Publications | manidipa-banerjee

2024-2025:

47. Narula P, Lokshman MK, Pathak SB, Mukherjee S, Banerjee M. Chemical inactivation of two non-enveloped viruses results in distinct thermal unfolding patterns and morphological alterations. BMC Microbiol. 2024 Oct 17;24(1):413. doi: 10.1186/s12866-024-03565-1. PMID: 39420248; PMCID: PMC11484109.

46. Nag M, Pallavi J, Chakraborty S, Roychoudhury T, Mondal S, Ghosh A, Saha C, Banerjee M, Seal A. Bacterial endosymbionts of a nitrogen-fixing yeast Rhodotorula mucilaginosa JGTA-S1 - insights into a yet unknown micro-ecosystem. Mol Omics. 2024 Sep 12. doi: 10.1039/d3mo00273j. Epub ahead of print. PMID: 39263696.

45. Vishwakarma P, Puri S, Banerjee M, Chang CY, Chang CC, Chaudhuri TK. Deciphering the Thermal Stability of Bacteriophage MS2-Derived Virus-like Particle and Its Engineered Variant. ACS Biomater Sci Eng. 2024 Aug 12;10(8):4812-4822. doi: 10.1021/acsbiomaterials.4c00770. Epub 2024 Jul 8. PMID: 38976823.

44. Shukla AK, Banerjee M, Singh AK, Penmatsa A, Dutta S, Anand R, Sirajuddin M, Srivastava SS. Cryo-EM research in India. Structure. 2024 Feb 1;32(2):113-119. doi: 10.1016/j.str.2024.01.002. PMID: 38306986.

43. Shrivastav G, Borkotoky S, Dey D, Singh B, Malhotra N, Azad K, Jayaram B, Agarwal M, Banerjee M. Structure and energetics guide dynamic behaviour in a T = 3 icosahedral virus capsid. Biophys Chem. 2024 Feb;305:107152. doi: 10.1016/j.bpc.2023.107152. Epub 2023 Dec 8. PMID: 38113782.

2022-2023:

42. Singh VA, Kumar CS, Khare B, Kuhn RJ, Banerjee M, Tomar S. Surface decorated reporter-tagged chikungunya virus-like particles for clinical diagnostics and identification of virus entry inhibitors. Virology. 2023 Jan;578:92-102. doi: 10.1016/j.virol.2022.11.012. Epub 2022 Nov 27. PMID: 36473281.

41. Kumar CS, Singh B, Rizvi ZA, Parray HA, Verma JK, Ghosh S, Mukhopadhyay A, Awasthi A, Shrivastava T, Banerjee M. Virus-Like Particles of SARS-CoV-2 as Virus Surrogates: Morphology, Immunogenicity, and Internalization in Neuronal Cells. ACS Infect Dis. 2022;8(10):2119-2132. doi:10.1021/acsinfecdis.2c00217

40. Chiranjivi AK, Kumar D, Kumar R, Parray HA, Ahmed S, Kumar CS, Shrivastava T, Banerjee M, Prasad BVV, Das S. Generation of soluble, cleaved, well-ordered, native-like dimers of dengue virus 4 envelope protein ectodomain (sE) suitable for vaccine immunogen design. Int J Biol Macromol. 2022;217:19-26. doi:10.1016/j.ijbiomac.2022.07.028

39. Nain, A., Kumar, M., & Banerjee, M. (2022). Oligomers of hepatitis A virus (HAV) capsid protein VP1 generated in a heterologous expression system. Microbial Cell Factories, 21(1), 1-12

38. Sikdar, S., Banerjee, M., & Vemparala, S. (2022). Role of Disulphide Bonds in Membrane Partitioning of a Viral Peptide. The Journal of membrane biology, 1-14

37. Munjal, N. S., Sapra, D., Parthasarathi, K. S., Goyal, A., Pandey, A., Banerjee, M., & Sharma, J. (2022). Deciphering the Interactions of SARS-CoV-2 Proteins with Human Ion Channels Using Machine-Learning-Based Methods. Pathogens, 11(2), 259.

2020-2021:

36. Sikdar, S., Banerjee, M., & Vemparala, S. (2021). Effect of cholesterol on the membrane partitioning dynamics of hepatitis A virus-2B peptide. Soft Matter,17(34),7963-7977.

35. Ghosh, S., Banerjee, M. A smart viral vector for targeted delivery of hydrophobic drugs. Sci Rep 11, 7030 (2021). https://doi.org/10.1038/s41598-021-86198-y

34. Ahmed S, Shrivastava T, Kumar R, Kumar M, Banerjee M, Kumar N, Bansal M, Das S, Samal S. Design and characterization of a germ-line targeting soluble, native-like, trimeric HIV-1 Env lacking key glycans from the V1V2-loop. Biochim Biophys Acta Gen Subj. 2020 Sep 16;1865(1):129733. doi: 10.1016/j.bbagen.2020.129733

33. Dhawan S , Singh H , Ghosh S , Khokhar V , Pandey S , Banerjee M , Haridas V . Unprecedented formation of reverse micellar vesicles from psuedopeptidic bottlebrush polymers. Chem Commun (Camb). 2020 Oct 14;56(80):12005-12008. doi: 10.1039/d0cc01717e. Epub 2020 Sep 9.

32. Kumar M, Pant A, Bansal R, Pandey A, Gomes J, Khare K, Singh Rathore A, Banerjee M. Electron microscopy-based semi-automated characterization of aggregation in monoclonal antibody products. Comput Struct Biotechnol J. 2020 Jun 11;18:1458-1465. doi: 10.1016/j.csbj.2020.06.009.

31. Borkotoky S, Banerjee M. A computational prediction of SARS-CoV-2 structural protein inhibitors from Azadirachta indica (Neem). J Biomol Struct Dyn. 2020 May 28:1-17. doi: 10.1080/07391102.2020.1774419. Epub ahead of print. PMID: 32462988;

30. Gupta J, Kaul S, Srivastava A, Kaushik N, Ghosh S, Sharma C, Batra G, Banerjee M, Shalimar, Nayak B, Ranjith-Kumar CT, Surjit M. Expression, Purification and Characterization of the Hepatitis E Virus Like-Particles in the Pichia pastoris. Front Microbiol. 2020 Feb 6;11:141. doi: 10.3389/fmicb.2020.00141.

29. Paul K, Saha C, Nag M, Mandal D, Naiya H, Sen D, Mitra S, Kumar M, Bose D, Mukherjee G, Naskar N, Lahiri S, Das Ghosh U, Tripathi S, Sarkar MP, Banerjee M, Kleinert A, Valentine AJ, Tripathy S, Sinharoy S, Seal A. A Tripartite Interaction among the Basidiomycete Rhodotorula mucilaginosa, N2-Fixing Endobacteria, and Rice Improves Plant Nitrogen Nutrition. Plant Cell. 2020 Feb;32(2):486-507. doi: 10.1105/tpc.19.00385. Epub 2019 Nov 22. PMID: 31757927

2018-19:

28. Nair P, Dey D, Borkotoky S, Banerjee M. (2019). Hydrophobicity and oligomerization are essential parameters for membrane penetration activity of the VP4 peptide from Hepatitis A Virus (HAV). 108188.

27. Singh R, Kumar CS, Banerjee M, and Gupta S. (2019). A Dual Drug Delivery Platform for Cancer–Bacteria Cotargeting ACS Applied Bio Materials Article ASAP. DOI: 10.1021/acsabm.9b00724.

26. Dhavan S*, Ghosh S*, Ravinder R, Bais SS, Basak S, Anoop Krishnan NM, Agarwal M, Banerjee M and Haridas V. Redox sensitive self-assembling dipetide for sustained intracellular drug delivery. Bioconjugate Chemistry 2019 30 (9), 2458-2468. DOI: 10.1021/acs.bioconjchem.9b00532. (*equal contribution)

25. Azad K and Banerjee M. (2019). Structural Dynamics of Nonenveloped Virus Disassembly Intermediates. Journal of Virology, 93(22), e01115-19. https://doi.org/10.1128/JVI.01115-19.

24. Dey D, Siddiqui SI, Mamidi P, Ghosh S, Kumar CS, Chattopadhyay S, et al. (2019) The effect of amantadine on an ion channel protein from Chikungunya virus. PLoS Negl Trop Dis 13(7): e0007548. https://doi.org/10.1371/journal.pntd.0007548.

23. Kamalika B*, Ruchika B*, VU Bhaskara R, Anshu N, Kartik Lakshmi R, Sohona G, Ravi PS, Manidipa B, B Jayaram (2018) Toward development of generic inhibitors against the 3C proteases of picornaviruses. The FEBS Journal, https://doi.org/10.1111/febs.14707.

22. Salunke, R., Mourier, T., Banerjee, M., Pain, A., & Shanmugam, D. (2018). Highly diverged novel subunit composition of apicomplexan F-type ATP synthase identified from Toxoplasma gondii. PLoS biology, 16(7), e2006128. doi:10.1371/journal.pbio.2006128

2016-17:

21. CS Kumar, D Dey, S Ghosh, M Banerjee. Breach: Host Membrane Penetration and Entry by Nonenveloped Viruses. Trends in Microbiology. doi.org/10.1016/j.tim.2017.09.010.

20. Azad K, Banerjee M, Johnson JE. Enzymes and Enzyme Activity Encoded by Nonenveloped Viruses. Annu Rev Virol. 2017 Jun 21. doi: 10.1146/annurev-virology-101416-041944.

19. Dey D, Banerjee M. Inhibitor-Based Therapeutics for Treatment of Viral Hepatitis. J Clin Transl Hepatol. 2016 Sep 28; 4(3): 248–257.

18. Bajaj S, Dey D, Bhukar R, Kumar M and Banerjee M. Non-Enveloped Virus Entry: Structural Determinants and Mechanism of Functioning of a Viral Lytic Peptide. J Mol. Biol. doi:10.1016/j.jmb.2016.06.006 (2016).

17. Bajaj S, Banerjee M. In vitro assembly of polymorphic virus-like particles from the capsid protein of a nodavirus. Virology. 2016 Sep;496:106-15. doi: 10.1016/j.virol.2016.05.025.

16. Geethu E. Thomas, K. Bandopadhyay, Sabyasachi Sutradhar, M. R. Renjith, Puja Singh, K. K. Gireesh, Steny Simon, Binshad Badarudeen, Hindol Gupta, Manidipa Banerjee, Raja Paul, J. Mitra & Tapas K. Manna. EB1 regulates attachment of Ska1 with microtubules by forming extended structures on the microtubule lattice. Nat. Commun. 7:11665 doi: 10.1038/ncomms11665 (2016).

2014-15:

15. Shukla A, Dey D, Banerjee K, Nain A and Banerjee M. The C-terminal region of the non-structural protein 2B from Hepatitis A Virus demonstrates lipid-specific viroporin-like activity. Sci. Rep. 5, 15884; doi: 10.1038/srep15884 (2015).

14. Bajaj S, Banerjee M. Engineering virus capsids into biomedical delivery vehicles: Structural engineering problems in nanoscale. J Biomed Nanotechnol. 2015 Jan;11(1):53-69.

13. Shukla A, Padhi A.K, Gomes J and Banerjee M. The VP4 peptide of Hepatitis A Virus (HAV) Ruptures Membranes Through Formation of Discrete Pores. J Virol. 2014 August 2014, doi:10.1128/JVI.01896-14.

12. AK Padhi, K Banerjee, J Gomes, M Banerjee (2014) Computational and Functional Characterization of Angiogenin Mutations, and Correlation with Amyotrophic Lateral Sclerosis, PloS one 9 (11), e111963.

2002-2010:

11. Banerjee M, Speir J, Kwan MH, Huang R, Aryanpur PP, Bothner BB, Johnson JE. Structure and function of a genetically engineered mimic of a non-enveloped virus entry intermediate. J Virol. 2010 May;84(9):4737-46. Spotlighted.

10. Odegard A, Banerjee M and Johnson JE. Flock House Virus: A model system for understanding non-enveloped virus entry and membrane penetration.Curr Top Microbiol Immunol. 2010 Apr 21 [Epub ahead of print].

9. Odegard AL, Kwan MH, Walukiewicz HE, Banerjee M, Schneemann A, Johnson JE. Low endocytic pH and capsid protein autocleavage are critical components of flock house virus cell entry. J Virol. 2009 Sep;83(17):8628-37.

8. Banerjee M, Khayat R, Odegard AL, Walukiewicz HE, Schneemann A and Johnson JE. Dissecting the functional domains of a non-enveloped virus membrane penetration peptide. J Virol. 2009 Jul;83(13):6929-33.

7. Walukiewicz HE, Banerjee M, Schneemann A, Johnson JE. Rescue of maturation-defective flock house virus infectivity with noninfectious, mature, viruslike particles. J Virol. 2008 Feb;82(4):2025-7.

6. Banerjee M, Johnson JE. Activation, exposure and penetration of virally encoded, membrane-active polypeptides during non-enveloped virus entry. Curr Protein Pept Sci. 2008 Feb;9(1):16-27.

5. Hrtska SC, Kemp MM, Munoz EM, Azizad O, Banerjee M, Raposo C, Kumaran J, Ghosh P, Linhardt RJ. Investigation of the mechanism of binding between InternalinB and heparin using surface plasmon resonance. Biochemistry 2007 Mar 13; 46 (10) : 2697-706.

4. Marino M, Banerjee M, Copp J, Dramsi S, Chapman T, van der Geer P, Cossart P, Ghosh P. Characterisation of the calcium-binding sites of L. monocytogenes InlB. Biochemical and Biophysical Research Communications 2004 Apr 2; 316(2): 379-86.

3. Banerjee M*, Copp J*, Vuga D, Marino M, Chapman T, van der Geer P, Ghosh P. GW domains of the Listeria monocytogenes invasion protein InlB are required for potentiation of Met activation. Molecular Microbiology 2004 Apr 52(1): 257-71. * equal contribution

2. Copp J, Marino M, Banerjee M, Ghosh P, van der Geer P. Multiple regions of internalin B contribute to its ability to turn on the Ras-mitogen-activated protein kinase pathway. J Biol Chem 2003 Mar 7; 278 (10): 7783-9.

1. Marino M, Banerjee M, Jonquieres R, Cossart P, Ghosh P. GW domains of the Listeria monocytogenes invasion protein InlB are SH3-like and mediate binding to host ligands. EMBO J. 2002 Nov 1; 21 (21): 5623-34.

Book Chapters:

Banerjee M, Speir JA and Johnson JE. Structural comparison of insect RNA viruses. Insect Virology (Horizon Scientific Press).