Dr. Subhadip Chakraborty

Name Dr. Subhadip Chakraborty  
Designation Assistant Professor
Department Botany
Date of Joining 24th December, 2016
Phone no. +91 98300 47212
Email subhadipiicb@gmail.com
Academic Qualification Ph.D.; POSTDOC
Area of Specialization Cell Biology, Molecular Genetics and Plant Biotechnology
Courses Taught
  • B.Sc. (Hons.) Classes Of 1st, 2nd And 3rd Year (Theory And Practical)
  • General Class Theory
Research Interest Studies of ordering in equilibrium and non-equilibrium systems, Statistical properties of active polymer.
1. My laboratory where I pursued my Ph.D. degree is a very well-known and pioneer lab in India for its contribution in human Genetics. There I was deeply engaged in the study of the genetics and molecular biology of different human genetic and complex disorders, such as Glaucoma.
2. Glaucoma represents a heterogeneous group of optic neuropathies with a complex genetic basis. It is second largest cause of blindness in the world. These neuropathies gradually reduce vision without warning and often without symptoms. Among 3 major subtypes of glaucoma (i) Primary open angle glaucoma (POAG) is the most common form, an adult onset disease, and has complex etiology, (ii) Primary Congenital Glaucoma (PCG) results from developmental problem of eye and usually follow Mendelian genetics, and (iii) Primary Angle Closure Glaucoma is an adult onset disease with similar complex etiology as POAG but has not been studied yet as extensively.
3. The focus of my study is primarily POAG to understand molecular basis of the disease among Indian patients taking a few candidate genes including one (CYP1B1) that plays role in both POAG and PCG. Besides the candidate genes, I have studied on different associated genes like TNFA, COCH, VAV2, VAV3, IL1F7 etc, as the disease is complex, associated genes may have some influential effect on disease pathogenesis.
4. I explored the molecular basis of POAG and PCG resulting from defects in CYP1B1 gene. It was predicted from in vitro cell based assay using subclones of CYP1B1 variants that the type of pathogenesis is related to estradiol and retinol metabolic activity respectively. An attempt has been made for genotype-phenotype correlation using the CYP1B1 variants reported to cause these two subtypes of glaucoma.
1. Parkinson’s disease (PD) is one of the most common neurodegenerative movement disorders. PD is characterized by selective degeneration of dopaminergic neurons in substantia nigra in the midbrain causing reduced dopamine input in the striatum, a brain region controlling voluntary locomotor activities of the body. The disease can be caused by familial genetic mutations, but in most cases it is likely to result from an interaction between multiple genetic and environmental risk factors. Over 20 PD-related loci or mutant genes have been found.
2. I am involved in the functional characterization of the common gene variants reported from our East Indian cohort. These includes: generation of mutant clones, confirmation of clones, transient transfection, luciferase assay, western blotting, some biochemical activity measurements etc.
3. Over the past several decades, there has been a considerable interest in neuroprotective therapies using trophic factors to alleviate the symptoms of PD. The ideal therapy would be the one, which prevents neurodegeneration in the brain, thereby halting the progression of disease symptoms. Clinical trials have been initiated using members of the glial cell derived neurotrophic factor (GDNF) family of ligands (GFLs) like GDNF, neurturin, etc. Herbal medicine has been found to be effective in many neurodegenerative diseases without any side effects. Prof. Ray’s lab reported a phytoextract which has antioxidant and anti inflammatory properties. I am involved into the study for its neuroprotective properties.
4. Several attempts to explain the reasons of pathogenesis of neurodegenerative diseases like PD via genetic mutations were not entirely fruitful and scientists felt that there must be another level of neuronal homeostasis regulation. Another piece of the puzzle was discovered along with sequencing of the human genome, when it revealed that more than 95% of human cellular RNAs are noncoding RNAs (ncRNAs). Although previously underappreciated, ncRNAs have proved to be pivotal in degenerative processes of neurodegeneration like PD may be regarded as an “RNA disorder” where one class of ncRNAs, namely microRNAs (miRNAs), seems to play the leading role.
5. Neuritogenic activity is one of the focuses of the study on the preventive and therapeutic effects of neurodegenerative diseases like PD. Actin based motor proteins, nonmuscle myosin IIs (NM IIs), play important role such as migration, neurite stability during neuritogenesis. Our hypothesis is that the expression of NM IIs proteins may be controlled by amount of miRNA specific for NM IIs present in neurons. We would like to explore mi-RNA (s) which may regulate NM IIs during neurodegeneration in experimental PD model, and to develop novel therapeutic approach using the knowledge of molecular mechanism of NM IIs mi-RNA in PD pathogenesis in future.
Suddhasil Mookherjee, Deblina Banerjee, Subhadip Chakraborty, Indranil Mukhopadhyay, Abhijit Sen, Kunal Ray “Evaluation of the IL1 gene cluster SNPs in primary open angle glaucoma pathogenesis”. Genetic Testing and Molecular Biomarkers (2016, June); [in press] [Joint First Author] (IF: 1.3)
Antara Banerjee, Subhadip Chakraborty, Abhijit Chakraborty, Saikat Chakrabarti and Kunal Ray “Functional and Structural Analyses of CYP1B1 Variants Linked to Congenital and Adult-Onset Glaucoma to Investigate the Molecular Basis of These Diseases, PLoS One (2016, May) [in press] [Joint First Author] (IF: 3.7)”
Mansi Vishal, Anchal Sharma, Lalit Kaurani, Subhadip Chakraborty, Jharna Ray, Abhijit Sen, Arijit Mukhopadhyay & Kunal Ray. "Evaluation of Genetic Association of the INK4 Locus with Primary Open Angle Glaucoma in East Indian Population”. Scientific Report (2014), 4: 5115 (IF: 5.578).
Lalit Kaurani, Mansi Vishal, Dhirendra Kumar, Anchal Sharma, Bharati Mehani, Charu Sharma, Subhadip Chakraborty, Pankaj Jha, Jharna Ray, Abhijit Sen, Debasis Dash, Kunal Ray and Arijit Mukhopadhyay ”Gene rich large deletions are overrepresented in POAG patients of Indian and Caucasian origins”, IOVS. (2014); April 24, 2014, doi: 10.1167/iovs.14-14339 (IF: 3.441)
Subhadip Chakraborty, Suddhasil Mookherjee, Abhijit Sen, and Kunal Ray “Analysis of COCH and TNFA Variants in East Indian Primary Open Angle Glaucoma Patients”, BMRI.( 2013); Volume 2013, Article ID 937870, 7 pages (IF: 2.134)
Suddhasil Mookherjee, Subhadip Chakraborty, Mansi Vishal, Deblina Banerjee, Abhijit Sen, Kunal Ray “WDR36 variants in East Indian primary open-angle glaucoma patients”. Molecular Vision (2011); 17:2618-2627, Received 30 May 2011 | Accepted 22 September 2011 (IF: 2.3)
Suddhasil Mookherjee, Deblina Banerjee, Subhadip Chakraborty, Antara Banerjee, Indranil Mukhopadhyay, Abhijit Sen and Kunal Ray “Association of IL1A and IL1B loci with primary open angle glaucoma”, BMC Med Genet. (2010); 11: 99. Published online 2010 June 19.(IF: 2.51)
Talks/Posters/Papers Presented
Oral presentation titled “Functional Analysis of CYP1B1 in the context of Glaucoma pathogenesis” in the annual meeting of Society of Biological Chemists (INDIA), Kolkata Chapter held at CSIR-IICB, West Bengal, India, April 26, 2014.
Presented a poster titled “Molecular analysis of Cochlin and TNF- gene in East Indian patients with Primary Open Angle Glaucoma” in 25th annual meeting of Indian eye research group, held at l.v.prasad eye Institute, hyderabad, from 28-29th July, 2012.
Presented a poster titled “Analysis of WDR36 gene variants for its potential association with primary open angle glaucoma pathogenesis” in 3rd annual meeting of International Conference on Omics meets Disease, held at Saha Institute of Nuclear Physics, Kolkata, from 15-18 December, 2011.
Presented a poster titled “Association of WDR36 SNPs with Primary Open Angle Glaucoma” in 35th annual meeting of Indian Society of Human Genetics (ISHG), held at SGPGIMS, Lucknow, India, March 6-8, 2010.
Presented a poster titled ‘Analysis of IL-1 Gene Cluster for its Potential Association with Glaucoma Pathogenesis’ in 13th Human Genome Meeting held at HICC, Hyderabad, India, during September 27-30, 2008.
Oral presentation titled “Analysis of IL-1 gene cluster for its potential association with glaucoma pathogenesis” in the annual meeting of Society of Biological Chemists (INDIA), Kolkata Chapter held at Digha, West Bengal, India, August 22-24, 2008.
Participation in Schools/Conferences/Workshops/Symposia/Seminars
Participted in the 1st meeting on International Update on Movement Disorder, held at Siliguri, India; February 14-16, 2014.
Participated in the meeting of Neuro Update; held at CSIR-IICB, Kolkata on 29-30th Nov. 2013.
Participated in the 30th annual convention of Indian Association for Cancer Research and International Symposium on “signalling Network and Cancer”, held at CSIR-IICB, Jadavpur, kolkata, February 6 – 9, 2011.
Participated in the workshop on “Genetic epidemiological Methods for Dissection of Complex Human Traits” organized by TCG-ISI Centre for Population Genomics (CpG), Kolkata, India and University of Pittsburgh, U.S.A., held at Saha Institute of Nuclear Physics, Kolkata February 23-28, 2009.
Attended International Meeting on Research in Vision and Ophthalmology (Asia ARVO 2009) held at HICC, Hyderabad, India, January 15-18, 2009.
Attended the International Symposium on “ Complex Diseases : Approaches to Gene Identification and Therapeutic Management” HGM 2008 Satellite Symposium held at Saha Institute of Nuclear Physics, Kolkata, September 25-26, 2008.
Participated in the National level Training on “Improved Production Technology for Jute and Allied Fibre Crops” held at CRIJAF, Barrackpore, KolKATA-120, India, from August 20-27, 2007.
S. No. Name of award Awarding Agency Year
1 GATE MHRD 2005
3 West Bengal State Eligibility Test WBCSC 2007
4 UGC-D.S.Kothari Postdoctoral Fellowship UGC 2013
5 DST-National Postdoctoral Fellowship DST 2016
Member of State/National/International Professional Bodies: Calcutta Consortium of Human Genetics
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