Identification, Molecular Characteristics, and Evolution of YABBY Gene Family in Melastoma dodecandrum

Abstract

The YABBY gene family plays an important role in plant growth and development, such as response to abiotic stress and lateral organ development. YABBY TFs are well studied in numerous plant species, but no study has performed a genome-wide investigation of the YABBY gene family in Melastoma dodecandrum. Therefore, a genome-wide comparative analysis of the YABBY gene family was performed to study their sequence structures, cis-acting elements, phylogenetics, expression, chromosome locations, collinearity analysis, protein interaction, and subcellular localization analysis. A total of nine YABBY genes were found, and they were further divided into four subgroups based on the phylogenetic tree. The genes in the same clade of phylogenetic tree had the same structure. The cis-element analysis showed that MdYABBY genes were involved in various biological processes, such as cell cycle regulation, meristem expression, responses to low temperature, and hormone signaling. MdYABBYs were unevenly distributed on chromosomes. The transcriptomic data and real-time reverse transcription quantitative PCR (RT-qPCR) expression pattern analyses showed that MdYABBY genes were involved in organ development and differentiation of M. dodecandrum, and some MdYABBYs in the subfamily may have function differentiation. The RT-qPCR analysis showed high expression of flower bud and medium flower. Moreover, all MdYABBYs were localized in the nucleus. Therefore, this study provides a theoretical basis for the functional analysis of YABBY genes in M. dodecandrum.

Molecular Characterization and Expression Analysis of YABBY Genes in Chenopodium quinoa

“…This was further supported by their promoter analysis, in which many stress-response elements were revealed, such as MYB, MYC, STRE, ARE, LTR, and W-box (Figure 4D). Same or similar cis-regulatory elements were also discovered in the YABBY genes from other species [68,72,74], suggesting that these YABBY genes have a conserved function in stress response; however, the underlying molecular mechanism remains elusive. Therefore, the determination of the YABBY downstream targets or interactors in the stress response pathway could help improve the defensive traits in quinoa and other crops.…”

“…In addition, expression profile analyses showed that the YABBY genes responded to cold, heat, salt, and drought stresses in stiff brome (Brachypodium distachyon) [68], wheat [39], pak-choi (Brassica rapa ssp. chinensis) [69], common bean (Phaseolus vulgaris) [70], lotus (Nelumbo nucifera) [71], upland cotton (Gossypium hirsutum) [55], twelve stamen Melastoma (Melastoma dodecandrum) [72], and balloon flower (Platycodon grandiflorus) [73]. We assessed the 12 CqYAB genes under salt, drought, and Cd stresses, and found that most CqYAB genes were upregulated under salt and drought stresses but were downregulated under Cd stress.…”

The Genome-Level Survey of the WOX Gene Family in Melastoma dodecandrum Lour.

“…Melastoma dodecandrum Lour. is a creeping shrub widely distributed across southern China [7][8][9]. A pioneer species is a type of plant, fungus, or organism that is among the first to colonize or inhabit a newly formed or disturbed habitat [10].…”