R.  Samson, Shah, M., Yadav, R., Sarode, P., Rajput, V., Dastager, S. G., Dharne, M. S., and Khairnar, K., ?Metagenomic insights to understand transient influence of Yamuna River on taxonomic and functional aspects of bacterial and archaeal communities of River Ganges?, Science of the Total Environment, vol. 674, pp. 288-299, 2019.

R.  Samson, Navale, G. R., and Dharne, M. S., ?Biosensors: frontiers in rapid detection of COVID-19?, 3 Biotech, vol. 10, no. 9, p. 385, 2020.

R.  Samson, Rajput, V., Shah, M., Yadav, R., Sarode, P., Dastager, S. G., Dharne, M. S., and Khairnar, K., ?Deciphering taxonomic and functional diversity of fungi as potential bioindicators within confluence stretch of Ganges and Yamuna Rivers, impacted by anthropogenic activities?, Chemosphere, vol. 252, 2020.

K.  Gohil, Samson, R., Dastager, S., and Dharne, M., ?Probiotics in the prophylaxis of COVID-19: something is better than nothing?, 3 Biotech, vol. 11, no. 1, 2021.

R.  Samson and Dharne, M., ?COVID-19 associated mucormycosis: evolving technologies for early and rapid diagnosis?, 3 Biotech, vol. 12, no. 1, p. 6, 2022.

P.  Singh, Ujjainiya, R., Prakash, S., Naushin, S., Sardana, V., Bhatheja, N., Singh, A. Pratap, Barman, J., Kumar, K., Gayali, S., Khan, R., Rawat, B. Singh, Tallapaka, K. Bharadwaj, Anumalla, M., Lahiri, A., Kar, S., Bhosale, V., Srivastava, M., Mugale, M. Nilakanth, Pandey, C. P., Khan, S., Katiyar, S., Raj, D., Ishteyaque, S., Khanka, S., Rani, A., Promila,, Sharma, J., Seth, A., Dutta, M., Saurabh, N., Veerapandian, M., Venkatachalam, G., Bansal, D., Gupta, D., Halami, P. M., Peddha, M. Serva, Veeranna, R. P., Pal, A., Singh, R. Kumar, Anandasadagopan, S. Kumar, Karuppanan, P., Rahman, S. Nasar, Selvakumar, G., Venkatesan, S., Karmakar, M. Kumar, Sardana, H. Kumar, Kothari, A., Parihar, D. Singh, Thakur, A., Saifi, A., Gupta, N., Singh, Y., Reddu, R., Gautam, R., Mishra, A., Mishra, A., Gogeri, I., Rayasam, G., Padwad, Y., Patial, V., Hallan, V., Singh, D., Tirpude, N., Chakrabarti, P., Maity, S. Krishna, Ganguly, D., Sistla, R., Balthu, N. Kumar, Kumar, K. A., Ranjith, S., B. Kumar, V., Jamwal, P. Singh, Wali, A., Ahmed, S., Chouhan, R., Gandhi, S. G., Sharma, N., Rai, G., Irshad, F., Jamwal, V. Lakshmi, Paddar, M. Ahmad, Khan, S. Ullah, Malik, F., Ghosh, D., Thakkar, G., Barik, S. K., Tripathi, P., Satija, Y. Kumar, Mohanty, S., Khan, M. Tauseef, Subudhi, U., Sen, P., Kumar, R., Bhardwaj, A., Gupta, P., Sharma, D., Tuli, A., Chaudhuri, S. Ray, Krishnamurthi, S., Prakash, L., V. Rao, C., Singh, B. N., Chaurasiya, A., Chaurasiya, M., Bhadange, M., Likhitkar, B., Mohite, S., Patil, Y., Kulkarni, M., Joshi, R., Pandya, V., Mahajan, S., Patil, A., Samson, R., Vare, T., Dharne, M., Giri, A., Mahajan, S., Paranjape, S., G. Sastry, N., Kalita, J., Phukan, T., Manna, P., Romi, W., Bharali, P., Ozah, D., Sahu, R. K., Dutta, P., Singh, M. Goutam, Gogoi, G., Tapadar, Y. Begam, Babu, E. V. S. S. K., Sukumaran, R. K., Nair, A. R., Puthiyamadam, A., Valappil, P. Kooloth, Prasannakumari, A. Velayudhan, Chodankar, K., Damare, S., Agrawal, V. Varun, Chaudhary, K., Agrawal, A., Sengupta, S., and Dash, D., ?Machine learning-based approach to determine infection status in recipients of BBV152 (Covaxin) whole-virion inactivated SARS-CoV-2 vaccine for serological surveys?, Computers in Biology and Medicine, vol. 146, p. 105419, 2022.

V.  Rajput, Samson, R., Yadav, R., Dastager, S., Khairnar, K., and Dharne, M., ?Metagenomic mining of Indian river confluence reveal functional microbial community with lignocelluloytic potential?, 3 Biotech, vol. 12, no. 6, p. 132, 2022.

V.  Rajput, Pramanik, R., Malik, V., Yadav, R., Samson, R., Kadam, P., Bhalerao, U., Tupekar, M., Deshpande, D., Shah, P., Shashidhara, L. S., Boargaonkar, R., Patil, D., Kale, S., Bhalerao, A., Jain, N., Kamble, S., Dastager, S., Karmodiya, K., and Dharne, M., ?Genomic surveillance reveals early detection and transition of delta to omicron lineages of SARS-CoV-2 variants in wastewater treatment plants of Pune, India?, Environmental Science and Pollution Research , vol. 30, no. 56, pp. 118976-118988, 2023.

R.  Samson, Rajput, V., Yadav, R., Shah, M., Dastager, S., Khairnar, K., and Dharne, M., ?Spatio-temporal variation of the microbiome and resistome repertoire along an anthropogenically dynamic segment of the Ganges River, India?, Science of the Total Environment, vol. 872, p. 162125, 2023.

R.  Samson, Dharne, M., and Khairnar, K., ?Bacteriophages: status quo and emerging trends toward one health approach?, Science of The Total Environment, vol. 908, 2024.

M.  Mahale, Samson, R., Dharne, M., and Kodam, K., ?Harnessing the potential of Achromobacter sp. M1 to remediate heavy metals from wastewater: genomic insights and environmental applications?, Journal of Hazardous Materials, vol. 480, p. 136125, 2024.

R.  Samson, Pawar, A., Khairnar, K., and Dharne, M., ?Characterization of a novel Tequatrovirus phage from pristine stretch of the Ganges River, India, in reducing bacterial load from sewage water?, Journal of Environmental Chemical Engineering, vol. 13, no. 3, p. 116315, 2025.

S. S.  Dandekar, Thanikkal, S., Londhe, A., Bhutada, P., Saha, U., Pawar, S., Samson, R., Dharne, M., Saroj, S. D., and Koratkar, S., ?Characterization of novel phages KPA?1, KP149?1, and KP149?2 for lytic efficiency against clinical MDR Klebsiella pneumoniae infections?, Microbial Pathogenesis, vol. 202, p. 107440, 2025.

R.  Samson, Kumar, S., Dastager, S., Khairnar, K., and Dharne, M., ?Deciphering the comprehensive microbiome of glacier-fed Ganges and functional aspects: implications for one health?, Microbiology Spectrum, vol. 13, no. 8, 2025.

V.  Mahajan, Samson, R., and Dharne, M., ?Genome mining, probiotic characteristics, and in-silico safety assessment of Limosilactobacillus fermentum AV7 isolated from Avocado fruit pulp?, LWT-Food Science and Technology, vol. 216, p. 117231, 2025.

R.  Pramanik, Rajput, V., Malik, V., Nannaware, K., Matra, S., Joshi, S., Kumar, S., Samson, R., Yadav, R. Kumar, Shah, P., Shashidhara, L. S., Dastager, S., Karmodiya, K., and Dharne, M., ?Long-term genomic surveillance of SARS-CoV-2 in campus wastewater depicts lineage trends and public health implications during and after omicron waves?, Environment & Health, vol. 3, no. 8, pp. 908?919, 2025.