Department of Plant Breeding and Biotechnology (PBB), Faculty of Agriculture, University of Zabol, Postal Code: 9861753557, Zabol, Iran.
Laboratory of Computational Biotechnology and Bioinformatics (CBB), Department of Bioinformatics, University of Zabol, Zabol, Iran.
Sci Rep. 2024 Nov 16;14(1):28331. doi: 10.1038/s41598-024-79890-2.
Yaghooti grape, as the earliest grape variety in Iran, is considered as more resistant to heat, drought, and salinity than other cultivars. Cluster compactness is regarded as an inappropriate feature for the productivity of Yaghooti grape as a critical commercial and nutritional product. In plants, lncRNAs play a critical role in regulating biological processes related to growth and development. However, the potential role of lncRNAs was not assessed in cluster compactness. Totally, 1549 lncRNAs were identified by RNA-Seq data analysis in three steps of cluster formation, berry formation, and final cluster size after a thorough screening process. In addition, 229 lncRNAs were differentially expressed in the cluster development steps. Based on the functional analysis, lncRNAs are related to AG and MYB, bHLH, LBD, NAC, and WRKY TFs. Further, the target genes enrichment analysis revealed a relationship between lncRNAs with grape growth and development, as well as resistance to abiotic stresses such as heat and drought, plant defense against pathogens, and early grapes ripening. The study identified four lncRNAs as precursors of miRNAs, predicting that 112 other lncRNAs could potentially be targeted by 166 miRNAs. The results provide new insights into the regulatory functions of lncRNAs in Yaghooti grape to improve overall understanding of the molecular mechanisms related to grape compactness.
耶高特葡萄是伊朗最早的葡萄品种，被认为比其他品种更能耐热、耐旱和耐盐。葡萄串的紧凑性被认为是耶高特葡萄作为一种重要的商业和营养产品的生产力的一个不合适的特征。在植物中，lncRNAs 在调节与生长和发育相关的生物过程中起着关键作用。然而，lncRNAs 的潜在作用在葡萄串紧凑性方面尚未得到评估。通过彻底的筛选过程，在三个葡萄串形成、浆果形成和最终葡萄串大小的步骤中，通过 RNA-Seq 数据分析总共鉴定了 1549 个 lncRNAs。此外，在葡萄串发育步骤中有 229 个 lncRNAs 表达差异。基于功能分析，lncRNAs 与 AG 和 MYB、bHLH、LBD、NAC 和 WRKY TF 有关。此外，靶基因富集分析表明，lncRNAs 与葡萄的生长和发育以及对热和干旱等非生物胁迫、植物对病原体的防御以及葡萄早期成熟的抗性有关。该研究确定了四个 lncRNAs 作为 miRNA 的前体，预测 166 个 miRNA 可能靶向 112 个其他 lncRNAs。该研究结果为 lncRNAs 在耶高特葡萄中的调控功能提供了新的见解，有助于提高对与葡萄串紧凑性相关的分子机制的整体理解。
