Biotechnology & Bioinformatics
Biotechnology & Bioinformatics Lab
Dr. Aniket Naha,B.Sc. (Biotechnology),M.Sc. (Biotechnology), Ph.D. Scientist
Biotechnology & Bioinformatics Lab
Pushpagiri Institute of Medical Sciences and Research Center,
Thiruvalla - 689101, Kerala, India
Mobile:
E-mail: draniketnaha@pimsrc.edu.in
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Biotechnology; Microbiology; Bioinformatics
- Emergence of antimicrobial tolerance and resistance in ESKAPE pathogens
- Phenotypic-molecular characterisation, biofilm assay, quorum sensing and screening of potential biofilm disrupters
- Screening of effective antimicrobial agents derived from phytocompounds
- Elucidating the underlying mechanisms in inhibition of advanced glycation end- products (AGE) causing chronic diabetic complications using phytocompound derivatives
- Bioelectricity production thorough Microbial Fuel Cells (MFC) from hospital wastes/wastewater treatment plants
- Systems biology approaches using protein-protein interaction (PPI) and host-pathogen interaction (HPI) to reveal alternate therapeutic biomarkers in nosocomial pathogens
- Virtual screening, pharmacokinetics-pharmacodynamics (PK-PD) assessments, pharmacophore modeling and lead optimisation through quantum chemical density functional theory simulation
- Structural bioinformatics approaches to validate the stability of novel theranostic biomarkers with screened leads through molecular docking, molecular and essential dynamics simulation
- Aniket Naha, Sanjukta Banerjee, Reetika Debroy, Soumya Basu, Gayathri Ashok, P. Priyamvada, Hithesh Kumar, et al. 2022. “Network Metrics, Structural Dynamics and Density Functional Theory Calculations Identified a Novel Ursodeoxycholic Acid Derivative against Therapeutic Target Parkin for Parkinson’s Disease.” Computational and Structural Biotechnology Journal 20: 4271–87. https://doi.org/10.1016/j.csbj.2022.08.017. [Impact Factor: 6.155]
- Aniket Naha, and Sudha Ramaiah. 2022. “Structural Chemistry and Molecular-Level Interactome Reveals Histidine Kinase EvgS to Subvert Both Antimicrobial Resistance and Virulence in Shigella flexneri 2a Str. 301.” 3 Biotech 12 (10): 258. https://doi.org/10.1007/s13205-022-03325-w. [Impact Factor: 2.893]
- Aniket Naha, Saranya Vijayakumar, Binesh Lal, Baby A. Shankar, Suriya Chandran, Sudha Ramaiah, Balaji Veeraraghavan, and Anand Anbarasu. 2021. “Genome
- Sequencing and Molecular Characterisation of XDR Acinetobacter baumannii Reveal Complexities in Resistance: Novel Combination of Sulbactam–Durlobactam Holds Promise for Therapeutic Intervention.” Journal of Cellular Biochemistry 122 (12): 1946–57. https://doi.org/10.1002/jcb.30156. [Impact Factor: 4.480]
- Aniket Naha, Sravan Kumar Miryala, Reetika Debroy, Sudha Ramaiah, and Anand Anbarasu. 2020. “Elucidating the Multi-Drug Resistance Mechanism of Enterococcus faecalis V583: A Gene Interaction Network Analysis.” Gene 748 (July): 144704. https://doi.org/10.1016/j.gene.2020.144704. [Impact Factor: 3.913]
- Aniket Naha, Dipen Chandra Nath, and Soumitra Nath. 2020. “Impact of Pesticides on the Growth of Coriandrum sativum.” International Journal of Plant Physiology and Biochemistry 12 (1): 17–25. https://doi.org/10.5897/IJPPB2020.0301.
- Soumya Basu, Aniket Naha, Balaji Veeraraghavan, Sudha Ramaiah, and Anand Anbarasu. 2022. “In Silico Structure Evaluation of BAG3 and Elucidating Its Association with Bacterial Infections through Protein-Protein and Host-Pathogen Interaction Analysis.” Journal of Cellular Biochemistry 123 (1): 115–27. https://doi.org/10.1002/jcb.29953. [Impact Factor: 4.480]
- Soumitra Nath, Aniket Naha, and Mehdi Hasan Choudhury. 2020. “Mapping the Molecular Basis and Preventive Strategies of Covid-19: A Review towards Evoking Public Awareness.” In Biological Sciences: Impacts on Modern Civilization, Current and Future Challenges, 103–17. New Delhi Publishers. https://doi.org/10.30954/ndp.bio.2020.9. [Book Chapter]
- Reetika Debroy, Sravan Kumar Miryala, Aniket Naha, Anand Anbarasu, and Sudha Ramaiah. 2020. “Gene Interaction Network Studies to Decipher the Multi-Drug Resistance Mechanism in Salmonella Enterica Serovar Typhi CT18 Reveal Potential Drug Targets.” Microbial Pathogenesis 142 (February): 104096. https://doi.org/10.1016/j.micpath.2020.104096. [Impact Factor: 3.848]
- Sravan Kumar Miryala, Soumya Basu, Aniket Naha, Reetika Debroy, Sudha Ramaiah, Anand Anbarasu, and Saravanan Natarajan. 2021. “Identification of Bioactive Natural Compounds as Efficient Inhibitors against Mycobacterium tuberculosis Protein-Targets: A Molecular Docking and Molecular Dynamics Simulation Study.” Journal of Molecular Liquids 341 (November): 117340. https://doi.org/10.1016/j.molliq.2021.117340. [Impact Factor: 6.633]
- Sravan Kumar Miryala, Soumya Basu, Aniket Naha, Reetika Debroy, Sudha Ramaiah, Anand Anbarasu, and Saravanan Natarajan. 2022. “Datasets Comprising the Quality Validations of Simulated Protein-Ligand Complexes and SYBYL Docking Scores of Bioactive Natural Compounds as Inhibitors of Mycobacterium tuberculosis Protein- Targets.” Data in Brief 42 (June): 108146. https://doi.org/10.1016/j.dib.2022.108146.
- Karthick Vasudevan, Soumya Basu, Amala Arumugam, Aniket Naha, Sudha Ramaiah, Anand Anbarasu, and Balaji Veeraraghavan. 2021. “Identification of Potential Carboxylic Acid-Containing Drug Candidate to Design Novel Competitive NDM Inhibitors: An in-Silico Approach Comprising Combined Virtual Screening and Molecular Dynamics Simulation.” Researchsqaure Preprint. https://doi.org/10.21203/rs.3.rs-784343/v1.
Biotechnology and Microbiology
- Routine bacterial sample isolation and culturing facility
- Sub-culturing and cold storage facility
- Antimicrobial susceptibility testing and determination of Minimum Inhibitory Concentration
- Qualitative and Quantitative determination of Biofilm formation
- Molecular biology facility comprising Agarose Gel and Polyacrylamide Gel Electrophoresis
- Routine Biochemical testing facility Bioinformatics
- Database search, data retrieval and curation for whole genome sequences
- Analysis of AMR and virulence genes from genome sequences
- Protein-protein interaction and host-pathogen protein-protein interaction analysis
- Protein structure modeling, characterisation and validation through various simulation approaches
- Drug-repurposing, virtual screening, pharmacodynamics-pharmacokinetics assessments, ligand optimisation and characterisation using DFT simulations
- Protein-Drug intermolecular interaction analysis through molecular docking and stability analysis using molecular dynamics simulation
- Prof. Anand Anbarasu- Department of Biotechnology, Vellore Institute of Technology, Vellore, Tamil Nadu.
- Prof. Balaji Veeraraghavan- Department of Clinical Microbiology, Christian Medical College and Hospital, Vellore, Tamil Nadu.
- Prof. Saravanan Natarajan- Department of Biochemistry, National Institute for Research in Tuberculosis, Chennai, Tamil Nadu.
- Dr. Soumitra Nath- Department of Biotechnology, Gurucharan College, Silchar, Assam.
