MYB Transcription Factor Family in Sweet Cherry (Prunus avium L.): Genome-wide Investigation, Evolution, Structure, Characterization and Expression Patterns

Abstract

Back groundMYB Transcription factors (TFs) are most imperative and largest gene family in plants, which participate in development, metabolism, defense, differentiation and stress response. The MYB TFs has been studied in various plant species. However, comprehensive studies of MYB gene family in the sweet cherry (Prunus avium L.) are still unknown. ResultsIn the current study, a total of 69 MYB genes were investigated from sweet cherry genome and classified into 28 subfamilies (C1-C28 based on phylogenetic and structural analysis). Microcollinearity analysis revealed that dispersed duplication (DSD) and whole-genome duplication (WGD) events might play an important role in the expansion of the MYB genes family. Chromosomal localization, the synonymous (Ks) and nonsynonymous (Ka) analysis, molecular characteristics (pI, weight and length of amino acids) and subcellular localization were accomplished using several bioinformatics tools. Moreover, different subfamilies contained different cis-acting elements, conserved motifs analysis and introns-exons structures, representing functional divergence in the MYB family. Subsequently, the transcriptomic data exposed that MYB genes might play vital role in bud dormancy. Subsequently, the quantitative real-time qRT-PCR was carried out and the expression pattern indicated that MYB genes significantly expressed in floral bud as compared to flower and fruit. ConclusionOur comprehensive findings provide supportive insights into the evolutions, expansion complexity and functionality of PavMYB genes. These PavMYB genes should be further investigated as they seem to be brilliant candidates for dormancy manipulation in sweet cherry.

Genome-wide identification, classification and expression analysis of MYB gene family in coconut (Cocos nucifera L.)

“…It is worth noting that within the same subfamily, the exon/ intron patterns of R2R3-CnMYB genes showed remarkable, with the majority of genes having no more than two introns. This finding aligns with previous research that also observed the presence of a maximum of two introns in most plant R2R3-MYB genes (Sabir et al, 2022;Yin et al, 2022). Furthermore, we analyzed the motif compositions of CnMYB proteins.…”

“…Our findings revealed that the majority of MYB proteins contained motifs 1, 2, 3, 4, 5, and 6 (Figure 4), while most MYB proteins contained motifs 1, 3, 5, and 8 in Dendrobium catenatum (Zhang et al, 2021). The majority of MYB genes, included several motifs (1, 2, 3, 4, and 5) in Prunus avium (Sabir et al, 2022). These motifs were conserved within specific subgroups, and proteins in the same subgroup that share these motifs likely (Qin et al, 2023).…”

Genome-wide identification of myeloblastosis gene family and its response to cadmium stress in Ipomoea aquatica

“…As TFs, MYB proteins are mostly localized in the nucleus, where they play a crucial role in regulating downstream gene expression. Nevertheless, some MYB proteins were localized in the cytoplasm, mitochondria, or endoplasmic reticulum, and their roles in these organelles need to be further elucidated (Avila et al, 1993;Zhang et al, 2021;Sabir et al, 2022). Our results showed that all IaMYB proteins were localized in the nucleus.…”

Transcriptome-wide identification of walnut PP2C family genes in response to external stimulus

“…The loss/gain of intron position and length is slow, so intron positions can often retain information about gene homology [41]. Many studies of exon/ intron structure have shown that most members in the same subfamily have similar exon numbers and different exon and intron lengths [42,43]. In this study, we found that the number of exons/introns in group A, B, and C was exactly equal, and most of the gene structures in group F, G, and H were similar, while some genes (such as JrPP2C04, JrPP2C07, and JrPP2C41) are quite different from other genes (such as JrPP2C37, JrPP2C19, and JrPP2C25) (Figs.…”