title: Genome-Wide Identification and Expression Profile of Dof Transcription Factor Gene Family in Pepper (Capsicum annuum L.).
abstract: Dof (DNA-binding One Zinc Finger) transcription factor family is unique to plants and has diverse roles associated with plant-specific phenomena, such as light, phytohormone and defense responses as well as seed development and germination. Although, genome-wide analysis of this family has been performed in many species, information regarding Dof genes in the pepper, Capsicum annuum L., is extremely limited. In this study, exhaustive searches of pepper genome revealed 33 potential CaDofs that were phylogenetically clustered into four subgroups. Twenty-nine of the 33 Dof genes could be mapped on 11 chromosomes, except for chromosome 7. The intron/exon organizations and conserved motif compositions of these genes were also analyzed. Additionally, phylogenetic analysis and classification of the Dof transcription factor family in eight plant species revealed that S. lycopersicum and C. annuum as well as O. sativa and S. bicolor Dof proteins may have evolved conservatively. Moreover, comprehensive expression analysis of CaDofs using a RNA-seq atlas and quantitative real-time polymerase chain reaction (qRT-PCR) revealed that these genes exhibit a variety of expression patterns. Most of the CaDofs were expressed in at least one of the tissues tested, whereas several genes were identified as being highly responsive to heat and salt stresses. Overall, this study describes the first genome-wide analysis of the pepper Dof family, whose genes exhibited different expression patterns in all primary fruit developmental stages and tissue types, as in response to abiotic stress. In particular, some Dof genes might be used as biomarkers for heat and salt stress. The results could expand our understanding of the roles of Dof genes in pepper.
authors.affiliation: College of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering Guangzhou, China.
authors.forename: Zhiming
authors.initials: Z
authors.lastname: Wu
authors.affiliation: College of Horticulture, South China Agricultural University Guangzhou, China.
authors.forename: Jiaowen
authors.initials: J
authors.lastname: Cheng
authors.affiliation: College of Horticulture, South China Agricultural University Guangzhou, China.
authors.forename: Junjie
authors.initials: J
authors.lastname: Cui
authors.affiliation: Vegetable Research Institute, Guangdong Academy of Agricultural Sciences Guangzhou, China.
authors.forename: Xiaowan
authors.initials: X
authors.lastname: Xu
authors.affiliation: College of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering Guangzhou, China.
authors.forename: Guansheng
authors.initials: G
authors.lastname: Liang
authors.affiliation: Pepper Institute, Zunyi Academy of Agricultural Sciences Zunyi, China.
authors.forename: Xirong
authors.initials: X
authors.lastname: Luo
authors.affiliation: Pepper Institute, Zunyi Academy of Agricultural Sciences Zunyi, China.
authors.forename: Xiaocui
authors.initials: X
authors.lastname: Chen
authors.affiliation: Pepper Institute, Zunyi Academy of Agricultural Sciences Zunyi, China.
authors.forename: Xiangqun
authors.initials: X
authors.lastname: Tang
authors.affiliation: College of Horticulture, South China Agricultural University Guangzhou, China.
authors.forename: Kailin
authors.initials: K
authors.lastname: Hu
authors.affiliation: Pepper Institute, Zunyi Academy of Agricultural SciencesZunyi, China; Guizhou Provincial College-based Key Lab for Tumor Prevention and Treatment with Distinctive Medicines, Zunyi Medical UniversityZunyi, China.
authors.forename: Cheng
authors.initials: C
authors.lastname: Qin
keywords: DNA-binding one zinc finger; expression analysis; heat stress; pepper; phylogenetic analysis; salinity stress