Genome-wide analysis of the MYB gene family in physic nut ( Jatropha curcas L.)

Abstract

The MYB proteins comprise one of the largest transcription factor families in plants, and play key roles in regulatory networks controlling development, metabolism, and stress responses. A total of 125 MYB genes (JcMYB) have been identified in the physic nut (Jatropha curcas L.) genome, including 120 2R-type MYB, 4 3R-MYB, and 1 4R-MYB genes. Based on exon-intron arrangement of MYBs from both lower (Physcomitrella patens) and higher (physic nut, Arabidopsis, and rice) plants, we can classify plant MYB genes into ten groups (MI-X), except for MIX genes which are nonexistent in higher plants. We also observed that MVIII genes may be one of the most ancient MYB types which consist of both R2R3- and 3R-MYB genes. Most MYB genes (76.8% in physic nut) belong to the MI group which can be divided into 34 subgroups. The JcMYB genes were nonrandomly distributed on its 11 linkage groups (LGs). The expansion of MYB genes across several subgroups was observed and resulted from genome triplication of ancient dicotyledons and from both ancient and recent tandem duplication events in the physic nut genome. The expression patterns of several MYB duplicates in the physic nut showed differences in four tissues (root, stem, leaf, and seed), and 34 MYB genes responded to at least one abiotic stressor (drought, salinity, phosphate starvation, and nitrogen starvation) in leaves and/or roots based on the data analysis of digital gene expression tags. Overexpression of the JcMYB001 gene in Arabidopsis increased its sensitivity to drought and salinity stresses.

Genome-Wide Identification and Comparative Analysis of MYB Transcription Factor Family in Musa acuminata and Musa balbisiana

“…All the intron-less genes were grouped into MXII. These findings are in accordance with previous investigations [32] that have explained the evolution of MYB genes in lower and higher plant species from a common pool of multiple MYB genes. The group MXII prospectively constitutes the most ancient MYB types [32].…”

“…These findings are in accordance with previous investigations [32] that have explained the evolution of MYB genes in lower and higher plant species from a common pool of multiple MYB genes. The group MXII prospectively constitutes the most ancient MYB types [32]. The basic structure of the MYB domain consists of almost 50 amino acids with three regularly spaced Trp (W) residues and three α-helices: H1, H2, and H3 [33].…”

“…Members of such groups are important candidates for species-specific functional investigations (Table 2). The phylogenetic results were consistent with recent reports [26,32,47] showing that various groups included more MYBs from Arabidopsis than M. acuminata, M. balbisiana, and O. sativa. These results are in accordance with the current information that Arabidopsis underwent more duplication events after divergence of the last common ancestor from these three close species.…”

Peer Review #2 of "Genome-wide characterization and expression analyses of the MYB superfamily genes during developmental stages in Chinese jujube (v0.1)"

“…Differences in the number of MYB genes among diverse species have been studied. For instance, 256 MYB genes were found in peach (Zhang & Ma et al, 2018), 177 in sweet orange (Citrus sinensis) (Hou et al, 2014) and 125 in physic nut (Zhou et al, 2015). According to previous studies, the MYB family is the largest TF family in jujube Song et al, 2017;Shao et al, 2017;Zhang & Ma et al, 2017), consistent with previous reports in Arabidopsis (Riechmann et al, 2000).…”

Effect of aluminum and fluoride on R2R3-MYB transcription factor characterization and expression in Camellia sinensis

“…The 3R-MYB group is also small, and its constituents function in cell cycle control (Ito 2005, Haga et al 2007. The 2R-type MYB genes constitute the largest plant subfamily and are thought to have evolved from the same ancestor as 3R-MYB genes (Zhou et al 2015). The R2R3-MYB is one of the largest families of MYB TF, which shared an R2R3 domain with 104 amino acid residues, including five conserved tryptophan residues.…”