The quality of RNA from experimental materials is a crucial factor in determining the success of spatial transcriptomics experiments. To obtain better spatial transcriptomics data, we have added a RNA quality check for cryoembedded material sections before the formal spatial experiment.
To minimize RNA degradation caused by the embedding process, not only is the entire embedding process conducted on ice, but the embedding time is also strictly controlled within 30 minutes. We collect tissue sections from the embedded samples and use a microRNA extraction kit to extract RNA, followed by quality assessment. When the RIN (RNA Integrity Number) value of the section RNA reaches above 7.0, the quality of the embedded material is considered good, and it can proceed to subsequent spatial experiments.
We collected tissue sections from the embedded tomato callus and extracted RNA using a microRNA extraction kit. The quality was checked using a 4200 Bioanalyzer, and the RNA RIN was found to be 9.8, indicating good quality and suitability for further experiments.