Genome-Wide Identification of R2R3-MYB Transcription Factor and Expression Analysis under Abiotic Stress in Rice

Abstract

The myeloblastosis (MYB) family comprises a large group of transcription factors (TFs) that has a variety of functions. Among them, the R2R3-MYB type of proteins are the largest group in plants, which are involved in controlling various biological processes such as plant growth and development, physiological metabolism, defense, and responses to abiotic and biotic stresses. In this study, bioinformatics was adopted to conduct genome-wide identification of the R2R3-MYB TFs in rice. We identified 190 MYB TFs (99 R2R3-MYBs), which are unevenly distributed on the 12 chromosomes of rice. Based on the phylogenetic clustering and protein sequence characteristics, OsMYBs were classified into five subgroups, and 59.6% of the Os2R_MYB genes contained two introns. Analysis of cis-acting elements in the 2000 bp upstream region of Os2R_MYB genes showed that all Os2R_MYB genes contained plant hormones-related or stress-responsive elements since 91.9%, 79.8%, 79.8%, and 58.6% of Os2R_MYB genes contain ABRE, TGACG, CGTCA, and MBS motifs, respectively. Protein–protein network analysis showed that the Os2R_MYBs were involved in metabolic process, biosynthetic process, and tissue development. In addition, some genes showed a tissue-specific or developmental-stage-specific expression pattern. Moreover, the transcription levels of 20 Os2R_MYB genes under polyethylene glycol (PEG) and cadmium chloride (CdCl2) stress inducers were dissected by qRT-PCR. The results indicated genes with an altered expression upon PEG or CdCl2 stress induction. These results potentially supply a basis for further research on the role that Os2R_MYB genes play in plant development and stress responses.

Comparative transcriptome analysis and identification of candidate R2R3-MYB genes involved in anthraquinone biosynthesis in Rheum palmatum L.

“…6 ). The number of R2R3-MYB genes was lower than that of Arabidopsis (126) [ 39 ], rice (99) [ 40 ], impatiens (73) [ 41 ], Chrysanthemum nankingense (183) [ 42 ], and Casuarina equisetifolia (107) [ 43 ], but it was equivalent to the reported number in Morinda officinalis (51) [ 44 ] and Bothriochloa ischaemum (43) [ 45 ] (Fig. 7 ).…”

Characterization of HSP70 family in watermelon (Citrullus lanatus): identification, structure, evolution, and potential function in response to ABA, cold and drought stress

“…In this study, 12 ClHSP70s were identified in watermelon, which was similar to the number in cucumber (13) and grapevine (15), but less than that in tomato (19), maize (28) and rice (31) ( Figure 3 ; Supplementary Table S1 ). This difference may be related to their genome sizes or evolutionary diversities ( Sung et al, 2001 ; Zhang et al, 2015 ; Guo et al, 2016 ; Kang et al, 2022 ). Gene structure and phylogenetic tree were helpful to analyze the evolutionary relationship among genes( Wang et al, 2019 ).…”

Genome-Wide Identification and Expression Profiling of Glutathione S-Transferase Gene Family in Foxtail Millet (Setaria italica L.)

“…Gene structure is of great significance to the study of gene evolution [49]. The rearrangements and fusions of different chromosomal fragments may result in the gain or loss of an exon or intron, which play an important role in the diversification of multi-gene families [45].…”