ORIGINAL RESEARCH article

Front. Plant Sci.

Sec. Plant Bioinformatics

Volume 16 - 2025 | doi: 10.3389/fpls.2025.1588362

This article is part of the Research TopicExploring Structural Variants in Plant Pangenomics: Innovations and ApplicationsView all 4 articles

Pan-Genome Analysis of the R2R3-MYB Genes Family in Brassica napus Unveils Phylogenetic Divergence and Expression Profiles under Hormone and Abiotic Stress Treatments

Provisionally accepted
Haiyan FanHaiyan Fan1Jiawei LiJiawei Li1*Wencong HuangWencong Huang1Aoshuang LiangAoshuang Liang1Liqing JingLiqing Jing2Jintao LiJintao Li2Qing-Yong YangQing-Yong Yang1Kede LiuKede Liu1Zhiquan YangZhiquan Yang3*
  • 1Huazhong Agricultural University, Wuhan, Hubei Province, China
  • 2Xinyang Normal University, Xinyang, Henan, China
  • 3Yazhouwan National Laboratory, Sanya, China

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The R2R3-MYB transcription factors (TFs) are pivotal regulators of plant growth, development, and stress responses. However, their genetic diversity and functional roles in Brassica napus remain underexplored at a pan-genome scale. Here, we systematically identified 7,552 R2R3-MYB genes from 18 B. napus genomes, which were grouped into 353 gene clusters based on the pan-genome approach, including 139 core, 121 softcore, 68 dispensable, and 25 private gene clusters. Core genes exhibited stronger purifying selection and higher expression levels compared to variable genes. Similar to Arabidopsis, the B. napus R2R3-MYB genes can be clustered into 29 subgroups based on the phylogenetic tree, suggesting conserved functional roles in B. napus and A. thaliana. Cis-element profiling highlighted enrichment in hormone-responsive and stress-related elements in the promoter regions of the R2R3-MYB genes. Transcriptomic analyses identified 283 hormone-responsive and 266 stress-responsive R2R3-MYB genes, and 30 co-regulated genes under drought and heat stress implicate their roles in combined stress adaptation. Besides, analysis of physicochemical and structural features of R2R3-MYB proteins revealed their conserved R2/R3 domain architecture. This study provides the first pan-genome resource for R2R3-MYB genes in B. napus, which can serve as pivotal targets for enhancing stress resilience in rapeseed breeding programs.

Keywords: R2R3-MYB, pan-genome analysis, phylogenetic relationship, plant hormones, abiotic stresses

Received: 05 Mar 2025; Accepted: 27 Apr 2025.

Copyright: © 2025 Fan, Li, Huang, Liang, Jing, Li, Yang, Liu and Yang. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence:
Jiawei Li, Huazhong Agricultural University, Wuhan, 430070, Hubei Province, China
Zhiquan Yang, Yazhouwan National Laboratory, Sanya, China

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