基于重组腺相关病毒(rAAV)的基因治疗的发展呈指数级增长,因此,当前的rAAV制造平台需要更高效以满足不断增长的需求。病毒生产对细胞底物有很大的需求,能源,和机械;因此,病毒的生产在很大程度上依赖于宿主细胞的生理学。转录组学,作为机械驱动的工具,用于鉴定显著调节的途径并研究用于支持rAAV生产的宿主细胞的细胞特征。这项研究通过比较亲本人胚胎肾细胞(HEK293)中随时间的病毒产生培养物与非产生培养物,研究了在各自培养基中培养的两种细胞系的转录组学特征。结果表明,宿主细胞的先天免疫应答信号通路(例如,RIG-I样受体信号通路,Toll样受体信号通路,胞质DNA传感途径,JAK-STAT信号通路)显著富集和上调。这伴随着宿主细胞应激反应,包括内质网应激,自噬,和病毒生产中的细胞凋亡。相比之下,在病毒生产的后期,脂肪酸代谢和中性氨基酸转运被下调。我们的转录组学分析揭示了rAAV生产的细胞系独立特征,并作为未来针对生产力提高的进一步研究的重要参考。
The development of gene therapies based on recombinant adeno-associated viruses (rAAVs) has grown exponentially, so the current rAAV manufacturing platform needs to be more efficient to satisfy rising demands. Viral production exerts great demand on cellular substrates, energy, and machinery; therefore, viral production relies heavily on the physiology of the host cell. Transcriptomics, as a mechanism-driven tool, was applied to identify significantly regulated pathways and to study cellular features of the host cell for supporting rAAV production. This study investigated the transcriptomic features of two cell lines cultured in their respective media by comparing viral-producing cultures with non-producing cultures over time in parental human embryonic kidney cells (HEK293). The results demonstrate that the innate immune response signaling pathways of host cells (e.g., RIG-I-like receptor signaling pathway, Toll-like receptor signaling pathway, cytosolic DNA sensing pathway, JAK-STAT signaling pathway) were significantly enriched and upregulated. This was accompanied by the host cellular stress responses, including endoplasmic reticulum stress, autophagy, and apoptosis in viral production. In contrast, fatty acid metabolism and neutral amino acid transport were downregulated in the late phase of viral production. Our transcriptomics analysis reveals the cell-line independent signatures for rAAV production and serves as a significant reference for further studies targeting the productivity improvement in the future.