1. Ashutosh Sahoo, Amit Kumar Mohapatra, Haripriya Priyadarsini, Raghuveer Varma Pemmadi, Anjan Das, Tenzin Choedon, Chaitali Nikam, Rajendra Kumar Behera, Shyam Kumar Masakapalli, Ranjan Kumar Nanda (2026). Whole Genome Sequencing and Metabolomic Profiling of Six Clinical Mycobacterium Tuberculosis Isolates Reveal Drug Resistance-Associated Features. Current Microbiology. doi: https://doi.org/10.1007/s00284-025-04677-1  

2. Yogita Thakur, Maneesh Lingwan, Yogesh Pant, Shyam Kumar Masakapalli (2025) Kinetic 13CO2 mapping revealed distinct light-dark metabolic transition phenotypes in Brassica napus seedlings under visible and UV-B light. BioRiv. doi: https://doi.org/10.64898/2025.12.03.692083 

3. Deepika Gupta, Dimpy Bhardwaj, Shagun Shagun, Ashutosh Sahoo, Lagan Arya, Ruchir Priyadarshi, Shyam Kumar Masakapalli, Garima Agrawal (2025) Disulfide crosslinked chitosan films embedded with Tagetes minuta essential oil for active food packaging. Cellulose. doi: https://doi.org/10.1007/s10570-025-06882-4 

4. Divya Dharshini Uma Shankar, Sarayu Murali, Shagun Shagun, Shyam Kumar Masakapalli, Karthik Raman, Smita Srivastava (2025) Genome-scale metabolic model guided metabolic flux analysis in the endophyte Alternaria burnsii NCIM1409. BioRiv. doi: https://doi.org/10.1101/2025.10.28.685040 

5. АA Kovalev, DA Kovalev, VA Panchenko, Vivekanand Vivekanand, Nidhi Pareek, Shyam Kumar Masakapalli, EA Zhuravleva, AA Laikova, SV Shekhurdina, AA Ivanenko, Yu V Litti (2025) The effect of different feeding intervals of substrate pretreated in a vortex layer apparatus on dark fermentative biohydrogen production. International Journal of Hydrogen Energy

6. Singh PK, Thakur J, Yadav PK, Gautam A, Masakapalli SK, Sharma S, Halder A. (2025) C2 Product Selectivity by 2D-nanosheet of Layered Zn-doped Cu2(OH)3(NO3)-A Pre-catalyst for Electrochemical CO2 Reduction. Chempluschem. doi: 10.1002/cplu.202400566.  

7. Thakur J, Masakapalli SK. (2025) Integration of bioflocculation with anaerobic digestion guided by physicochemical profiling enhances valorization potential of domestic wastewater. Bioresour Technol. doi: 10.1016/j.biortech.2024.131732. 

8. S Akram, SK Masakapalli, RK Nanda (2025) Isotopic tracing in Mycobacterium tuberculosis-infected alveolar epithelial cells indicates metabolic specificity to their virulence and drug-resistance status. BioRiv DOI: https://doi.org/10.1101/2024.12.03.625217 

9. Prakhar Talwar, Apoorva Upadhyay, Nikita Verma, Rickwinder Singh, Christoph Lindenberger, Nidhi Pareek, Andrey A Kovalev, Elena A Zhuravleva, Yuriy V Litti, Shyam Kumar Masakapalli, Vivekanand Vivekanand (2024) Utilization of agricultural residues for energy and resource recovery towards a sustainable environment. Environ Sci Pollut Res. doi: https://doi.org/10.1007/s11356-023-29500-x 

10. Singh PD, Sharma J, Kumar P, Srinivasan S, Masakapalli SK. (2024) Mapping of on-field soil nutrient variabilities as a guiding force for smart farming: a case study from FarmerZone sentinel-1 from three potato agroecological zones of India. Environ Monit Assess DOI: https://doi.org/10.1007/s10661-024-12945-z

11. Pietari Keskinen, Karin Amukugo Fröhlich, Portia D. Singh, Antti Pinomaa, Sandhya Menon, Bandna Kumari, Shyam Kumar   Masakapalli, Marko Nieminen Yvonne Dittrich (2024) User Participation through WhatsApp – Mobile Instant Messaging as a Medium for Distributed Co-design . DIS '24: Proceedings of the 2024 ACM Designing Interactive Systems Conference DOI: https://doi.org/10.1145/3643834.3661625

12. Shagun S, Lingwan M, Masakapalli SK. (2024) Mass spectrometry and Nuclear magnetic resonance spectroscopy profiles of red and pink Rhododendron flower petals establish them as rich sources of bioactive secondary metabolites. Sep Sci plus. DOI: https://doi.org/10.1002/sscp.202400007

13. Srivastava, S., Georgiev, M. I., Siva, R., & Masakapalli, S. K. (2023). Editorial: Developing high-yielding plant cell bio-factories for high-value low-volume phytochemicals. Frontiers in Plant Science. https://www.frontiersin.org/articles/10.3389/fpls.2023.1281385

14. Upadhyay, A., Singh, R., Talwar, P., Verma, N., Ahire, P. D., Khatri, H., Masakapalli, S. K., Pareek, N., Kumar, V., Kovalev, A. A., Zhuravleva, E. A., Litti, Y. v, & Vivekanand, V. (2023). Insights into sustainable resource and energy recovery from leachate towards emission mitigation for environmental management: A critical approach. Journal of Environmental Management  DOI: https://doi.org/https://doi.org/10.1016/

15. Talwar P., Upadhyay A., Verma N., Singh R., Lindenberger C., Pareek N., Kovalev A. A., Zhuravleva E. A., Litti Y. V., Masakapalli S. K. & Vivekanand V. (2023). Utilization of agricultural residues for energy and resource recovery towards a sustainable environment. Environ Sci Pollut Res. DOI: https://doi.org/10.1007/s11356-023-29500-x.

16. Upadhyay, A.; Kovalev, A.A.; Zhuravleva, E.A.; Kovalev, D.A.; Litti, Y.V.; Masakapalli, S.K.; Pareek, N.; Vivekanand, V. (2023) A Review of Basic Bioinformatic Techniques for Microbial Community Analysis in an Anaerobic Digester. Fermentation  DOI: https://doi.org/10.3390/fermentation9010062.

17. Upadhyay, A.; Kovalev, A.A.; Zhuravleva, E.A.; Kovalev, D.A.; Litti, Y.V.; Masakapalli, S.K.; Pareek, N.; Vivekanand, V. (2023) Recent Development in Physical, Chemical, Biological and Hybrid Biogas Upgradation Techniques. Sustainability  DOI: https://doi.org/10.3390/su15010476.

18. Pant, Y. & Lingwan, M. & Masakapalli, S. K. (2023). Metabolic, Biochemical, Mineral and Fatty acid profiles of edible Brassicaceae microgreens establish them as promising functional food. Food Chemistry Advances DOI: 10.1016/j.focha.2023.100461 

19. Murali, S., Ibrahim, M., Rajendran, H., Shagun, S., Masakapalli, S. K., Raman, K., & Srivastava, S. (2023). Genome-scale metabolic model led engineering of Nothapodytes nimmoniana plant cells for high camptothecin production. Frontiers in Plant Science https://doi.org/10.3389/fpls.2023.1207218  

20. Joshi, C., Kumar, M., Bennett, M., Thakur, J., Leak, D. J., Sharma, S., ... & Masakapalli, S. K. (2023). Synthetic microbial consortia bioprocessing integrated with pyrolysis for efficient conversion of cellulose to valuables. Bioresource Technology Reports https://doi.org/10.1016/j.biteb.2022.101316

21. Job, N., Lingwan, M., Masakapalli, S. K., & Datta, S. (2022). Transcription factors BBX11 and HY5 interdependently regulate the molecular and metabolic responses to UV-B. Plant Physiology. doi.org/10.1093/plphys/kiac195

22. Jindal, S., Iyer, M. S., Jyoti, P., Masakapalli, S. K., & Venkatesh, K. V. (2022). Mutants lacking global regulators, fis and arcA, in Escherichia coli enhanced growth fitness under acetate metabolism by pathway reprogramming. Applied Microbiology and Biotechnology, 106(8), 3231-3243. doi.org/10.1007/s00253-022-11890-6 

23. Lingwan, M., Shagun, S., Pahwa, F., Kumar, A., Verma, D. K., Pant, Y., ... & Masakapalli, S. K. (2021). Phytochemical rich Himalayan Rhododendron arboreum petals inhibit SARS-CoV-2 infection in vitro. Journal of Biomolecular Structure and Dynamics, 1-11. doi.org/10.1080/07391102.2021.2021287 

24. Yadav, M., Joshi, C., Paritosh, K., Thakur, J., Pareek, N., Masakapalli, S. K., & Vivekanand, V. (2021). Organic waste conversion through anaerobic digestion: A critical insight into the metabolic pathways and microbial interactions. Metabolic Engineering. doi.org/10.1016/j.ymben.2021.11.014 

25. Jyoti P, Nitin Patil N, Masakapalli SK Insights into the Polyhydroxybutyrate Biosynthesis in Ralstonia solanacearum Using Parallel 13C Tracers and Comparative Genome Analysis. ACS Chemical Biology 2021 https://doi.org/10.1021/acschembio.1c00249 

26. Mohanasundaram B, Bhide AJ, Palit S, Chaturvedi G, Lingwan M, Masakapalli SK, Banerjee AK  The unique bryophyte-specific repeat-containing protein SHORT-LEAF regulates gametophore development in moss. Plant Physiology 2021 kiab261, https://doi.org/10.1093/plphys/kiab261 

27. Johnson J, Sharma G, Srinivasan S, Masakapalli SK, Sharma S, Sharma J, Dua VK Enhanced Field-Based Detection of Potato Blight in Complex Backgrounds Using Deep Learning. Plant Phenomics 2021 Volume 2021 |Article ID 9835724 |   https://doi.org/10.34133/2021/9835724 

28. Saini P, Bhatia S, Mahajan M, Kaushik A, Sahu SK, Kumar A, Satbhai SB, Patel MK, Saxena S, Chaurasia OP, Lingwan M, Masakapalli SK, Yadav RK ELONGATED HYPOCOTYL5 negatively regulates DECREASE WAX BIOSYNTHESIS to increase survival during UV-B stress. Plant Physiology 2020 Dec 1;184(4):2091-106  DOI: https://doi.org/10.1104/pp.20.01304

29. Saini P, Bhatia S, Mahajan M, Kaushik A, Sahu SK, Kumar A, Satbhai SB, Patel MK, Saxena S, Chaurasia OP, Lingwan M, Masakapalli SK, Yadav RK ELONGATED HYPOCOTYL5 negatively regulates DECREASE WAX BIOSYNTHESIS to increase survival during UV-B stress. Plant Physiology 2020 Dec 1;184(4):2091-106  DOI: https://doi.org/10.1104/pp.20.01304

30. Bhatia M, Thakur J, Suyal S, Oniel R, Chakraborty R, Pradhan S, Sharma M, Sengupta S, Laxman S, Masakapalli SK, Bachhawat AK. Allosteric inhibition of MTHFR prevents futile SAM cycling and maintains nucleotide pools in one-carbon metabolism. Journal of Biological Chemistry 2020 Nov 20;295(47):16037-57. https://www.jbc.org/content/295/47/16037.short

31. Mehendale N, Jenne F, Joshi C, Sharma S, Masakapalli SK, MacKinnon N. A Nuclear Magnetic Resonance (NMR) Platform for Real-Time Metabolic Monitoring of Bioprocesses. Molecules 2020 Jan;25(20):4675. https://doi.org/10.3390/molecules25204675 

32. Joshi C, Sharma S, MacKinnon N, Masakapalli SK. Efficient System Wide Metabolic Pathway Comparisons in Multiple Microbes Using Genome to KEGG Orthology (G2KO) Pipeline Tool. Interdisciplinary Sciences: Computational Life Sciences. 2020 Sep;12(3):311-22. https://link.springer.com/article/10.1007/s12539-020-00375-7

33. Jyoti P, Shree M, Joshi C, Prakash T, Ray SK, Satapathy SS, Masakapalli SK. The Entner-Doudoroff and Nonoxidative Pentose Phosphate Pathways Bypass Glycolysis and the Oxidative Pentose Phosphate Pathway in Ralstonia solanacearum. Msystems. 2020 Apr 28;5(2). https://msystems.asm.org/content/5/2/e00091-20.abstract

34. Yadav A, Singh D, Lingwan M, Yadukrishnan P, Masakapalli SK, Datta S. Light signaling and UV‐B‐mediated plant growth regulation. Journal of Integrative Plant Biology. 2020 Apr 1.  https://doi.org/10.1111/jipb.12932

35. Akram S, Thakur J, Shree M, Masakapalli SK, Nanda RK. Kinetic isotope tracing of glycerol and de novo proteogenic amino acids in Human Lung Carcinoma cells using [13C6] glucose. bioRxiv. 2020 Jan 1. https://doi.org/10.1101/2020.10.28.358432 

36. Achary VM, Sheri V, Manna M, Panditi V, Borphukan B, Ram B, Agarwal A, Fartyal D, Teotia D, Masakapalli SK, Agrawal PK, Reddy MK. Overexpression of improved EPSPS gene results in field level glyphosate tolerance and higher grain yield in rice. Plant biotechnology journal. 2020 Dec;18(12):2504. https://doi.org/10.1111/pbi.13428 

37. Yadav A, Lingwan M, Yadukrishnan P, Masakapalli SK, Datta S. BBX31 promotes hypocotyl growth, primary root elongation and UV-B tolerance in Arabidopsis. Plant signaling & behavior. 2019 May 4;14(5):e1588672.

38. Yadav A, Bakshi S, Yadukrishnan P, Lingwan M, Dolde U, Wenkel S, Masakapalli SK, Datta S. The B-box-containing microprotein miP1a/BBX31 regulates photomorphogenesis and UV-B protection. Plant physiology. 2019 Apr 1;179(4):1876-92.

39. Sonika Pandey, Aprajita Kumari, Manu Shree, Vinod Kumar, Pooja Singh, Chellapilla Bharadwaj, Gary J Loake, Swarup K Parida, Shyam Kumar Masakapalli, Kapuganti Jagadis Gupta Nitric oxide accelerates germination via the regulation of respiration in chickpea. Journal of Experimental Botany, 2019, Sept; 70(17) ,4539–4555. https://doi.org/10.1093/jxb/erz185 

40. Shree M, Masakapalli SK. Intracellular fate of universally labelled 13C isotopic tracers of glucose and xylose in central metabolic pathways of Xanthomonas oryzae. Metabolites. 2018 Dec;8(4):66.

• A METHOD FOR INTEGRATING BIOPROCESSING WITH PYROLYSIS FOR VALUABLE CHEMICALS AND CARBON FROM BIOMASS 

Patent holders: Dr Chandrakant Joshi, Dr Shyam kumar Masakapalli and Dr Swati Sharma

Publication date: 14-01-2022 

Application no. :202111039582 

Patent no : 411230

• SYSTEM AND METHOD FOR CONCENTRATING THE WASTE AND PRODUCING VALUABLE GASES FROM WASTE OF TREATED WATER 

Patent holders: Ms Jyotika Thakur, Dr Hemant Thakur, Dr Atul Dhar, Dr Shyam Kumar Masakapalli

Publication date: 20-07-2023 

Application no.: 202111015581 

Patent no: 439753 

• HERBAL EXTRACT OF RHODODENDRON ARBORETUM FOR TREATMENT OF SARS-COV-2 VIRUS AND OTHER CORONA VIRUSES/COVID VARIANTS 

Patent holders: Ms Shagun, Dr Maneesh Lingwan, Dr Shyam kumar Masakapalli, Dr Ranjan Kumar Nanda and Dr Sujatha Sunil

Publication date: 14-03-2024 

Application no. 202211012925 

Patent no : 525944

1. Shagun, Masakapalli SK. Phytochemical Databases and their Relevance to Phytotherapy.  Bioactive Phytochemicals from Himalayas: A Phytotherapeutic Approach (Book Chapter). 2023  128-156 (29) DOI:10.2174/9789815123289123010013 

2. Shagun, Masakapalli SK. Tools and Techniques to Tap the Potential of Himalayan Bioactive Molecules.  Bioactive Phytochemicals from Himalayas: A Phytotherapeutic Approach (Book Chapter). 2023  157-175 (19) DOI:10.2174/9789815123289123010014

3. Mori D, Jyoti P, Thakur T, Masakapalli SK, Uday KV. Influence of Cementing Solution Concentration on Calcite Precipitation Pattern in Biocementation. In Advances in Computer Methods and Geomechanics 2020 (pp. 737-746). Springer, Singapore.

4. Shree M, Lingwan M, Masakapalli SK. Metabolite profiling and metabolomics of plant systems using 1H NMR and GC-MS. OMICS-Based Approaches in Plant Biotechnology (Book Chapter). 2019 Feb 13;129:129. DOI: https://doi.org/10.1002/9781119509967.ch7 

To be updated soon....