Genome-wide and expression analysis of B-box gene family in pepper

Abstract

Background BBX transcription factors are a kind of zinc finger transcription factors with one or two B-box domains, which partilant in plant growth, development and response to abiotic or biotic stress. The BBX family has been identified in Arabidopsis, rice, tomato and some other model plant genomes. Results Here, 24 CaBBX genes were identified in pepper (Capsicum annuum L.), and the phylogenic analysis, structures, chromosomal location, gene expression patterns and subcellular localizations were also carried out to understand the evolution and function of CaBBX genes. All these CaBBXs were divided into five classes, and 20 of them distributed in 11 of 12 pepper chromosomes unevenly. Most duplication events occurred in subgroup I. Quantitative RT-PCR indicated that several CaBBX genes were induced by abiotic stress and hormones, some had tissue-specific expression profiles or differentially expressed at developmental stages. Most of CaBBX members were predicated to be nucleus-localized in consistent with the transient expression assay by onion inner epidermis of the three tested CaBBX members (CaBBX5, 6 and 20). Conclusion Several CaBBX genes were induced by abiotic stress and exogenous phytohormones, some expressed tissue-specific and variously at different developmental stage. The detected CaBBXs act as nucleus-localized transcription factors. Our data might be a foundation in the identification of CaBBX genes, and a further understanding of their biological function in future studies.

Genome-Wide Identification and Analysis of the BBX Gene Family and Its Role in Carotenoid Biosynthesis in Wolfberry (Lycium barbarum L.)

“…The full-length amino acid sequences were used to construct a phylogenetic tree by the maximum likelihood (ML) method using IQ-TREE. As shown in Figure 1 a, the LbaBBX family was divided into five subgroups, consistent with previous studies of the gene family in tomato, pepper, and Arabidopsis [ 25 , 26 , 30 ]. We found that LbaBBX proteins assigned to the same group possess similar domain organizations.…”

“…The BBX gene family has recently been identified in many higher plants, such as Arabidopsis , tomato, and pepper [ 7 , 25 , 26 ]. The quantity of BBX genes varies among species.…”

“…The quantity of BBX genes varies among species. For example, 32 BBX genes were identified in Arabidopsis [ 7 ], 31 in tomato [ 25 ], 24 in pepper [ 26 ], and 30 in potato [ 33 ]. In this study, 28 LbaBBX genes were identified in the wolfberry genome.…”

“…Two R2R3-MYB family members, LbaMYB26 ( Lba02g01219 ) and LbaMYB123 ( Lba11g01830 ), are candidate genes involved in the regulation of carotenoid biosynthesis in L. barbarum fruits [ 24 ]. The BBX gene family has been identified and evaluated in many plant species, such as Solanum lycopersicum [ 25 ], Capsicum annuum [ 26 ], Iris germanica [ 27 ], Prunus avium [ 28 ], Vitis Vinifera [ 29 ], and Arabidopsis thaliana [ 30 ], and has diverse functions. Our understanding of the functions of the BBX gene family, such as roles in responses to biotic and abiotic stresses and secondary metabolite biosynthesis, has advanced.…”

Genome-Wide Survey and Expression Analysis of B-Box Family Genes in Cucumber Reveal Their Potential Roles in Response to Diverse Abiotic and Biotic Stresses

“…Therefore, it is quite necessary to excavate more potential resistance genes and define their functional roles in the stress resistance of cucumber. BBXs have been identified and functionally characterized in many plants, where they are generally encoded by a multigene family, such as Arabidopsis thaliana [3], Oryza sativa [31], Solanum tuberosum [32], Malus domestica [33], Dendrobium officinale [34], Phyllostachys edulis [35], Vitis vinifera [36][37][38], and Capsicum annuum [39,40]. In addition, a recent study identified 26 cucumber BBX genes and found that some of them are associated with fruit development and carotenoid biosynthesis [41].…”