Transcriptome analysis and transcription factors response to transplanting and topping time of upper leaf in tobacco (Nicotiana tabacum L.)

IF 2.7 3区生物学 Q2 PLANT SCIENCES

South African Journal of Botany Pub Date : 2024-10-23 DOI:10.1016/j.sajb.2024.10.013

Xianbo Zhao , Feiyue Yuan , Yiqiang Chen , Ye Zhang , Yiqi Zhang , Yongan Zhang , Shunhua Ji , Zhuangyi Zhang , Li Gu , Lijuan Liao , Tiedong Liu

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引用次数: 0

Abstract

Tobacco, as an annual industrial crop, is significantly affected by agronomic practices such as transplanting and topping, which can influence the yield and quality of the upper leaves. However, the processes by which transcription factors integrate both agronomic practices remain unclear. In this study, eight treatments were designed based on varying transplanting and topping periods. RNA-seq was employed to analyze the transcriptional expression and identify key differentially expressed genes (DEGs) and transcription factors (TFs). Subsequently, a rigorous quality inspection and data cleaning process yielded 1,302,152,358 high-quality reads. The comparative analysis of 8 treatments identified a total of 4265 DEGs. Utilizing K-means analysis, these DEGs demonstrated 9 distinct expression patterns. GO and KEGG annotation revealed a significant association of these DEGs with photosynthesis and secondary metabolism. 10 hub genes including AFC2, SIGB, PGSIP8, BIG5, OSP1, RL13, PDC1, NtORF and EBG were identified through WGCNA analysis. 41 differentially expressed TFs were identified through transcription factor analysis. Among them, 10 TFs namely ABR1, ERF26, HAT5, HSF24, LUH, AGL8, TIFY5A, TIFY10A, WRKY4, and WRKY40 are directly associated with plant stress resistance. 5 TFs such as ERF110, IDD7, ATB40, NAC81, and NAC83 have been identified as positive regulators of growth and development, while 3 TFs such as BH130, TCP4, and WRKY53 have been found to negatively impact growth and development. Furthermore, 4 TFs have been implicated in hormone and light signaling pathways, namely CIGR1, BLH1, WRKY42, and EIN4. The identified hub genes and TFs suggest that early transplanting and topping (B1D1C) contribute to enhanced stress resistance in tobacco. This may result in more developed stomata on tobacco leaves, as well as an increase in leaf thickness and a reduction in leaf size.

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烟草（Nicotiana tabacum L.）转录组分析及转录因子对移栽和上部叶片打顶时间的响应

烟草作为一年生工业作物，受移栽和打顶等农艺措施的影响很大，这些措施会影响上部叶片的产量和质量。然而，转录因子整合这两种农艺措施的过程仍不清楚。本研究根据不同的移栽期和打顶期设计了八个处理。采用 RNA-seq 分析转录表达，并确定关键的差异表达基因 (DEG) 和转录因子 (TF)。随后，经过严格的质量检查和数据清洗过程，获得了 1,302,152,358 个高质量读数。通过对 8 种处理进行比较分析，共鉴定出 4265 个 DEGs。通过 K-means 分析，这些 DEGs 呈现出 9 种不同的表达模式。GO 和 KEGG 注释显示，这些 DEGs 与光合作用和次生代谢有显著关联。通过 WGCNA 分析，确定了 10 个中心基因，包括 AFC2、SIGB、PGSIP8、BIG5、OSP1、RL13、PDC1、NtORF 和 EBG。通过转录因子分析，确定了 41 个差异表达的转录因子。其中，ABR1、ERF26、HAT5、HSF24、LUH、AGL8、TIFY5A、TIFY10A、WRKY4 和 WRKY40 等 10 个转录因子与植物抗逆性直接相关。ERF110、IDD7、ATB40、NAC81 和 NAC83 等 5 个 TFs 被确定为生长和发育的正向调节因子，而 BH130、TCP4 和 WRKY53 等 3 个 TFs 被发现对生长和发育有负面影响。此外，有 4 个 TFs 与激素和光信号通路有关，即 CIGR1、BLH1、WRKY42 和 EIN4。已确定的枢纽基因和 TFs 表明，早期移栽和打顶（B1D1C）有助于增强烟草的抗逆性。这可能导致烟草叶片上的气孔更加发达，以及叶片厚度增加和叶片大小减小。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

South African Journal of Botany 生物-植物科学

CiteScore

5.20

自引率

9.70%

发文量

709

审稿时长

61 days

期刊介绍： The South African Journal of Botany publishes original papers that deal with the classification, biodiversity, morphology, physiology, molecular biology, ecology, biotechnology, ethnobotany and other botanically related aspects of species that are of importance to southern Africa. Manuscripts dealing with significant new findings on other species of the world and general botanical principles will also be considered and are encouraged.