To address both biological and experimental variability and to obtain reliable and stable results, experiments were performed as follows: Each irradiation was repeated at least three times (technical replicate), and the whole experiment was repeated at least on three different days (biological replicate). For every irradiation, fresh bacterial solutions were used. Corneal buttons were prepared using an 8-mm corneal punch (SMI AG, Brussels, Belgium). The buttons were placed in 2-mL tubes (Eppendorf AG, Hamburg, Germany) containing 1 mL 0.9% NaCl solution, vortexed, and then centrifuged for 10 minutes at 15,000 revolutions per minute (rpm) to release the bacteria from the cornea. Following centrifugation, the solutions were vortexed again, then aspirated and mixed with a 1-mL pipette (Eppendorf AG, Hamburg, Germany). The solutions then underwent three 10-fold dilutions, and 10 µL of the final dilution was plated on COS agar using its whole surface to obtain single bacterial colonies and incubated at 37°C for 24 hours.
After incubation, all agar plates were photographed, and the numbers of CFUs were counted as described previously.
15 Based on each CFU result, the bacterial killing ratios (BKRs) of three technical replicates were calculated by comparing the median CFU of each PACK-CXL irradiated plate (CFU
PACK-CXL) to its corresponding control plate (CFU
control), using the following formula:
\begin{eqnarray*}{\rm{BKR}} = \left( {1 - \frac{{{\rm{CF}}{{\rm{U}}_{{\rm{\ PACK}} - {\rm{CXL}}}}}}{{{\rm{CF}}{{\rm{U}}_{{\rm{\ Control}}}}}}} \right) \times {\rm{\ }}100{\rm{\ }}\left[ {\rm{\% }} \right]\end{eqnarray*}
For the two investigated bacteria, S. aureus and P. aeruginosa, the BKRs achieved by the two PACK-CXL protocols (rf PACK-CXL and rb PACK-CXL) were then compared.