Comprehensive Analysis of Long Non-coding RNA Modulates Axillary Bud Development in Tobacco (Nicotiana tabacum L.)

Abstract

Long non-coding RNAs (lncRNAs) regulate gene expression and are crucial for plant growth and development. However, the mechanisms underlying the effects of activated lncRNAs on axillary bud development remain largely unknown. By lncRNA transcriptomes of axillary buds in topped and untopped tobacco plants, we identified a total of 13,694 lncRNAs. LncRNA analysis indicated that the promoted growth of axillary bud by topping might be partially ascribed to the genes related to hormone signal transduction and glycometabolism, trans-regulated by differentially expressed lncRNAs, such as MSTRG.52498.1, MSTRG.60026.1, MSTRG.17770.1, and MSTRG.32431.1. Metabolite profiling indicated that auxin, abscisic acid and gibberellin were decreased in axillary buds of topped tobacco lines, while cytokinin was increased, consistent with the expression levels of related lncRNAs. MSTRG.52498.1, MSTRG.60026.1, MSTRG.17770.1, and MSTRG.32431.1 were shown to be influenced by hormones and sucrose treatments, and were associated with changes of axillary bud growth in the overexpression of NtCCD8 plants (with reduced axillary buds) and RNA interference of NtTB1 plants (with increased axillary buds). Moreover, MSTRG.28151.1 was identified as the antisense lncRNA of NtTB1. Silencing of MSTRG.28151.1 in tobacco significantly attenuated the expression of NtTB1 and resulted in larger axillary buds, suggesting the vital function of MSTRG.28151.1 axillary bud developmen by NtTB1. Our findings shed light on lncRNA-mRNA interactions and their functional roles in axillary bud growth, which would improve our understanding of lncRNAs as important regulators of axillary bud development and plant architecture.

Long noncoding RNA-mediated epigenetic regulation of auxin-related genes controlling shade avoidance syndrome inArabidopsis thaliana

“…Among angiosperms, the suppression of bud outgrowth depends on a highly conserved mechanism that involves BRC1 -like genes. In Nicotiana tabacum , a subset of lncRNAs have been proposed to be involved in axillary bud outgrowth (Wang et al, 2022). At least four lncRNAs were proposed to act downstream NtTB1 (the Nicotiana ortholog of BRC1 ), whereas MSTRG.28151.1 was identified as an antisense lncRNA of NtTB1 .…”

Long noncoding RNA‐mediated epigenetic regulation of auxin‐related genes controls shade avoidance syndrome in Arabidopsis

“…Among angiosperms, the suppression of bud outgrowth depends on a highly conserved mechanism that involves BRC1 ‐like genes. In Nicotiana tabacum , a subset of lncRNAs have been proposed to be involved in axillary bud outgrowth (Wang et al , 2022). At least four lncRNAs were proposed to act downstream NtTB1 (the Nicotiana ortholog of BRC1 ), whereas MSTRG.28151.1 was identified as an antisense lncRNA of NtTB1 .…”

Systematic Identification of Methyl Jasmonate-Responsive Long Noncoding RNAs and Their Nearby Coding Genes Unveils Their Potential Defence Roles in Tobacco BY-2 Cells

“…In this study, we systematically found a total of 7848 potential lncRNAs in tobacco BY-2 cells, using the available tobacco genome from a transcriptomic perspective ( Figure 1 ). The number of identified lncRNAs was smaller than that identified in axillary tobacco buds (13694) and was more significant than that found in tobacco roots (7423), which might be partly due to the highly tissue-specific and cell type-specific lncRNAs [ 46 , 47 ]. Many studies have concluded that lncRNAs vary widely across species, tissues, and cell types, indicating that most are not conserved at the sequence level [ 48 , 49 ].…”