Genome-wide identification and classification of MYB superfamily genes in peach

Zhang, Chunhua; Ma, Ruijuan; Xu, Jianlan; Yan, Juan; Guo, Lei; Song, Juan; Feng, Ruchao; Yu, Mingliang

doi:10.1371/journal.pone.0199192

Cited by 51 publications

(86 citation statements)

References 56 publications

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“…A large number of 1R-MYB proteins contain a single R repeat (R1/2 or R3) [47]. Based on their motifs, the 1R-MYBs are divided into five different sub-groups: R-R-MYB, CCA1-like, I-box-binding-like, CPC-like, and TBP-like [52,53]. They are involved in different basal processes, for example, regulation of the circadian clock and epidermal cell differentiation in A. thaliana, and binding telomeric DNA regions in Petroselinum crispum and Z. mays [54].…”

Section: The Myb Transcription Factorsmentioning

confidence: 99%

Radial or Bilateral? The Molecular Basis of Floral Symmetry

Lucibelli

Valoroso

Aceto

2020

Genes

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In the plant kingdom, the flower is one of the most relevant evolutionary novelties. Floral symmetry has evolved multiple times from the ancestral condition of radial to bilateral symmetry. During evolution, several transcription factors have been recruited by the different developmental pathways in relation to the increase of plant complexity. The MYB proteins are among the most ancient plant transcription factor families and are implicated in different metabolic and developmental processes. In the model plant Antirrhinum majus, three MYB transcription factors (DIVARICATA, DRIF, and RADIALIS) have a pivotal function in the establishment of floral dorsoventral asymmetry. Here, we present an updated report of the role of the DIV, DRIF, and RAD transcription factors in both eudicots and monocots, pointing out their functional changes during plant evolution. In addition, we discuss the molecular models of the establishment of flower symmetry in different flowering plants.

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Section: The Myb Transcription Factorsmentioning

confidence: 99%

Radial or Bilateral? The Molecular Basis of Floral Symmetry

Lucibelli

Valoroso

Aceto

2020

Genes

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“…Many transcription factors (TFs) have been identi ed through evolutionary analyses in peach, including AP2,WRKY, MYB, TCP, NAC, NF-Y, and SPL TFs [1][2][3][4][5][6]. However, the roles of GRFs remain unknown in peach.…”

Section: Introductionmentioning

confidence: 99%

Identification of peach growth regulating-factors and their expression under UVB

Sun

Meng

et al. 2020

Preprint

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Background: Growth-regulating factors (GRFs) are one of the most important plant-specific transcription factors with vital roles in multiple biological processes. GRFs have been identified in a variety of plant species, but a handful of research has addressed GRF genes in peach (Prunus persica).Results: Here, we report 46 members of the GRF family in four Rosaceae, divided into six subfamilies according to phylogeny, gene structure, and motif composition. We detected three collinear gene pairs generated from peach by whole-genome duplication or segmental duplication, but no tandem repeats were detected. Expression pattern analysis found that most PpGRFs were preferentially expressed in young tissues, At the sametime, multiple types cis-elements were observed in PpGRF promoters, and PpGRFs could positively respond to ultraviolet B-rays (UVB) and gibberellin (GA)treatments at the transcriptional level. Also, the content of GA3 and indole-3-acetic acid (IAA) changed significantly after UVB irradiation, indicating that GRFs might be involved in new shoot development in peach.Conclusions: This study identified 10 GRF genes in the peach genome and systematically analyzed their properties, thereby providing a foundation for researchers to have a better understanding of this gene family in peach. PpGRF 3, 4, 5, 6, 7, 9, and 10 positive responses to UVB and GA3 signals indicate that they can serve as candidate functional genes to further study how tree potential is regulated in peach.

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“…Corresponding genes were also identified in human tumor cells (A-MYB and B-MYB) at the same time and these genes were found to modulate cell proliferation, differentiation, and apoptosis (Weston, 1998). The first identified MYB gene of a plant was C1, Peach protein sequences and the genome location of each MYB gene and the length of each chromosome were downloaded from the phytozome database (https://phytozome.jgi.doe.gov/) (Zhang & Ma et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

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

2019

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The MYB transcription factor superfamily, one of the largest gene superfamilies, regulates a variety of physiological processes in plants. Although many MYB superfamily genes have been identified in plants, the MYB TFs in Chinese jujube (Ziziphus jujuba Mill.) have not been fully identified and characterized. Additionally, the functions of these genes remain unclear. In total, we identified 171 MYB superfamily genes in jujube and divided them into 5 subfamilies containing 99 genes of the R2R3-MYB subfamily, 58 genes of the MYBrelated subfamily, 4 genes of the R1R2R3-MYB subfamily, 1 gene of the 4R-MYB subfamily, and 9 genes of the atypical MYB subfamily. The 99 R2R3-MYB genes of jujube were divided into 35 groups, C1 to C35, and the 58 MYB-related genes were divided into the following groups: the R-R-type, CCA1-like, I-box-binding-like, TBP-like, CPC-like, and Chinese jujubespecific groups. ZjMYB genes in jujube were well supported by additional highly conserved motifs and exon/intron structures. Most R1 repeats of MYB-related proteins comprised the R2 repeat and had highly conserved EED and EEE residue groups in jujube. Three tandem duplicated gene pairs were found on twelve chromosomes in jujube. According to an expression analysis of 126 ZjMYB genes, MYB-related genes played important roles in jujube development and fruit-related biological processes. The total flavonoid content of jujube fruit decreased as ripening progressed. Ninety-three expressed genes were identified in the RNA-sequencing data from jujube fruit, and 56 ZjMYB members presented significant correlations with total flavonoid contents by correlation analysis. Five pairs of paralogous MYB genes within jujube were composed of 9 jujube MYB genes. Fourteen ZjMYB genes had the same homology to the MYB genes of Arabidopsis and peach, indicating that these 14 MYB genes and their orthologs probably existed before the ancestral divergence of the MYB superfamily. We used a synteny analysis of MYB genes between jujube and Arabidopsis to predict that the functions of the ZjMYBs involve

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Genome-wide identification and classification of MYB superfamily genes in peach

Cited by 51 publications

References 56 publications

Radial or Bilateral? The Molecular Basis of Floral Symmetry

Radial or Bilateral? The Molecular Basis of Floral Symmetry

Identification of peach growth regulating-factors and their expression under UVB

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

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