Title
Petri Net modeling of thiamine diphosphate biosynthesis in Mycobacterium tuberculosis H37Rv
Authors
Mohd Asif Siddiqui*, Ravindra Kumar Jain, Ashwani Kumar, Dhanendra Kumar Rai, Nikhil Chand, RitikaYadav, Anu Chauhan & Sarita Rana
Affiliation
Department of Biotechnology, Swami Vivekanand Subharti University, Subhartipuram, NH-58, Delhi-Haridwar Bypass Road, Meerut-250005, India; *Corresponding author
Mohd Asif Siddiqui - E - mail: asifsiddiqui82@gmail.com; Phone: +91
9410606339
Ravindra Kumar Jain - E - mail: rkjbiotech20@gmail.com
Ashwani Kumar - E - mail: ashipbtech81@gmail.com
Dhanendra Kumar Rai - E - mail: dhanendra010187@gmail.com
Nikhil Chand - E - mail: nikhilchand6@gmail.com
Ritika Yadav - E - mail: yadav.ritika3113@gmail.com
Anu Chauhan - E - mail: anuchauhan495@gmail.com
Sarita Rana - E - mail: ranasarita05@gmail.com
Article Type
Research Article
Date
Received May 1, 2025; Revised May 31, 2025; Accepted May 31, 2025, Published May 31, 2025
Abstract
Thiamine diphosphate (TPP) is essential cofactor in Mycobacterium tuberculosis H37Rv metabolism, making its biosynthesis pathway a key target for therapy. Therefore, it is of interest to describe a Petri net-based model of the TPP biosynthesis super-pathway, developed using curated MetaCyc data and simulated with Snoopy software. The model integrates three biosynthetic branches and maps key enzymes (ThiC, ThiD, ThiE, ThiF, ThiG, ThiS) along with their gene identifiers. The simulation of token flow revealed the pathway’s dynamics, highlighting critical regulatory nodes. This computational approach provides insights into TPP biosynthesis and serves as a basis for drug design targeting tuberculosis.
Keywords
Thiamine biosynthesis, Petri nets, modelling, simulation, Mycobacterium tuberculosis
Citation
Siddiqui et al. Bioinformation 21(5): 1029-1033 (2025)
Edited by
P Kangueane
ISSN
0973-2063
Publisher
License
This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.
