Transcriptome analysis of inflorescence embryogenesis in Festuca Glauca

IF 2.2 Q3 GENETICS & HEREDITY

Plant Gene Pub Date : 2024-09-19 DOI:10.1016/j.plgene.2024.100468

Hongjuan Xu , Baohui Zhang , Lan Yang , Yuxuan Jin , Weize Wang , Ning Ao , Panpan Yang , Zhilin Chen

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Abstract

In this study, RNA-seq was employed for transcriptome sequencing at four developmental stages of normal (L) and embryogenic (X) Festuca glauca ‘Elijah Blue’ inflorescences to analyze and identify the metabolic pathways and regulatory genes associated with inflorescence embryogenesis, thereby facilitating the understanding of the molecular mechanisms of inflorescence embryogenesis in Festuca glauca. The results revealed a total of 50,733 differentially expressed genes (DEGs) between the control (L) and embryogenic (X) samples at different developmental stages. Among them, 19,640 (38.71 %) were upregulated and 31,093 (61.29 %) were downregulated. A total of 2585 DEGs were expressed in both stage 1 (L1-vs-X1) and stage 4 (L4-vs-X4). Gene Ontology (GO) analysis revealed that the DEGs in these stages were mainly enriched in processes related to photosynthetic membranes, chloroplasts, activity of DNA-binding transcription factors, components of ribosomal structure, reactions involving oxidized compounds, and photosynthesis; while Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed that the DEGs in these stages were mainly enriched in pathways such as plant-pathogen interactions, plant hormone signal transduction, phenylpropanoid biosynthesis, ribosomes, and galactose metabolism. The top families containing differentially expressed transcription factors (DETFs) in these stages included ERF, bHLH, MYB-related, NAC, and WRKY. A total of 39 and 29 DETFs associated with embryogenesis were identified in the L1-vs-X1 and L4-vs-X4 stages, respectively. Additionally, 79 and 110 embryogenesis-related genes were identified in the plant hormone signal transduction metabolic pathway in the L1-vs-X1 and L4-vs-X4 stages, respectively.

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Festuca Glauca 花序胚胎发生的转录组分析

本研究采用RNA-seq技术对正常（L）和胚胎发生（X）的Festuca glauca 'Elijah Blue'花序的四个发育阶段进行转录组测序，分析和鉴定与花序胚胎发生相关的代谢途径和调控基因，从而促进对Festuca glauca花序胚胎发生分子机制的理解。研究结果显示，对照样本（L）和胚胎发生样本（X）在不同发育阶段共有 50,733 个差异表达基因（DEGs）。其中，上调基因 19,640 个（38.71%），下调基因 31,093 个（61.29%）。共有 2585 个 DEGs 在第 1 阶段（L1-vs-X1）和第 4 阶段（L4-vs-X4）均有表达。基因本体（GO）分析表明，这些阶段的 DEGs 主要富集在与光合膜、叶绿体、DNA 结合转录因子的活性、核糖体结构成分、涉及氧化化合物的反应和光合作用有关的过程中；京都基因和基因组百科全书》（KEGG）分析表明，这些阶段的 DEGs 主要富集在植物与病原体相互作用、植物激素信号转导、苯丙类生物合成、核糖体和半乳糖代谢等途径中。在这些阶段，含有差异表达转录因子（DETFs）的最高家族包括 ERF、bHLH、MYB 相关、NAC 和 WRKY。在 L1-vs-X1 和 L4-vs-X4 阶段，分别发现了 39 和 29 个与胚胎发生相关的 DETFs。此外，在 L1-vs-X1 和 L4-vs-X4 阶段的植物激素信号转导代谢途径中分别发现了 79 和 110 个与胚胎发生相关的基因。

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来源期刊

Plant Gene Agricultural and Biological Sciences-Plant Science

CiteScore

4.50

自引率

0.00%

发文量

审稿时长

51 days

期刊介绍： Plant Gene publishes papers that focus on the regulation, expression, function and evolution of genes in plants, algae and other photosynthesizing organisms (e.g., cyanobacteria), and plant-associated microorganisms. Plant Gene strives to be a diverse plant journal and topics in multiple fields will be considered for publication. Although not limited to the following, some general topics include: Gene discovery and characterization, Gene regulation in response to environmental stress (e.g., salinity, drought, etc.), Genetic effects of transposable elements, Genetic control of secondary metabolic pathways and metabolic enzymes. Herbal Medicine - regulation and medicinal properties of plant products, Plant hormonal signaling, Plant evolutionary genetics, molecular evolution, population genetics, and phylogenetics, Profiling of plant gene expression and genetic variation, Plant-microbe interactions (e.g., influence of endophytes on gene expression; horizontal gene transfer studies; etc.), Agricultural genetics - biotechnology and crop improvement.