People : Scientific : Faculty & Scientists

DR. ARUP BANERJEE, Ph.D. 

Research Scientist D
+91-129-2876325  (09650328080)
banerjeea [at] thsti [dot] res [dot] in
PhD (Science): Jadavpur University, Kolkata, India
M.Sc (Biochemistry): University of Calcutta, India
B.Sc (Chemistry): University of Calcutta, India

Present Research Interest

MicroRNAs (miRNAs) and long non-coding RNAs (lncRNAs) are the non-coding regulatory RNAs that have the capacity to regulate gene expression programs. Their differential expression within immune cells highlights their potential in defining immune cell function. Several viruses modulate host non-coding RNAs to create a favorable environment for their propagation.  My laboratory focuses on understanding the role of non-coding RNA in developing disease progression. Our lab investigates the human immune responses to several infectious diseases, particularly dengue and Japanese Encephalitis virus infections in vitro and clinical setting; trying to understand the function of dysregulated non-coding RNAs in inflammation, the transcription, and regulation of immune response genes. Our long-term goal is not only to understand the fundamental mechanisms of non-coding RNA function related to diseases but also to explore therapeutic aspects of targeting RNAs to control the mortality caused due to the infections.

Another area we have recently started to explore is studying the role of extracellular Nano-vesicles, also called exosomes, during the infection. The exosome can be isolated from many biological fluids including blood, urine, and saliva. These exosomes contain molecular information about their cells of origin and play important roles in intercellular communication by acting as a carrier to deliver essential cell-specific information to target cells. Exosomes released from the infected cells contains several biologically active molecules (DNA, miRNA, LncRNAs, host and viral proteins, viral RNA) and deliver the content to the distant cells. Several viruses utilize this machinery to evade immune response and subsequently help to spread the infection.

Our objectives for the study are many folds; 1) to develop a protocol for identifying tissue origins of circulating exosomes and (2) the to compare and characterize exosomes content isolated from human blood, CSF samples of healthy, mild, and severe patients. We will apply information gained from these studies to develop carrier vesicles to deliver drugs to the specific tissues or organ like the brain to treat brain inflammation caused by the infection and will help us to develop disease-specific prognostic markers. (3) We will also explore to understand the biological significance of exosomes released during infection and their impact on immune modulation and pathogenesis.

   

Research Area 1; Role of microRNAs in innate immune response and pathogenesis during Japanese Encephalitis virus (JEV) infection 

Japanese encephalitis virus (JEV) is responsible for; 50,000 cases of encephalitis worldwide annually with 30% mortality and permanent neurological disabilities in 50% of survivors. With several billion people at risk in India, China, and southeastern Asian region, JE represents an emerging global disease of significant concern. An important thing in JEV infection is; once the virus invades the central nervous system, the course of the disease is very rapid, suggesting that success in developing antiviral treatment modalities hinges on the ability to reduce the viral load early in the infection. This strongly indicates that JEV develops a strategy to overcome the initial innate immune barrier. Therefore, it will be important to study the mechanism of innate immune evasion by JEV. Considering that cellular miRNAs play important roles in many mammalian viral life cycles, it presumes that they may also participate in the molecular pathogenesis of viral infection. MicroRNAs (miRNAs) are endogenously expressed small non-coding RNAs, which are evolutionarily conserved and function as regulators of gene expression. Exosome-containing miRNAs play a significant role in cell to cell communication and acts as mediators of Neuroinflammation. In my lab, we are focusing on understanding (1) How JEV infection modulates microRNA expression in infected microglia to control innate immune response; (2) Identification of host microRNAs that potentially target JEV genome and inhibit JEV replication; (3) Biological significance of JEV induced extracellular microRNAs and their impact on immune modulation

Research Area 2: Identification of novel biomarker for disease progression in Dengue patients

Dengue virus infection is now recognized as one of the most important mosquito-borne human infections of the 21st century. The virus is known to promote vascular permeability, cerebral edema leading to Dengue hemorrhagic fever [DHF] or Dengue shock syndrome (DSS). In recent years, the disease has changed its course, manifesting in the severe form as DHF and with increasing frequency of outbreaks. Delhi has experienced 11 outbreaks of dengue virus infection since 1997 with the last reported in 2015. The ability to predict which patient may develop DHF and DSS may improve the triage and treatment. Our focus in this project is to study the early transcriptional signature in the peripheral blood mononuclear cells (PBMCs) and plasma in a significant number of clinically, and virologically well-characterized patients with mild and severe dengue infection and establish their correlation with disease progression.

  • Recent Publications: As PI

     

    1. Pandey AD, Goswami S, Shukla S, Das S, Ghosal S, Pal M, Bandyopadhyay B, Ramachandran V, Basu N, Sood V, Pandey P, Chakrabarti J, Vrati S, Banerjee A.  Correlation of altered expression of a long non-coding RNA, NEAT1, in peripheral blood mononuclear cells with dengue disease progression. J Infect. 2017 Oct 12. pii: S0163-4453(17)30308-0. doi: 10.1016/j.jinf.2017.09.016. [Epub ahead of print]
      PMID:
       
      29031635
    2. Banerjee A,Shukla S, Pandey AD, Goswami S, Bandyopadhyay S,Ramachandran V, Das S, Malhotra A, Agarwal A, Adhikari S, Rahman M, Chatterjee S, Bhattacharya N, Basu N, Pandey P,Sood V, Vrati S.  RNA-Seq analysis of peripheral blood mononuclear cells reveals unique transcriptional signatures associated with disease progression in dengue patients.Translational Research, 2017 Aug;186:62-78.e9. doi: 10.1016/j.trsl.2017.06.007.
    3. Pareek S, Roy S, Kumari B, Jain P, Banerjee A, Vrati S. miR-155 induction in microglial cells suppresses Japanese encephalitis virus replication and negatively modulates innate immune responses. J Neuroinflammation. 2014 May 29;11(1):97. PMID: 24885259,  DOI 10.1186/1742-2094-11-97
    4. Kumari B, Jain P, Das S, Ghosal S, Hazra B, Trivedi AC, Basu A, Chakrabarti J, Vrati S, BanerjeeA. Dynamic changes in global microRNAome and transcriptome reveal complex miRNA-mRNA regulated host response to Japanese Encephalitis Virus in microglial cells. Scientific Reports 2016Feb 3;6:20263. doi: 10.1038/srep20263, PMID:26838068
    5. Goswami S, Banerjee A, Kumari B, Bandopadhyay B, Bhattacharya N, Basu N, Vrati S,Arup Banerjee.Differential expression and significance of circulating microRNAs in cerebrospinal fluid of acute encephalitis patients infected with Japanese Encephalitis Virus. Molecular Neurobiology (2016)PMID: 26860411  PMID: 26860411, DOI: 10.1007/s12035-016-9764-y

Publications: As Co-PI

5.    Sarkar N, Panigrahi R, PalA,  Biswas A,  Singh SP, Kar S,  BandopadhyayM,  DasD,  Saha D, Kanda T,  Sugiyama M,   Chakrabarti S,  Banerjee A,  Chakravarty R. Expression of microRNA-155 correlates positively with the expression of Toll Like Receptor 7 and modulates Hepatitis B Virus via C/EBP-β in Hepatocytes.J Viral Hepatitis 2015Oct;22(10):817-27.

6.     BandopadhyayM, Banerjee A, Sarkar N, Panigrahi R, Datta S, Pal A, Singh SP, Biswas A, Chakrabarti S, Chakravarty R. Tumor suppressor micro RNA miR-145 and onco micro RNAs miR-21 and miR-222 expressions are differentially modulated by hepatitis B virus X protein in malignant hepatocytes. BMC Cancer. 2014 Sep 26;14:721.

7.  Pal A, Panigrahi R, Biswas A, Datta S, Sarkar N, Guha SK, Saha B, Banerjee A,        Chakrabarti S, Chakravarty R. Influence of HIV-associated degree of immune suppression on molecular heterogeneity of hepatitis B virus among HIV co-infected patients. Virology. 2013, 436:134-42. 

1.     Panigrahi R, Biswas A, Banerjee A, Singh SP, Panigrahi MK, Roque-Afonso AM, Das HS, Mahapatra PK, Chakrabarti S, Chakravarty R. Subgenotype D5, BCP and MHR mutations in hepatic complications among hepatitis B virus infected patients from Orissa, India. Infect Genet Evol. 2012 Dec;12(8):1622-9. IF: 3.015 Cited by: 6

2.     Biswas A, Panigrahi R, Banerjee A, Pal M, De BK, Chakrabarti S, Chakravarty R. Differential pattern of pre-S mutations/deletions and its association with hepatitis B virus genotypes in Eastern India. Infect Genet Evol. 2012 Mar;12(2):384-91. IF: 3.015 Cited by: 10

3.     Panigrahi R, Majumder S, Gooptu M, Biswas A, Datta S, Chandra PK, Banerjee A, Chakrabarti S, Bandopadhyay D, De BK, Chakravarty R. Occult HBV infection among anti-HBc positive HIV-infected patients in apex referral centre, Eastern India. Ann Hepatol. 2012 Nov-Dec;11(6):870-5.

2011

4.     Banerjee A,Mazumdar B, Meyer K, Di BisceglieAM, Ray RB, Ray R. Transcriptional repression of C4 complement by hepatitis C virus proteins. J Virol.2011; 85:4157-66. Cited by: 25

5.     Mazumdar B, Banerjee A, Meyer K, Ray R. Hepatitis C virus E1 envelope glycoprotein interacts with apolipoproteins in facilitating entry into hepatocytes. Hepatology.2011, 54:1149-56. Cited by: 31

6.     Meyer K, Banerjee A, Frey SE, Belshe RB, Ray R. A weak neutralizing antibody response to hepatitis C virus envelope glycoprotein enhances virus infection. PLoS One. 2011;6(8):e23699. Cited by: 16

7.     Biswas A, Banerjee A, Chandra PK, Datta S, Panigrahi R, Dutta D, De BK, Pal M, Guha SK, Chakrabarti S, Chakravarty R. Variations in the functional domain of basal core promoter of hepatitis B virus among Eastern Indian patients with prevalence of genotypes A, C, and D among the same ethnic population. J Med Virol. 2011 Feb;83(2):253-60. Cited by: 11

2010

  1. Banerjee A,Meyer K, Mazumdar B, Ray RB, Ray R. Hepatitis C virus infection differentially modulates activation of Fork-head transcription factors and insulin induced metabolic gene expression. J Virol. 2010,84:5936-46. Cited by: 32
  2. Ait-Goughoulte M, Banerjee A, Meyer K, Mazumdar B, Ray RB, Ray R. Hepatitis C virus core protein interacts with fibrinogen-β and attenuates cytokine stimulated acute phase response. Hepatology 2010,51:1505-13. Cited by: 25
  3. Ray R, Meyer k, Banerjee A, Basu A, Houghton M, Frey S, and Belshe RB. Characterization of antibodies induced by vaccination with hepatitis C virus envelope glycoproteins. J Infect Dis. 2010,202:862-6. Cited by: 47
  4. Panigrahi R, Biswas A, Datta S, Banerjee A, Chandra PK, Mahapatra PK, Patnaik B. Chakrabarti S, Chakravarty R. Anti–hepatitis B core antigen testing with Detection and Characterization of occult hepatitis B virus by an in-house nucleic acid testing among blood donors in Behrampur, Ganjam Southeastern India: implications for transfusion. Virology J. 2010,7:204. Cited by: 34

2009:

  1. Banerjee A,Saito K, Meyer K, Banerjee S, Ait-Goughoulte M, Ray RB, Ray R. Hepatitis C Virus Core Protein and Cellular Protein HAX-1 Promotes 5-Fluorouracil Mediated Hepatocyte Growth Inhibition. J Virol. 2009;83:9663-71. Cited by: 21
  2. Chandra PK, Biswas A, Datta S, Banerjee A, Panigrahi R, Chakrabarti S, Chakravarty R. Subgenotypes of Hepatitis B Virus Genotype D in India: differential pattern of mutations, liver injury and occult HBV infection. J Viral Hepatitis 2009;16:749–56.Cited by: 55
  3. Datta S, Panigrahi R, Biswas A, Chandra PK, Banerjee A, Mahapatra PK, Panda CK, Chakrabarti S, Bhattacharya SK, Biswas K, Chakravarty R. Genetic characterization of Hepatitis B Virus in peripheral blood leukocytes: Evidence for selection and compartmentalization of viral variants with immune escape G145R mutation. J Virol. 2009;83:9983-92.Cited by: 30
  4. Biswas A, Chandra PK, Datta S, Panigrahi R, Banerjee A, Chakrabarti S, Biswas K, Patra D, Bhattacharya P, Biswas K, Chakravarty R. Frequency and distribution of hepatitis B virus genotypes among eastern Indian voluntary blood donors: Association with precore and basal core promoter mutations. Hepatol Res.2009;39:53-9. Cited by: 32

2008:

  1. Datta S, Banerjee A, Chandra PK, Biswas A, Panigrahi R, Mahapatra PK, Panda CK,  Chakrabarti S, Bhattacharya SK, Chakravarty R.  Analysis of hepatitis B virus X gene phylogeny, genetic variability and its impact on pathogenesis: implications in Eastern Indian HBV carriers. Virology2008;382:190-8. Cited by: 29
  2. Datta S, Biswas A, Chandra PK, Banerjee A,  Panigrahi R, Mahapatra PK, Chakrabarti S, Panda CK, Chakravarty R. Molecular epidemiology and clinical significance of hepatitis B virus genotypes, core promoter and precore mutations in Eastern India. Intervirology 2008;51:275-84.Cited by: 27

2007:

  1. Banerjee A,Chandra PK, Datta S, Biswas A, Bhattacharya P, Chakraborty S, Basu SK, Chakravarty R. Frequency and Significance of Hepatitis B Virus Surface Gene Variant Circulating among ‘AntiHBc Only’ individuals in Eastern India. J Clin Virol. 2007; 40:312-7. Cited by: 49
  2. Datta S, Banerjee A, Chandra PK, Chakravarty R. Detection of a premature stop codon in the surface gene of hepatitis B virus from an HBsAg and antiHBc negative blood donor. . J Clin Virol. 2007;40:255-8. Cited by: 17
  3. Chandra PK, Banerjee A, Datta S, Chakravarty R. G1862T mutation among hepatitis B virus-infected individuals: association with viral genotypes and disease outcome in Kolkata, Eastern India.. Intervirology 2007;50:173-80.Cited by: 27
  4. Datta S, Chandra PK, Banerjee A, Chakravarty R, Murhekar KM, Murhekar MV. Predominance of Hepatitis B virus genotype C among Karens, the ‘old settlers’ of Andaman and Nicobar Islands, India. Arch Virol. 2007;152:1223-8.Cited by: 6
  5. Bhattacharya P, Chandra PK, Datta S, Banerjee A, Chakraborty S, Rajendran K, Basu SK, Chakravarty R. Significant increase in HIV, HBV, HCV and syphilis infections among blood donors in West Bengal, Eastern India 2004-2005: exploratory screening reveals high frequency of occult HBV infection. World J Gastroenterol. 2007;13:3730-3. Cited by: 152

2006:

  1. Banerjee A,Datta S, Chandra PK, Chowdhury A, Santra A, Roychowdhury S, Panda CK, Bhattacharya SK, Chakravarty R. Distribution of Hepatitis B Virus genotypes: Phylogenetic analysis and virological characteristics of Genotype C circulating among HBV carriers in Kolkata, Eastern India. World J Gastroenterol. 2006;12:5964-71.Cited by: 44
  2. Banerjee A, Kurvanob F, Datta S, Chandra PK, Tanaka Y, Mizokami M, Bhattacharya SK, Chakravarty R. Phylogenetic relatedness and genetic diversity of HBV genotype strain isolated from Eastern India. J Med Virol. 2006;78:1164-74. Cited by: 108
  3. Datta S, Banerjee A, Chandra PK, Mahapatra PK, Chakrabarti S, Chakravarty R. Drug trafficking routes and hepatitis B in injection drug users, Manipur, India. Emerg Infect Dis. 2006;12:1990-93.Cited by: 19
  4. Datta S, Banerjee A, Chandra PK, Chowdhury A, Chakravarty R. Genotype, phylogenetic analysis, and transmission pattern of occult hepatitis B virus (HBV) infection in families of asymptomatic HBsAg carriers. J Med Virol. 2006;78:53-9. Cited by: 65
  5. Murhekar MV, Chakravarty R, Murhekar KM, Banerjee A, Sehgal, SC. Hepatitis B Virus genotypes among the Jarwas: A primitive Negrito tribes of Andaman and Nicobar Islands, India. Arch Virol. 2006;151:1499-510. Cited by: 15

2005:

  1. Banerjee A,Banerjee S, Chowdhury A, Santra A, Chowdhury S, Roychowdhury S, Panda CK, Bhattacharya SK, Chakravarty R. Nucleic acid sequence analysis of basal core promoter/precore/core region of hepatitis B virus isolated from chronic carriers of the virus from Kolkata, eastern India: low frequency of mutation in the precore region. Intervirology 2005;48:389-99.
  2. Banerjee A, Chakravarty R, Mondal PN, Chakraborty MS. Hepatitis B virus genotype D infection among antenatal patients attending a maternity hospital in Calcutta, India: assessment of infectivity status. Southeast Asian J Trop Med Public Health. 2005;36:203-6. Cited by: 9
  3. Chowdhury A, Santra A, Chakravorty R, Banerjee A, Pal S, Dhali GK, Datta S, Banerji S, Manna B, Chowdhury SR, Bhattacharya SK, Mazumder DG. Community-based epidemiology of hepatitis B virus infection in West Bengal, India: prevalence of hepatitis B e antigen-negative infection and associated viral variants. J Gastroenterol Hepatol. 2005;20:1712-20. Cited by: 62

Review article

  1. Jiang X, Kanda T, Wu S, Nakamura M, Miyamura T, Nakamoto S, Banerjee A, Yokosuka O. Regulation of miRNA by HBV infection and their possible association with control of innate immunity. World J Gastroenterol, 2014, June 21; 20(23):7197-7206. Cited by: 14
  2. Banerjee A,Ray RB, Ray R. Oncogenic potential of hepatitis C virus proteins. Special issue: Cell transformation by viruses. Edited by: Dr Hung Fan and Dr Paul Lambert;  Viruses2010,2(9): 2108-33. Cited by: 43

 

Sl No.

Title of Project

Funding Agency

Amount (Lakhs)

Date of sanction and Duration

1.

 

 Role of microRNAs in establishment of Japanese Encephalitis Virus (JEV) infection and disease progression

DBT

(BT/PR6714/MED/29/617/2012)

55.6

Feb, 2013 – Feb 2016.  

2.

Transcriptome analysis for identification of novel biomarker for disease progression in Dengue patients

 

DBT (BT/PR8597/MED/29/764/2013)

140

2014-2017

 

  • Recipient of fellowship from ‘Viral Hepatitis Research Foundation of Japan’ in 2005 & 2011
  • ‘Guest Researcher’ at Research Center for Hepatitis and Immunology, National Center for Global Health and Medicine, Ichikawa, Japan; June 13 to 26, 2011.
  • Visiting fellow at  Nagoya City University Graduate School of Medical Science, Nagoya, Japan ; 13-27th February, 2005.
  • Recipient of DBT-CTEP Travel grant for participation in Keystone Symposium on Exosomes/Microvesicles: Novel Mechanisms of Cell-Cell Communications, held at Keystone, CO, June 19-22; 2016

MS. BHARTI KUMARI
PH.D STUDENT

MR. ABHAY DEEP PANDEY
SENIOR RESEARCH FELLOW

MS. AARTI TRIPATHI
PH.D STUDENT