Department of Biotechnology, BMS Block I, Panjab University, Sector 25, Chandigarh, 160014, India.
BMC Plant Biol. 2024 Oct 24;24(1):999. doi: 10.1186/s12870-024-05736-8.
Brassica juncea (L.) Czern is an important oilseed crop affected by various abiotic stresses like drought, heat, and salt. These stresses have detrimental effects on the crop's overall growth, development and yield. Various Transcription factors (TFs) are involved in regulation of plant stress response by modulating expression of stress-responsive genes. The myeloblastosis (MYB) TFs is one of the largest families of TFs associated with various developmental and biological processes such as plant growth, secondary metabolism, stress response etc. However, MYB TFs and their regulation by non-coding RNAs (ncRNAs) in response to stress have not been studied in B. juncea. Thus, we performed a detailed study on the MYB TF family and their interactions with miRNAs and Long non coding RNAs.
Computational investigation of genome and proteome data presented a comprehensive picture of the MYB genes and their protein architecture, including intron-exon organisation, conserved motif analysis, R2R3 MYB DNA-binding domains analysis, sub-cellular localization, protein-protein interaction and chromosomal locations. Phylogenetically, BjuMYBs were further classified into different subclades on the basis of topology and classification in Arabidopsis. A total of 751 MYBs were identified in B. juncea corresponding to 297 1R-BjuMYBs, 440 R2R3-BjuMYBs, 12 3R-BjuMYBs, and 2 4R-BjuMYBs types. We validated the transcriptional profiles of nine selected BjuMYBs under drought stress through RT-qPCR. Promoter analysis indicated the presence of drought-responsive cis-regulatory components. Additionally, the miRNA-MYB TF interactions was also studied, and most of the microRNAs (miRNAs) that target BjuMYBs were involved in abiotic stress response and developmental processes. Regulatory network analysis and expression patterns of lncRNA-miRNA-MYB indicated that selected long non-coding RNAs (lncRNAs) acted as strong endogenous target mimics (eTMs) of the miRNAs regulated expression of BjuMYBs under drought stress.
The present study has established preliminary groundwork of MYB TFs and their interaction with ncRNAs in B. juncea and it will help in developing drought- tolerant Brassica crops.
芸薹属植物（ Brassica juncea （L.） Czern ）是一种重要的油料作物，受到干旱、高温和盐等各种非生物胁迫的影响。这些胁迫对作物的整体生长、发育和产量都有不利影响。各种转录因子（TFs）通过调节应激响应基因的表达来参与植物应激反应的调节。髓样细胞瘤（MYB）TFs 是与植物生长、次生代谢、应激反应等各种发育和生物学过程相关的最大 TF 家族之一。然而，MYB TFs 及其在响应胁迫时与非编码 RNA（ncRNA）的相互作用在芸薹属植物中尚未得到研究。因此，我们对 MYB TF 家族及其与 miRNAs 和长非编码 RNA 的相互作用进行了详细研究。
通过对基因组和蛋白质组数据的计算研究，呈现了 MYB 基因及其蛋白质结构的全面图景，包括内含子-外显子组织、保守基序分析、R2R3 MYB DNA 结合域分析、亚细胞定位、蛋白质-蛋白质相互作用和染色体位置。系统发育分析表明，根据拓扑结构和拟南芥的分类，BjuMYBs 进一步分为不同的亚群。在芸薹属植物中鉴定出 751 个 MYB，对应于 297 个 1R-BjuMYBs、440 个 R2R3-BjuMYBs、12 个 3R-BjuMYBs 和 2 个 4R-BjuMYBs 类型。通过 RT-qPCR 验证了 9 个选定的 BjuMYBs 在干旱胁迫下的转录谱。启动子分析表明存在干旱响应顺式调控元件。此外，还研究了 miRNA-MYB TF 相互作用，靶向 BjuMYBs 的大多数 microRNAs（miRNAs）参与非生物胁迫响应和发育过程。调控网络分析和 lncRNA-miRNA-MYB 的表达模式表明，所选的长非编码 RNA（lncRNA）在干旱胁迫下作为 miRNA 调控 BjuMYBs 表达的强内源性靶模拟物（eTMs）发挥作用。
本研究初步建立了芸薹属植物 MYB TFs 及其与 ncRNA 相互作用的基础，这将有助于培育耐旱的芸薹属作物。
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