Genomic Organization of the B3-Domain Transcription Factor Family in Grapevine ( Vitis vinifera L.) and Expression during Seed Development in Seedless and Seeded Cultivars

• Published in: International journal of molecular sciences Vol. 20; no. 18; p. 4553
• Main Authors: Ahmad, Bilal, Zhang, Songlin, Yao, Jin, Rahman, Mati Ur, Hanif, Muhammad, Zhu, Yanxun, Wang, Xiping
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 14.09.2019; MDPI
• Subjects: Abortion; Amino acid sequence; B3 superfamily; Bioinformatics; Chromosome Mapping; Chromosomes; Chromosomes, Plant - genetics; Chromosomes, Plant - metabolism; Conserved sequence; Cultivars; Deoxyribonucleic acid; DNA; expression analysis; Gene Expression Regulation, Plant; Genes; Genome, Plant; Genomes; Genomics; Germination - genetics; Grapes; Grapevines; Nucleotide sequence; ovule abortion; Phylogenetics; Phylogeny; Plant Proteins - genetics; Plant Proteins - metabolism; Promoter Regions, Genetic; Protein Domains - genetics; Proteins; Regulatory Elements, Transcriptional; Seeds; Seeds - metabolism; Synteny - genetics; transcription factor; Transcription factors; Transcription Factors - genetics; Transcription Factors - metabolism; Trees; Vitis - embryology; Vitis - genetics; Vitis - metabolism; Vitis vinifera; transcription factor; expression analysis; Vitis vinifera; B3 superfamily; ovule abortion
• ISSN: 1422-0067; 1661-6596; 1422-0067
• DOI: 10.3390/ijms20184553

Members of the plant-specific B3-domain transcription factor family have important and varied functions, especially with respect to vegetative and reproductive growth. Although B3 genes have been studied in many other plants, there is limited information on the genomic organization and expression of B3 genes in grapevine ( L.). In this study, we identified 50 B3 genes in the grapevine genome and analyzed these genes in terms of chromosomal location and syntenic relationships, intron-exon organization, and promoter element content. We also analyzed the presumed proteins in terms of domain structure and phylogenetic relationships. Based on the results, we classified these genes into five subfamilies. The syntenic relationships suggest that approximately half of the genes resulted from genome duplication, contributing to the expansion of the B3 family in grapevine. The analysis of element composition suggested that most of these genes may function in response to hormones, light, and stress. We also analyzed expression of members of the B3 family in various structures of grapevine plants, including the seed during seed development. Many B3 genes were expressed preferentially in one or more structures of the developed plant, suggesting specific roles in growth and development. Furthermore, several of the genes were expressed differentially in early developing seeds from representative seeded and seedless cultivars, suggesting a role in seed development or abortion. The results of this study provide a foundation for functional analysis of B3 genes and new resources for future molecular breeding of grapevine.