VIROLOGY AND VIRAL IMMUNOLOGY LAB
Publications
2025
68. Tiwari R, Mishra A, Rehman S, Mishra G, Baa A, Are VN, Jayakumar H, Nayak D. Essential role of clathrin and lipid rafts in pH-dependent entry of Chandipura virus: independence from caveolin pathway. J Infect Dis. 2025 Sep 1:jiaf446. doi: 10.1093/infdis/jiaf446. Epub ahead of print. PMID: 40888660.
67. Singh, O. N., Berry, U., Joshi, G., Asuru, T. R., Chandrasekar, K., Narayanan, S., Srivastava, P., Tiwari, M., Chattopadhyay, S., Mehdi, F., Panda, B. N., Nayak, D., Mani, S., Shrivastava, T., Batra, G., Ranjith-Kumar, C. T., Guchhait, P., & Surjit, M. (2025). Comparison of immunogenicity and protection efficacy of self-amplifying and circular mRNA vaccines against SARS-CoV-2. iScience, 28(9), 113498. https://doi.org/10.1016/j.isci.2025.113498
66. Sahu BP, Panda S, Singh RR, Swain SK, Sahoo N, Sahoo AK, Sahu SS, Nayak D. First complete genome characterisation of an Indian pigeon pox virus directly from a clinical sample. Virology. 2025 Aug 20;611:110663. doi: 10.1016/j.virol.2025.110663. Epub ahead of print. PMID: 40857907
65. Jasmeen P, Gupta P, Kaur C, Gauthami S, Pyasi S, Nayak D, Hegde NR. Rescue of bovine ephemeral fever virus through reverse genetics, but inability to propagate. Virusdisease. 2025 Mar;36(1):48-59. doi: 10.1007/s13337-024-00901-x.
2024
64. Are, V.N., Roy, R., Dhanda, S.K. et al. Predicting immune response targets in orthoflaviviruses through sequence homology and computational analysis. J Mol Model 30, 295 (2024). https://doi.org/10.1007/s00894-024-06088-8
63. Sahu BP, Das SP, Swain SK, Gadnayak A, Sahoo N, Nayak D. Complete mitogenome sequence analysis of an Indian Black Bengal goat, Capra hircus, and its phylogenetic consequences. 3 Biotech. 2024 May;14(5):143. doi: 10.1007/s13205-024-03993-w. Epub 2024 Apr 30. PMID: 38706930; PMCID: PMC11063009.
2023
62. Chakraborty A, Dash S, Thakur N, Agarwal V, Nayak D, Sarma TK. Polyoxometalate-Guanosine Monophosphate Hydrogels with Haloperoxidase-like Activity for Antibacterial Performance. Biomacromolecules. 2023 Dec 5. doi: 10.1021/acs.biomac.3c00845.
61. Mishra G, Prajapat V, Nayak D. Advancements in Nipah virus treatment: Analysis of current progress in vaccines, antivirals, and therapeutics. Immunology. 2023 Sep 15. doi: 10.1111/imm.13695.
60. Khan S, Nayak D, Vasudevan S. Photoacoustic Spectral Response using Ultrasound and Interferometric Sensors: A Correlation Study for a High Bandwidth Real-Time Blood Vasculature Monitoring Application in a Chick-Embryo Chorioallantoic Membrane (CAM) Model. Appl Spectrosc. 2023 Oct;77(10):1129-1137. doi: 10.1177/00037028231194088.
59. Kumar R, Mehta D, Nayak D, Sunil S. Characterization of an Aedes ADP-Ribosylation Protein Domain and Role of Post-Translational Modification during Chikungunya Virus Infection. Pathogens. 2023 May 16;12(5):718. doi: 10.3390/pathogens12050718
2022
58. Pyasi S, Jonniya NA, Sk MF, Nayak D, Kar P. Finding potential inhibitors against RNA-dependent RNA polymerase (RdRp) of bovine ephemeral fever virus (BEFV): an in-silico study. J Biomol Struct Dyn. 2022;40(20):10403-10421. doi: 10.1080/07391102.2021.
57. Kumar R, Mehta D, Chaudhary S, Nayak D, Sunil S. Impact of CHIKV Replication on the Global Proteome of Aedes albopictus Cells. Proteomes. 2022 Nov 10;10(4):38. doi: 10.3390/proteomes10040038.
56. Sheeba Rehman, Suman Bishnoi, Rajarshi Roy, Anshu Kumari, Harikrishnan Jayakumar, Sharad Gupta, Parimal Kar, Asit K. Pattnaik, and Debasis Nayak. Emerging Biomedical Applications of the Vesicular Stomatitis Virus Glycoprotein. ACS Omega 2022, 7, 37, 32840–32848. DOI: 10.1021/acsomega.2c03517
55. Sahu BP, Majee P, Singh RR, Sahoo N, Nayak D. Recombination drives the emergence of orf virus diversity: evidence from the first complete genome sequence of an Indian orf virus isolate and comparative genomic analysis. Arch Virol. 2022 Jul;167(7):1571-1576. doi: 10.1007/s00705-022-05443-5.
54. AR Mishra, D Nayak, SN Byrareddy. Mishra AR, Nayak D, Byrareddy SN. Are we moving toward ending SARS-CoV-2? J Med Virol. 2022 Jul;94(7):2921-2924. doi: 10.1002/jmv.27722.
53. Jaiswal S, Roy R, Dutta SB, Bishnoi S, Kar P, Joshi A, Nayak D, Gupta S. Role of Doxorubicin on the Loading Efficiency of ICG within Silk Fibroin Nanoparticles. ACS Biomater Sci Eng. 2022 Jul 11;8(7):3054-3065. doi: 10.1021/acsbiomaterials.1c01616.
52. Sahu BP, Majee P, Singh RR, Sahoo N, Nayak D. Genome-wide identification and characterization of microsatellite markers within the Avipoxviruses. 3 Biotech. 2022 May;12(5):113. doi: 10.1007/s13205-022-03169-4.
2021
51. Jaiswal S, Dutta SB, Nayak D, Gupta S. Effect of Doxorubicin on the Near-Infrared Optical Properties of Indocyanine Green. ACS Omega. 2021 Dec 10;6(50):34842-34849. doi: 10.1021/acsomega.1c05500
50. Kumar, R., Srivastava, P., Mathur, K. et al. Chikungunya virus non-structural protein nsP3 interacts with Aedes aegypti DEAD-box helicase RM62F. VirusDis. 32, 657–665 (2021). https://doi.org/10.1007/s13337-021-00734-y
49. S Khan, P Pathak, S Vasudevan, D Nayak. 2021. Non-invasive photoacoustic screening of blood vasculature during anti-angiogenesis using CAM assay. OSA Continuum 4 (11), 2821-2836
48. Kumar R, Nayak D, Somasekharan SP. SILAC-based quantitative MS approach reveals Withaferin A regulated proteins in prostate cancer. J Proteomics. 2021 Sep 15;247:104334. doi: 10.1016/j.jprot.2021.104334.
47. Singh R, Munya V, Are VN, Nayak D, Chattopadhyay S. A Biocompatible, pH-Sensitive, and Magnetically Separable Superparamagnetic Hydrogel Nanocomposite as an Efficient Platform for the Removal of Cationic Dyes in Wastewater Treatment. ACS Omega. 2021 Aug 31;6(36):23139-23154. doi: 10.1021/acsomega.1c02720.
46. Bishnoi S, Rehman S, Dutta SB, De SK, Chakraborty A, Nayak D, Gupta S. Optical-Property-Enhancing Novel Near-Infrared Active Niosome Nanoformulation for Deep-Tissue Bioimaging. ACS Omega. 2021 Aug 25;6(35):22616-22624. doi: 10.1021/acsomega.1c02632.
45. Vedagiri D, Gupta D, Mishra A, Krishna G, Bhaskar M, Sah V, Basu A, Nayak D, Kalia M, Valiya Veettil M, Harshan KH. Retinoic Acid-Inducible Gene I-Like Receptors Activate Snail To Limit RNA Viral Infections. J Virol. 2021 Oct 13;95(21):e0121621. doi: 10.1128/JVI.01216-21.
44. Pyasi S, Sharma V, Dipti K, Jonniya NA, Nayak D. Immunoinformatics Approach to Design Multi-Epitope- Subunit Vaccine against Bovine Ephemeral Fever Disease. Vaccines (Basel). 2021 Aug 19;9(8):925. doi: 10.3390/vaccines9080925.
43. Bishnoi S, Kumari A, Rehman S, Minz A, Senapati S, Nayak D, Gupta S. Fusogenic Viral Protein-Based Near-Infrared Active Nanocarriers for Biomedical Imaging. ACS Biomater Sci Eng. 2021 Jul 12;7(7):3351-3360. doi: 10.1021/acsbiomaterials.1c00267.
42. Tiwari, R., Mishra, Gupta, A., and Nayak, D. 2021. Structural similarity-based prediction of host factors associated with SARS-CoV-2 infection and pathogenesis. J Biomol Struct Dyn Jan 28;112. doi: 10.1080/07391102.2021.1874532.
41. Kumar R, Mehta D, Mishra R, Nayak D, and S Sunil. 2021. Role of Host-Mediated Post-Translational Modifications (PTMs) in RNA Virus Pathogenesis. Int. J. Mol. Sci. 22 (1), 323
40. Majee, P, Pattnaik A, Sahoo B.S, Shankar, U., Pattnaik, A, Kumar, A, and Nayak D. 2021 Inhibition of Zika Virus Replication by G-Quadruplex Binding Ligands: Molecular Therapy-Nucleic Acids https://doi.org/10.1016/j.omtn.2020.12.030
2020
39. Tiwari, R., Mishra, A., Mikaeloff, F., Gupta, S., Mirazimi, A., Byrareddy, S., Ujjwal, N., and Nayak, D. 2020. In silico and In vitro Studies Reveal Complement System Drives Coagulation Cascade in SARS-CoV-2 Pathogenesis. Comp Str Bio J. https://doi.org/10.1016/j.csbj.2020.11.005.
38. Roy, R., Mishra, A., Poddar, S., Nayak, D. and Kar, P. 2020. Investigating the mechanism of recognition and structural dynamics of nucleoprotein-RNA complex from Peste des petits ruminants virus via Gaussian accelerated molecular dynamics simulations. J Biomol Struct Dyn. doi: 10.1080/07391102.2020.1838327
37. Sahu, B.P., Majee, P., Singh, R.R., Sahoo, A., Nayak, D., 2020. Comparative analysis, distribution, and characterization of microsatellites in Orf virus genome. Sci. Rep. 10, 13852. https://doi.org/10.1038/s41598-020-70634-6
36. Mishra, A.R., Byrareddy, S.N., Nayak, D., 2020. IFN-I Independent Antiviral Immune Response to Vesicular Stomatitis Virus Challenge in Mouse Brain. Vaccines 8, 326. https://doi.org/10.3390/vaccines8020326.
35. Naim, A., Mishra, S.K., and Nayak, D. 2020. Biobanking of indigenous chicken germplasm by cryo-preservation of germline potent early embryonic cells and gonadal tissues. Indian Journal of Poultry Science 55 (1), 1-9
34. Moseman, E.A., Blanchard, A.C., Nayak, D., McGavern, D.B., 2020. T cell engagement of cross-presenting microglia protects the brain from a nasal virus infection. Sci. Immunol. 5. https://doi.org/10.1126/SCIIMMUNOL.ABB1817
33. Saini, B., Singh, R.R., Nayak, D., Mukherjee, T.K., 2020. Biocompatible pH-Responsive Luminescent Coacervate Nanodroplets from Carbon Dots and Poly(diallyldimethylammonium chloride) Toward Theranostic Applications. ACS Appl. Nano Mater. acsanm.0c00995. https://doi.org/10.1021/acsanm.0c00995
32. Majee, P., Shankar, U., Pasadi, S., Muniyappa, K., Nayak, D., Kumar, A., 2020. Genome-wide analysis reveals a regulatory role for G-quadruplexes during Adenovirus multiplication. Virus Res. 283, 197960. https://doi.org/10.1016/J.VIRUSRES.2020.197960
31. Pyasi, S., Sahu, B.P., Sahoo, P., Dubey, P.K., Sahoo, N., Byrareddy, S.N., Nayak, D., 2020. Identification and phylogenetic characterization of bovine ephemeral fever virus (BEFV) of Middle Eastern lineage associated with 2018‐2019 outbreaks in India. Transbound. Emerg. Dis. tbed.13531. https://doi.org/10.1111/tbed.13531
30. Panigrahi, A., Are, V.N., Jain, S., Nayak, D., Giri, S., Sarma, T.K., 2020. Cationic Organic Nanoaggregates as AIE Luminogens for Wash-Free Imaging of Bacteria and Broad-Spectrum Antimicrobial Application. ACS Appl. Mater. Interfaces 12, 5389–5402. https://doi.org/10.1021/acsami.9b15629
29. Majee, P., Kumar Mishra, S., Pandya, N., Shankar, U., Pasadi, S., Muniyappa, K., Nayak, D., Kumar, A., 2020. Identification and characterization of two conserved G-quadruplex forming motifs in the Nipah virus genome and their interaction with G-quadruplex specific ligands. Sci. Rep. 10, 1477. https://doi.org/10.1038/s41598-020-58406-8
28. Sahu, B.P., Majee, P., Mishra, C., Dash, M., Biswal, S., Sahoo, N., Nayak, D., 2020. The emergence of subclades A1 and A3 avipoxviruses in India. Transbound. Emerg. Dis. 67, 510–517. https://doi.org/10.1111/tbed.13413
27. Mishra, A.R., Kumar Rath, P., Kumar Panda, S., Nayak, D., 2020. Influence of mutation in nucleoprotein of Peste-des-petits-ruminants virus (PPRV) isolated from 2016 Indian outbreak. Small Rumin. Res. 184, 106048. https://doi.org/10.1016/J.SMALLRUMRES.2020.106048
2019
26. Tiwari, R., de la Torre, J.C., McGavern, D.B., Nayak, D., 2019. Beyond Tethering the Viral Particles: Immunomodulatory Functions of Tetherin ( BST-2 ). DNA Cell Biol. 38, 1170–1177. https://doi.org/10.1089/dna.2019.4777
25. Kundu, B.K., Mandal, P., Mukhopadhyay, B.G., Tiwari, R., Nayak, D., Ganguly, R., Mukhopadhyay, S., 2019. Substituent dependent sensing behavior of Schiff base chemosensors in detecting Zn2+and Al3+ ions: Drug sample analysis and living cell imaging. Sensors Actuators B Chem. 282, 347–358. https://doi.org/10.1016/J.SNB.2018.11.076
24. Panigrahi, A., Sahu, B.P., Mandani, S., Nayak, D., Giri, S., Sarma, T.K., 2019. AIE active fluorescent organic nanoaggregates for selective detection of phenolic-nitroaromatic explosives and cell imaging. J. Photochem. Photobiol. A Chem.374, 194–205. https://doi.org/10.1016/J.JPHOTOCHEM.2019.01.029
23. Sahu, B.P., Majee, P., Sahoo, A., Nayak, D., 2019. Molecular characterization, comparative and evolutionary analysis of the recent Orf outbreaks among goats in the Eastern part of India (Odisha). Agri Gene 12, 100088. https://doi.org/10.1016/J.AGGENE.2019.100088
2018
22. Adhikari, C., Mishra, A., Nayak, D., Chakraborty, A., 2018. Metal organic frameworks modified mesoporous silica nanoparticles (MSN): A nano-composite system to inhibit uncontrolled chemotherapeutic drug delivery from Bare-MSN. J. Drug Deliv. Sci. Technol. 47. https://doi.org/10.1016/j.jddst.2018.06.015
21. Adhikari, C., Mishra, A., Nayak, D., Chakraborty, A., 2018. Drug delivery system composed of mesoporous silica and hollow mesoporous silica nanospheres for chemotherapeutic drug delivery. J. Drug Deliv. Sci. Technol. 45. https://doi.org/10.1016/j.jddst.2018.03.020
20. Bishnoi, S., Tiwari, R., Gupta, S., Byrareddy, S.N., Nayak, D., 2018. Oncotargeting by Vesicular Stomatitis Virus (VSV): Advances in cancer therapy. Viruses 10. https://doi.org/10.3390/v10020090
19. Thakur, N., Sharma, B., Bishnoi, S., Mishra, S.K., Nayak, D., Kumar, A., Sarma, T.K., 2018. Multifunctional Inosine Monophosphate Coordinated Metal-Organic Hydrogel: Multistimuli Responsiveness, Self-Healing Properties, and Separation of Water from Organic Solvents. ACS Sustain. Chem. Eng. 6. https://doi.org/10.1021/acssuschemeng.8b00963
18. Urata, S., Kenyon, E., Nayak, D., Cubitt, B., Kurosaki, Y., Yasuda, J., de la Torre, J.C., McGavern, D.B., 2018. BST-2 controls T cell proliferation and exhaustion by shaping the early distribution of a persistent viral infection. PLoS Pathog. 14. https://doi.org/10.1371/journal.ppat.1007172
17. Das, M., Kumar Kundu, B., Tiwari, R., Mandal, P., Nayak, D., Ganguly, R., Mukhopadhyay, S., 2018. Investigation on chemical protease, nuclease and catecholase activity of two copper complexes with flexidentate Schiff base ligands. Inorganica Chim. Acta 469, 111–122. https://doi.org/10.1016/j.ica.2017.09.013
2017
16. Mandani, S., Majee, P., Sharma, B., Sarma, D., Thakur, N., Nayak, D., Sarma, T.K., 2017. Carbon Dots as Nanodispersants for Multiwalled Carbon Nanotubes: Reduced Cytotoxicity and Metal Nanoparticle Functionalization. Langmuir 33, 7622–7632. https://doi.org/10.1021/acs.langmuir.7b00557
2016
15. Das, A., Adhikari, C., Nayak, D., Chakraborty, A., 2016. First Evidence of the Liposome-Mediated Deintercalation of Anticancer Drug Doxorubicin from the Drug–DNA Complex: A Spectroscopic Approach. Langmuir 32, 159–170. https://doi.org/10.1021/acs.langmuir.5b03702
14. Swanson, P.A., Hart, G.T., Russo, M. V., Nayak, D., Yazew, T., Peña, M., Khan, S.M., Janse, C.J., Pierce, S.K., McGavern, D.B., 2016. CD8+T Cells Induce Fatal Brainstem Pathology during Cerebral Malaria via Luminal Antigen-Specific Engagement of Brain Vasculature. PLoS Pathog. 12, 1–24. https://doi.org/10.1371/journal.ppat.1006022
2015
13. Navarathna, D.H.M.L.P., Stein, E. V., Lessey-Morillon, E.C., Nayak, D., Martin-Manso, G., Roberts, D.D., 2015. CD47 promotes protective innate and adaptive immunity in a mouse model of disseminated candidiasis. PLoS One 10, 1–24. https://doi.org/10.1371/journal.pone.0128220
2014
12. Nayak, D., Roth, T.L., McGavern, D.B., 2014. Microglia Development and Function. Annu. Rev. Immunol. 32, 367–402. https://doi.org/10.1146/annurev-immunol-032713-120240
11. Gossa, S., Nayak, D., Zinselmeyer, B.H., McGavern, D.B., 2014. Development of an immunologically tolerated combination of fluorescent proteins for in vivo two-photon imaging. Sci. Rep. 4, 6664. https://doi.org/10.1038/srep06664
10. Roth, T.L., Nayak, D., Atanasijevic, T., Koretsky, A.P., Latour, L.L., McGavern, D.B., 2014. TRANSCRANIAL AMELIORATION OF INFLAMMATION AND CELL DEATH FOLLOWING BRAIN INJURY. Nature 505, 223. https://doi.org/10.1038/NATURE12808
2013
9. Navarathna, D.H.M.L.P., Munasinghe, J., Lizak, M.J., Nayak, D., Mcgavern, D.B., Roberts, D.D., 2013. MRI confirms loss of blood-brain barrier integrity in a mouse model of disseminated candidiasis. NMR Biomed. 26, 1125–1134. https://doi.org/10.1002/nbm.2926
8. Zinselmeyer, B.H., Heydari, S., Sacristán, C., Nayak, D., Cammer, M., Herz, J., Cheng, X., Davis, S.J., Dustin, M.L., McGavern, D.B., 2013. PD-1 promotes immune exhaustion by inducing antiviral T cell motility paralysis. J. Exp. Med. 210, 757–774. https://doi.org/10.1084/jem.20121416
7. Nayak, D., Johnson, K.R., Heydari, S., Roth, T.L., Zinselmeyer, B.H., McGavern, D.B., 2013. Type I interferon programs innate myeloid dynamics and gene expression in the virally infected nervous system. PLoS Pathog. 9, e1003395. https://doi.org/10.1371/journal.ppat.1003395
2012
6. Nayak, D., Zinselmeyer, B.H., Corps, K.N., McGavern, D.B., 2012. In vivo dynamics of innate immune sentinels in the CNS. Intravital 1, 95–106. https://doi.org/10.4161/intv.22823
2011
5. Kang, S.S., Herz, J., Kim, J. V, Nayak, D., Stewart-Hutchinson, P., Dustin, M.L., McGavern, D.B., 2011. Migration of cytotoxic lymphocytes in cell cycle permits local MHC I-dependent control of division at sites of viral infection. J. Exp. Med. 208, 747–759. https://doi.org/10.1084/jem.20101295
4. Panda, D., Das, A., Dinh, P.X., Subramaniam, S., Nayak, D., Barrows, N.J., Pearson, J.L., Thompson, J., Kelly, D.L., Ladunga, I., Pattnaik, A.K., 2011. RNAi screening reveals requirement for host cell secretory pathway in infection by diverse families of negative-strand RNA viruses. Proc. Natl. Acad. Sci. U. S. A. 108, 19036–41. https://doi.org/10.1073/pnas.1113643108
2009
3. Nayak, D., Panda, D., Das, S.C., Luo, M., Pattnaik, A.K., 2009. Single-Amino-Acid Alterations in a Highly Conserved Central Region of Vesicular Stomatitis Virus N Protein Differentially Affect the Viral Nucleocapsid Template Functions. J. Virol. 83, 5525–5534. https://doi.org/10.1128/JVI.02289-08.
2. Das, S.C., Panda, D., Nayak, D., Pattnaik, A.K., 2009. Biarsenical labeling of vesicular stomatitis virus encoding tetracysteine-tagged m protein allows dynamic imaging of m protein and virus uncoating in infected cells. J. Virol. 83, 2611–2622. https://doi.org/10.1128/JVI.01668-08
2006
1. Das, S.C., Nayak, D., Zhou, Y., Pattnaik, A.K., 2006. Visualization of Intracellular Transport of Vesicular Stomatitis Virus Nucleocapsids in Living Cells. J. Virol. 80, 6368–6377. https://doi.org/10.1128/JVI.00211-06