Ab Initio Whole Cell Kinetic Model of Clostridioides difficile R20291 (cdlFN26) - mauriceling/mauriceling.github.io GitHub Wiki

Citation: Ng, FJY, Mohamed-Khalid, N, Liew, NWJ, Lim, TY, Abdul-Samathu, F, Ling, MHT. 2026. Ab Initio Whole Cell Kinetic Model of Clostridioides difficile R20291 (cdlFN26). International Journal of Translational Science & Research 2(3): 1-4.

Link to [PDF].

Here is the permanent [PDF] and [dataset] links to my archive.

Clostridioides difficile, particularly hypervirulent and antibiotic-resistant strains such as R20291 poses a rising nosocomial threat due to metabolic adaptations that enhance toxin production, persistence, and recurrence. While existing genomescale metabolic reconstructions have provided valuable information associating metabolic states with virulence levels, dynamic kinetic models that capture temporal metabolic behaviour remain limited. A whole cell kinetic model of C. difficile R20291 has not been developed. Hence, this study aimed to construct a whole-cell kinetic model of C. difficile R20291 using an ab initio approach by identifying enzymes from its reference genome. The resulting model, cdlFN26, comprises 880 metabolites, 386 enzymes with corresponding transcription and translation, and 1126 enzymatic reactions. The cdlFN26 model provides a foundational platform for future iterations to incorporate strain-specific kinetic parameters, nutrientdependent gene expression, and regulatory layers such as riboswitch regulation, and increased enzyme annotations to improve biological realism and predictive capacity.