title: Genome-wide identification, characterization and expression analysis of the auxin response factor gene family in Vitis vinifera.
abstract: Our study has identified and analyzed the VvARF gene family that may be associated with the development of grape berry and other tissues. Auxin response factors (ARFs) are transcription factors that regulate the expression of auxin responsive genes through specific binding to auxin response elements (AuxREs). The ARF genes are represented by a large multigene family in plants. Until now, many ARF families have been characterized based on genome resources. However, there is no specialized research about ARF genes in grapevine (Vitis vinifera). In this study, a comprehensive bioinformatics analysis of the grapevine ARF gene family is presented, including chromosomal locations, phylogenetic relationships, gene structures, conserved domains and expression profiles. Nineteen VvARF genes were identified and categorized into four groups (Classes 1, 2, 3 and 4). Most of VvARF proteins contain B3, AUX_RESP and AUX_IAA domains. The VvARF genes were widely expressed in a range of grape tissues, and fruit had higher transcript levels for most VvARFs detected in the EST sources. Furthermore, analysis of expression profiles indicated some VvARF genes may play important roles in the regulation of grape berry maturation processes. This study which provided basic genomic information for the grapevine ARF gene family will be useful in selecting candidate genes related to tissue development in grapevine and pave the way for further functional verification of these VvARF genes.
authors.affiliation: Shanghai Key Laboratory of Bio-Energy Crops, School of Life Sciences, Shanghai University, Shanghai, 200444, People's Republic of China.
authors.forename: Sibao
authors.initials: S
authors.lastname: Wan
authors.forename: Weili
authors.initials: W
authors.lastname: Li
authors.forename: Yueying
authors.initials: Y
authors.lastname: Zhu
authors.forename: Zhanmin
authors.initials: Z
authors.lastname: Liu
authors.forename: Weidong
authors.initials: W
authors.lastname: Huang
authors.forename: Jicheng
authors.initials: J
authors.lastname: Zhan
mesh_terms: D002874:Chromosome Mapping; D032461:Chromosomes, Plant / Q000235:genetics; D019295:Computational Biology; D030561:Databases, Nucleic Acid; D005091:Exons / Q000235:genetics; D005638:Fruit / Q000235:genetics / Q000502:physiology; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D018745:Genome, Plant / Q000235:genetics*; D007210:Indoleacetic Acids / Q000378:metabolism*; D007438:Introns / Q000235:genetics; D005810:Multigene Family; D010802:Phylogeny; D010937:Plant Growth Regulators / Q000378:metabolism*; D010940:Plant Proteins / Q000235:genetics; D017434:Protein Structure, Tertiary; D027843:Vitis / Q000235:genetics* / Q000502:physiology
chemical_list: D007210:Indoleacetic Acids; D010937:Plant Growth Regulators; D010940:Plant Proteins