agriculture Technology & Equipment, Nanjing, 210095, China. Electronic address: aiping_song@aliyun.com.
² College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China. Electronic address: 2014104101@njau.edu.cn.
³ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China. Electronic address: 2013104120@njau.edu.cn.
⁴ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China. Electronic address: 2014104098@njau.edu.cn.
⁵ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China. Electronic address: chensm@njau.edu.cn.
⁶ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China. Electronic address: guanzhy@njau.edu.cn.
⁷ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China. Electronic address: hb@njau.edu.cn.
⁸ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China. Electronic address: 14112317@njau.edu.cn.
⁹ College of Horticulture, Nanjing Agricultural University, Nanjing, 210095, China; Jiangsu Province Engineering Lab for Modern Facility Agriculture Technology & Equipment, Nanjing, 210095, China. Electronic address: chenfd@njau.edu.cn.

PMID: 26897115
DOI: 10.1016/j.plaphy.2016.02.009

Abstract

SQUAMOSA promoter-binding protein (SBP) transcription factors are known to function in a number of processes in plants. Here, we have characterized twelve SBP-like (SPL) genes in the important ornamental species chrysanthemum (Chrysanthemum morifolium). A total of twelve distinct sequences were isolated and amplified based on transcriptomic sequences. Phylogenetic analysis identified two pairs of orthologous proteins for Arabidopsis and chrysanthemum and two pairs of paralogous proteins in chrysanthemum. Conserved motifs in the SPL proteins shared by Arabidopsis and chrysanthemum were scanned using MEME. A bioinformatics analysis revealed that six of these genes contained a miR156 target site, while five CmSPLs were targeted by miR157. Moreover, we used 5' RLM-RACE to map the cleavage sites in CmSPL2 and CmSPL3. The expression of these twelve genes in response to a variety of phytohormone treatments and abiotic stresses was characterized. This work improves our understanding of the various functions of SPL gene family members in the stress response.

Keywords: Chrysanthemum morifolium; Phylogenetic analysis; SBP-box; Stress response; Transcription pattern.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Chrysanthemum / genetics
Chrysanthemum / metabolism*
Gene Expression Regulation, Plant / physiology*
MicroRNAs / biosynthesis
MicroRNAs / genetics
Plant Proteins / biosynthesis*
Plant Proteins / genetics
RNA, Plant / biosynthesis
RNA, Plant / genetics
Transcription Factors / biosynthesis*
Transcription Factors / genetics
Transcriptome / physiology*

Substances

MicroRNAs
Plant Proteins
RNA, Plant
Transcription Factors