Quantitative Electrochemical Analysis of Cathepsin Bactivity Using Carbon Nanofiber Nanoelectrode Arrays Withoptimized Peptide Substrate Length and Temperature
Authors: Song Yang , Fan Huafang , Anderson Morgan J. , Wright Jestin Gage , Hua Duy H. , Koehne Jessica E. , Meyyappan M. , Li Jun 
Published: February 2020

It is well known that the over-expression, increased activity and altered localization of many proteases are associated with tumor progression. Many clinical diagnoses target proteases as biomarkers. However, the quantitative analyses of the activity of tumor-related protease are challenging, because of the network interaction among the large set of proteases. Hence, there is a strong demand to develop a bioanalytical technique that can rapidly detect protease activities with high sensitivity and specificity.
In this presentation, I will report an efficient electrochemical quantitative analyses method for detecting the cathepsin B activity by using a peptide-functionalized nanoelectrode array. The nanoelectrode array (NEA) was fabricated with vertically aligned carbon nanofibers (VACNFs), which serves as a unique electrochemical platform to enhance the protease detection. VACNFs of ~100-150 nm in diameter and ~5 mm in length are grown on chromium coated silicon wafer in uniform vertical alignment and are fully separated from each other to form a brush-like structure. With further processes to encapsulate the VACNFs in SiO2 by chemical vapor deposition (CVD) followed by mechanical polishing and reactive ion etching (RIE), ~100 nm long VACNF tips can be exposed above the SiO2 matrix, forming a stable NEA. By covalently attaching the exposed tip with proper peptide probes containing a ferrocene (Fc) redox tag at the distal, the VACNF NEA can be used to detect proteolysis with AC voltammetry. Such NEAs showed improved temporal resolution and reduced steric hindrance. As a result, reliable real-time proteolytic kinetics are recorded, from which the protease activity is quantitatively derived based on the heterogeneous Michalis-Menten model.
In this work, we systematically investigated the cathepsin B activity with peptides of different length (including tetrapeptide, hexapeptide, and octapeptide) and at different temperatures (at 19.3, 29.5, 38.6, and 44.2 °C) to reveal their effects on the kinetic proteolysis rate by cathepsin B. The hexapeptide gave the highest proteolysis rate over tetrapeptide and octapeptide, as reflected by the smallest exponential decay time constant t. Meanwhile, 38.6 °C gave the highest proteolysis rate over the other 3 temperatures.
At 38.6 °C, the optimized temperature, the limit of detection of cathepsin B activity and concentration has been determined to be 2.49 X 10-4 s-1 and 0.32 nM, respectively. Furthermore, the Fc-hexapeptide functionalized VACNF NEA shows very high selectivity, with essentially no measurable cross-reaction with 6.0 nM of other two cancer-related proteases, ADAM10 and ADAM17. This study demonstrates the potential to develop this method into a multiplex electronic chip for rapidly profiling the activity of up to 9 proteases simultaneously, which would facilitate accurate diagnoses of cancers and fast careening effective protease inhibitors as drug candidates. It would be a useful tool toward developing precision medicine.