Department of Biochemistry, All India Institute of Medical Sciences, Ansari Nagar, New Delhi, India.
Trinity Translation Medicine Institute, Trinity College Dublin, The University of Dublin, Dublin, Ireland.
J Appl Genet. 2024 May;65(2):403-413. doi: 10.1007/s13353-024-00853-4. Epub 2024 Mar 21.
tsRNAs (tRNA-derived small non-coding RNAs), including tRNA halves (tiRNAs) and tRNA fragments (tRFs), have been implicated in some viral infections, such as respiratory viral infections. However, their involvement in SARS-CoV infection is completely unknown. A comprehensive analysis was performed to determine tsRNA populations in a mouse model of SARS-CoV-infected samples containing the wild-type and attenuated viruses. Data from the Gene Expression Omnibus (GEO) dataset at NCBI (accession ID GSE90624 ) was used for this study. A count matrix was generated for the tRNAs. Differentially expressed tRNAs, followed by tsRNAs derived from each significant tRNAs at different conditions and time points between the two groups WT(SARS-CoV-MA15-WT) vs Mock and ΔE (SARS-CoV-MA15-ΔE) vs Mock were identified. Notably, significantly differentially expressed tRNAs at 2dpi but not at 4dpi. The tsRNAs originating from differentially expressed tRNAs across all the samples belonging to each condition (WT, ΔE, and Mock) were identified. Intriguingly, tRFs (tRNA-derived RNA fragments) exhibited higher levels compared to tiRNAs (tRNA-derived stress-induced RNAs) across all samples associated with WT SARS-CoV strain compared to ΔE and mock-infected samples. This discrepancy suggests a non-random formation of tsRNAs, hinting at a possible involvement of tsRNAs in SARS-CoV viral infection.
tsRNAs（tRNA 衍生的小非编码 RNA），包括 tRNA 片段（tiRNAs）和 tRNA 碎片（tRFs），已被认为与某些病毒感染有关，如呼吸道病毒感染。然而，它们在 SARS-CoV 感染中的参与情况尚完全不清楚。本研究对包含野生型和减毒病毒的 SARS-CoV 感染样本的小鼠模型中的 tsRNA 群体进行了全面分析。本研究使用了 NCBI 基因表达综合数据库（GEO）数据集（注册号 GSE90624）中的数据。生成了 tRNA 的计数矩阵。鉴定了两组（WT[SARS-CoV-MA15-WT]与 Mock 相比和 ΔE[SARS-CoV-MA15-ΔE]与 Mock 相比）之间在不同条件和时间点差异表达的 tRNA 及其衍生的 tsRNAs。值得注意的是，2dpi 时显著差异表达的 tRNA 而不是 4dpi 时。鉴定了来自所有样本中差异表达的 tRNA 的 tsRNAs，这些样本属于每个条件（WT、ΔE 和 Mock）。有趣的是，与 WT SARS-CoV 株相关的所有样本中的 tRFs（tRNA 衍生的 RNA 片段）水平高于 tiRNAs（tRNA 衍生的应激诱导 RNA），而与 ΔE 和 mock 感染的样本相比。这种差异表明 tsRNAs 的形成是非随机的，暗示 tsRNAs 可能参与了 SARS-CoV 病毒感染。
