Cardoso Fernando M H, Elias Alexandre, Pereira Inês, Maurício Isabel, Matos Olga
Global Health and Tropical Medicine, GHTM, Associate Laboratory in Translation and Innovation Towards Global Health, LA-REAL, Instituto de Higiene e Medicina Tropical, IHMT, Universidade NOVA de Lisboa, UNL, Rua da Junqueira 100, Lisboa 1349-008, Portugal.
Instituto Gulbenkian de Ciência, Oeiras 2780-156, Portugal.
MethodsX. 2023 Oct 11;11:102435. doi: 10.1016/j.mex.2023.102435. eCollection 2023 Dec.
Accurate genomic sequencing demands high-quality double-stranded RNA (dsRNA). Existing methods for dsRNA extraction from yeast, fungi, and plants primarily rely on cellulose, suitable only for small volume extractions, or the time-consuming lithium chloride precipitation. To streamline the traditional phenol-chloroform-based dsRNA extraction method, the main challenge is the reduction of mitochondrial DNA (mtDNA) and Single Stranded RNA (ssRNA) to no detectable levels after gel electrophoresis. This challenge is successfully addressed through the modified approach described here, involving phenol extraction at low pH, followed by the addition of ammonium sulfate to the aqueous buffer. The dsRNA isolated using this novel method exhibits comparable quality to that obtained through cellulose purification, and it is readily amenable to RT-PCR. Moreover, a single batch of yeast cell RNA isolation requires only 2-3 h of hands-on time, thus simplifying and expediting the process significantly.•Buffers were redesigned from [32,33,35].•No DNASE, Ribonuclease A or beads were used during the purification.•Simple and inexpensive dsRNA extraction and purification method is described.
准确的基因组测序需要高质量的双链RNA(dsRNA)。现有的从酵母、真菌和植物中提取dsRNA的方法主要依赖于纤维素,仅适用于小体积提取,或者依赖耗时的氯化锂沉淀法。为了简化传统的基于苯酚-氯仿的dsRNA提取方法,主要挑战在于在凝胶电泳后将线粒体DNA(mtDNA)和单链RNA(ssRNA)降低到无法检测的水平。通过本文所述的改良方法成功解决了这一挑战,该方法包括在低pH值下进行苯酚提取,然后在水性缓冲液中添加硫酸铵。使用这种新方法分离的dsRNA显示出与通过纤维素纯化获得的dsRNA相当的质量,并且易于进行RT-PCR。此外,单批酵母细胞RNA分离仅需2-3小时的实际操作时间,从而显著简化和加快了该过程。
•缓冲液根据[32,33,35]重新设计。
•纯化过程中未使用DNA酶、核糖核酸酶A或磁珠。
•描述了一种简单且廉价的dsRNA提取和纯化方法。