Key Laboratory of Biology and Cultivation of Chinese Herbal Medicines, Ministry of Agriculture and Rural Affairs, Institute of Chinese Herbal Medicines, Hubei Academy of Agricultural Sciences, Enshi 445000, China.
Hubei Engineering Research Center of Under-Forest Economy, Hubei Academy of Agricultural Sciences, Wuhan 430064, China.
Genes (Basel). 2023 Dec 2;14(12):2170. doi: 10.3390/genes14122170.
is a destructive soil-borne fungal pathogen that causes stem rot in cultivated plants. However, little is known about the genetic basis of sclerotium development. In this study, we conducted de novo sequencing of genes from three different stages of (mycelia, early sclerotium formation, and late sclerotium formation) using Illumina HiSeq 4000. We then determined differentially expressed genes (DEGs) across the three stages and annotated gene functions. STEM and weighted gene-co-expression network analysis were used to cluster DEGs with similar expression patterns. Our analysis yielded an average of 25,957,621 clean reads per sample (22,913,500-28,988,848). We identified 8929, 8453, and 3744 DEGs between sclerotium developmental stages 1 versus 2, 1 versus 3, and 2 versus 3, respectively. Additionally, four significantly altered gene expression profiles involved 220 genes related to sclerotium formation, and two modules were positively correlated with early and late sclerotium formation. These results were supported by the outcomes of qPCR and RNA-sequencing conducted on six genes. This is the first study to provide a gene expression map during sclerotial development in , which can be used to reduce the re-infection ability of this pathogen and provide new insights into the scientific prevention and control of the disease. This study also provides a useful resource for further research on the genomics of .
是一种具有破坏性的土传真菌病原体，可导致栽培植物的茎腐病。然而，对于菌核发育的遗传基础知之甚少。在这项研究中，我们使用 Illumina HiSeq 4000 对 （菌丝体、早期菌核形成和晚期菌核形成）的三个不同阶段的基因进行了从头测序。然后，我们确定了三个阶段之间的差异表达基因（DEGs）并注释了基因功能。STEM 和加权基因共表达网络分析用于聚类具有相似表达模式的 DEGs。我们的分析平均每个样本产生 25957621 个清洁读数（22913500-28988848）。我们分别在菌核发育阶段 1 与 2、1 与 3、2 与 3 之间鉴定到 8929、8453 和 3744 个 DEGs。此外，四个显著改变的基因表达谱涉及与菌核形成相关的 220 个基因，两个模块与早期和晚期菌核形成呈正相关。qPCR 和 RNA-seq 对六个基因的检测结果支持了这些结果。这是首次提供在菌核发育过程中 基因表达图谱的研究，可以减少该病原体的再感染能力，并为该疾病的科学防控提供新的见解。这项研究还为进一步研究 的基因组学提供了有用的资源。
