PDF(Pubmed)
Abstract：
UNASSIGNED: Upland cotton (Gossypium hirsutum) is the main source of natural fiber in the global textile industry, and thus its fiber quality and yield are important parameters. In this study, comparative transcriptomics was used to analyze differentially expressed genes (DEGs) due to its ability to effectively screen candidate genes during the developmental stages of cotton fiber. However, research using this method is limited, particularly on fiber development. The aim of this study was to uncover the molecular mechanisms underlying the whole period of fiber development and the differences in transcriptional levels.
UNASSIGNED: Comparative transcriptomes are used to analyze transcriptome data and to screen for differentially expressed genes. STEM and WGCNA were used to screen for key genes involved in fiber development. qRT-PCR was performed to verify gene expression of selected DEGs and hub genes.
UNASSIGNED: Two accessions of upland cotton with extreme phenotypic differences, namely EZ60 and ZR014121, were used to carry out RNA sequencing (RNA-seq) on fiber samples from different fiber development stages. The results identified 704, 376, 141, 269, 761, and 586 genes that were upregulated, and 1,052, 476, 355, 259, 702, and 847 genes that were downregulated at 0, 5, 10, 15, 20, and 25 days post anthesis, respectively. Similar expression patterns of DEGs were monitored using short time-series expression miner (STEM) analysis, and associated pathways of DEGs within profiles were investigated. In addition, weighted gene co-expression network analysis (WGCNA) identified five key modules in fiber development and screened 20 hub genes involved in the development of fibers.
UNASSIGNED: Through the annotation of the genes, it was found that the excessive expression of resistance-related genes in the early fiber development stages affects the fiber yield, whereas the sustained expression of cell elongation-related genes is critical for long fibers. This study provides new information that can be used to improve fibers in newly developed upland cotton genotypes.
UNASSIGNED: Comparative transcriptomes are used to analyze transcriptome data and to screen for differentially expressed genes. STEM and WGCNA were used to screen for key genes involved in fiber development. qRT-PCR was performed to verify gene expression of selected DEGs and hub genes.
UNASSIGNED: Two accessions of upland cotton with extreme phenotypic differences, namely EZ60 and ZR014121, were used to carry out RNA sequencing (RNA-seq) on fiber samples from different fiber development stages. The results identified 704, 376, 141, 269, 761, and 586 genes that were upregulated, and 1,052, 476, 355, 259, 702, and 847 genes that were downregulated at 0, 5, 10, 15, 20, and 25 days post anthesis, respectively. Similar expression patterns of DEGs were monitored using short time-series expression miner (STEM) analysis, and associated pathways of DEGs within profiles were investigated. In addition, weighted gene co-expression network analysis (WGCNA) identified five key modules in fiber development and screened 20 hub genes involved in the development of fibers.
UNASSIGNED: Through the annotation of the genes, it was found that the excessive expression of resistance-related genes in the early fiber development stages affects the fiber yield, whereas the sustained expression of cell elongation-related genes is critical for long fibers. This study provides new information that can be used to improve fibers in newly developed upland cotton genotypes.
摘要：
■陆地棉（陆地棉）是全球纺织业中天然纤维的主要来源，因此其纤维质量和产量是重要的参数。在这项研究中,比较转录组学用于分析差异表达基因（DEGs），因为它能够在棉纤维发育阶段有效筛选候选基因。然而,使用这种方法的研究是有限的，特别是纤维的发展。这项研究的目的是揭示整个纤维发育时期的分子机制以及转录水平的差异。
■比较转录组用于分析转录组数据并筛选差异表达的基因。STEM和WGCNA用于筛选涉及纤维发育的关键基因。进行qRT-PCR以验证所选择的DEGs和hub基因的基因表达。
■两种具有极端表型差异的陆地棉，即EZ60和ZR014121用于对来自不同纤维发育阶段的纤维样品进行RNA测序(RNA-seq)。结果确定了上调的704、376、141、269、761和586个基因，和1,052、476、355、259、702和847个基因在花后0、5、10、15、20和25天下调，分别。使用短时序列表达矿工（STEM）分析监测DEGs的相似表达模式，并研究了配置文件中DEGs的相关途径。此外,加权基因共表达网络分析（WGCNA）确定了纤维发育中的五个关键模块，并筛选了20个参与纤维发育的集线器基因。
■通过对基因的注释，结果发现，在纤维发育早期，抗性相关基因的过度表达会影响纤维产量，而细胞伸长相关基因的持续表达对长纤维至关重要。这项研究提供了新的信息，可用于改善新开发的陆地棉基因型的纤维。
■比较转录组用于分析转录组数据并筛选差异表达的基因。STEM和WGCNA用于筛选涉及纤维发育的关键基因。进行qRT-PCR以验证所选择的DEGs和hub基因的基因表达。
■两种具有极端表型差异的陆地棉，即EZ60和ZR014121用于对来自不同纤维发育阶段的纤维样品进行RNA测序(RNA-seq)。结果确定了上调的704、376、141、269、761和586个基因，和1,052、476、355、259、702和847个基因在花后0、5、10、15、20和25天下调，分别。使用短时序列表达矿工（STEM）分析监测DEGs的相似表达模式，并研究了配置文件中DEGs的相关途径。此外,加权基因共表达网络分析（WGCNA）确定了纤维发育中的五个关键模块，并筛选了20个参与纤维发育的集线器基因。
■通过对基因的注释，结果发现，在纤维发育早期，抗性相关基因的过度表达会影响纤维产量，而细胞伸长相关基因的持续表达对长纤维至关重要。这项研究提供了新的信息，可用于改善新开发的陆地棉基因型的纤维。
