title: Genome-wide analysis of the SBP-box gene family in Chinese cabbage (Brassica rapa subsp. pekinensis).
abstract: The SQUAMOSA PROMOTER BINDING PROTEIN (SBP)-box gene family contains highly conserved plant-specific transcription factors that play an important role in plant development, especially in flowering. Chinese cabbage (Brassica rapa subsp. pekinensis) is a leafy vegetable grown worldwide and is used as a model crop for research in genome duplication. The present study aimed to characterize the SBP-box transcription factor genes in Chinese cabbage. Twenty-nine SBP-box genes were identified in the Chinese cabbage genome and classified into six groups. We identified 23 orthologous and 5 co-orthologous SBP-box gene pairs between Chinese cabbage and Arabidopsis. An interaction network among these genes was constructed. Sixteen SBP-box genes were expressed more abundantly in flowers than in other tissues, suggesting their involvement in flowering. We show that the MiR156/157 family members may regulate the coding regions or 3'-UTR regions of Chinese cabbage SBP-box genes. As SBP-box genes were found to potentially participate in some plant development pathways, quantitative real-time PCR analysis was performed and showed that Chinese cabbage SBP-box genes were also sensitive to the exogenous hormones methyl jasmonic acid and salicylic acid. The SBP-box genes have undergone gene duplication and loss, evolving a more refined regulation for diverse stimulation in plant tissues. Our comprehensive genome-wide analysis provides insights into the SBP-box gene family of Chinese cabbage.
authors.affiliation: a State Key Laboratory of Crop Genetics and Germplasm Enhancement; Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture; College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Hua-Wei
authors.initials: HW
authors.lastname: Tan
authors.affiliation: a State Key Laboratory of Crop Genetics and Germplasm Enhancement; Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture; College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.|b Center of Genomics and Computational Biology, College of Life Sciences, North China University of Science and Technology, Tangshan 063000, China.
authors.forename: Xiao-Ming
authors.initials: XM
authors.lastname: Song
authors.affiliation: a State Key Laboratory of Crop Genetics and Germplasm Enhancement; Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture; College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Wei-Ke
authors.initials: WK
authors.lastname: Duan
authors.affiliation: a State Key Laboratory of Crop Genetics and Germplasm Enhancement; Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture; College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Wang
authors.affiliation: a State Key Laboratory of Crop Genetics and Germplasm Enhancement; Key Laboratory of Biology and Germplasm Enhancement of Horticultural Crops in East China, Ministry of Agriculture; College of Horticulture, Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Xi-Lin
authors.initials: XL
authors.lastname: Hou
mesh_terms: D017360:Arabidopsis / Q000235:genetics; D001937:Brassica / Q000235:genetics*; D002874:Chromosome Mapping; D019143:Evolution, Molecular; D020440:Gene Duplication; D020869:Gene Expression Profiling; D017343:Genes, Plant; D018745:Genome, Plant; D055106:Genome-Wide Association Study; D005810:Multigene Family; D010802:Phylogeny; D060888:Real-Time Polymerase Chain Reaction; D014157:Transcription Factors; D059467:Transcriptome
chemical_list: D014157:Transcription Factors
keywords: Brassica rapa; SBP-box gene family; analyse génomique; expression profile; famille de gènes SBP-box; genome-wide analysis; profil d’expression