Staining with HBC599 for Live-Cell RNA Imaging
This protocol is adapted from research data and provided for reference only. Adjustments may be necessary based on specific experimental requirements.
(1) Cell Preparation and Transfection: Seed appropriate cells (e.g., HeLa, U2OS) onto glass-bottom dishes or coverslips and culture until they reach 50-70% confluency. Transfect the cells with a plasmid or RNA expressing the RNA of interest tagged with the Pepper RNA aptamer sequence. Incubate for 12-48 hours to allow for sufficient RNA expression.
(2) HBC599 Solution Preparation: Prepare a 1-5mM stock solution of HBC599 using anhydrous DMSO. Aliquot and store at -20°C or -80°C protected from light. Dilute the HBC599 stock solution in pre-warmed, serum-free cell culture medium (e.g., DMEM or Opti-MEM) to achieve a final working concentration typically between 0.5 to 5µM. Mix thoroughly.
(3) Cell Staining: Gently wash the transfected cells 1-2 times with warm, serum-free medium or PBS. Completely remove the wash buffer and add the prepared HBC599 staining medium to the cells. Incubate the cells in the staining medium at 37°C, 5% CO₂ for 15 to 30 minutes. Carefully aspirate the staining solution. Wash the cells 2-3 times with warm, serum-free medium or 1X PBS.
(4) Live-Cell Imaging: After the final wash, add a small volume of pre-warmed, fresh culture medium to the cells. Proceed to image the cells immediately on a confocal or epifluorescence microscope. HBC599 fluorescence is typically excited with a 515nm laser and detected using a 599nm emission filter.
Precautions:
(1) The incubation time can range from 30 to 90 minutes with minimal impact on result accuracy; choosing 1 hour is most convenient.
(2) For your safety and health, please wear a lab coat and disposable gloves during operation.
References:
[1] Rees HC, Gogacz W, Li NS, et al. Structural Basis for Fluorescence Activation by Pepper RNA. ACS Chem Biol. 2022 Jul 15;17(7):1866-1875.