My group is primarily interested in developing translatable technologies and products using synthetic biology approaches. We utilize latest genome editing technologies and DNA assembly methods to engineer microorganisms and human cells.
- Developing tuneable yeast gene expression system using synthetic promoters and gene editing technology
Distinct biotechnological applications require different promoter properties in terms of expression range and inducibility. Currently promoter discovery is largely focused on manipulating native promoters which are large DNA sequences and are regulated in a complex fashion. We are generating a library of yeast cells containing distinct promoter activities for production of high value biomolecules over a broad dynamic range in a high throughput format. To achieve this, the group is focusing on engineering novel synthetic promoters that are tuneable, programmable and orthogonal in nature. In addition, we are developing a repository of synthetic genetic parts and elements that together with the promoters will create a suite of expression cassettes for customized and enhanced expression of biomolecules.
- Metabolic engineering of yeast cells for biotechnological applications
Yeast is recognized as GRAS organism and used extensively for industrial production of valuable molecules. In this project, we are generating value-added yeast strains that overexpress phytochemicals, food supplements, human metabolic enzymes and nutraceuticals. This will be achieved by rational engineering of the endogenous metabolic genes in yeast cells or transplanting genes from heterologous sources by using recombinant DNA methods. Using gene editing technologies, we also seek to modify metabolic pathways in yeast cells to generate “humanised yeast stains” for production of human therapeutic proteins and biologics.
- Engineering human cells for therapeutic applications
We are establishing a robust protocol and platform for precise bespoke gene editing of human cells for various therapeutic purposes. The group will be generating human cell lines that (a) mirror disease-causing mutations for drug resistance studies and screening purposes, (b) develop gene editing strategies for gene correction and functional genomics studies, and (c) improve existing therapeutic approaches to autoimmune diseases, cancers and rare genetic disorders.
- Functional genomic approaches to combat vector-borne diseases
Recently viruses belonging to the family Flaviviridae have become a major public health problem worldwide including India. Using the Aedes-Dengue virus infection model, we aim to identify and characterize key factors controlling virus multiplication in the mosquito using genome wide approaches. Subsequently we will be translating this knowledge to design effective disease transmission blocking strategies for Dengue and other viral infections.
- PhD at Indian Institute of Chemical Biology (Jadavpur University), Kolkata
- Lecturer at Birla Institute of Technology, Mesra
- Postdoctoral training at EMBL Heidelberg, McGill University, University of Oxford and University of Cambridge
- Faculty at IBAB since 2017
Areas of Expertise and Interests:
Synthetic Biology, Genome Engineering Technologies, Functional Genomics, Host-parasite Interactions, Coding & Non-coding RNA Functions, Medical Biotechnology, Biosensors
Awards and Distinctions:
- Ramalingaswamy fellowship, Department of Biotechnology
- Research recognition award, University of Oxford, UK
- Travel grant award, Cold Spring Harbor Meeting, USA
- Research Fellowship from University Grants Commission during PhD
- Qualified National Eligibility Test for Lecturership and Research Fellowship
- MSc merit scholarship from University Grants Commission, Government of India
Deepthi Menon (Postdoctoral Fellow)
Deepthi graduated from Manipal University with Bachelor’s degree in Biotechnology and received Master’s in Biotechnology at the Australian National University (ANU), Canberra. She completed her PhD in Biochemistry and Immunology from ANU and pursued her research interest in immune cell metabolism at the Harvard Medical School and Trinity College Dublin. Deepthi joined the group in May 2018 to work on editing immune cells for targeted therapy using synthetic receptors and effectors. In addition, she is developing gene editing strategies for gene correction in autoimmune disease models and sepsis.
Shubham Dixit (Postdoctoral Fellow)
Shubham completed Bachelor’s and Master’s degree in Biotechnology from Banasthali University, Rajasthan. After gaining research experience at ICGEB and NIPGR, New Delhi, she carried out her PhD research project in plant molecular biology and physiology at Banasthali University. Shubham joined IBAB in 2015 as postdoc to work on the Amaranth Genome project. Thereafter, she joined Synthetic biology group in August 2018 to develop yeast strains producing high value phytochemicals and metabolites using gene editing technologies.
Anusha KR (Project Assistant)
Anusha completed her BE in Biotechnology from PESIT, Bengaluru and MTech in Molecular Medicine from Amrita Centre for Nanosciences and Molecular Medicine, Amrita Vishwa Vidyapeetham, Kochi. She joined the group in February 2018 and is currently working on engineering metabolic pathways in yeast for production of humanized therapeutic proteins.
Samantha Jayne Coelho (Project Assistant)
Samantha completed Bachelor’s degree in Biotechnology, Biochemistry and Genetics from Jyoti Nivas College and Master’s in Applied Genetics from The Oxford College of Science, Bengaluru. She worked at Biocon Research Limited, Bengaluru as a research trainee before joining the group in May 2018. Samantha is generating a suite of yeast strains with synthetic promoters for expression of genes in a defined and controlled manner.
T Sai Kavya Rao (Project Trainee)
Kavya obtained BSc (Honours) in Biosciences from Sri Sathya Sai Institute of Higher Learning, Anantapur and Master’s in Microbiology from Sharda University, Greater Noida. She joined the group in July 2018 and is working on modifying yeast strains with synthetic genetic elements for enhanced expression of biomolecules.
Anjitha P (Project Trainee)
Anjitha completed Bachelor’s and Master’s in Biotechnology from Amrita School of Biotechnology, Amrita Vishwa Vidyapeetham, Kollam. She worked as an intern at ThermoFisher Scientific, Bengaluru prior to joining the group in July 2018. Anjitha is currently involved in heterologous expression, purification and downstream processing of high value therapeutic proteins.
Samhitha Urs R (Project Trainee)
Samhitha received Integrated MSc degree in Molecular Biology from Yuvaraja’s College, Mysore in 2018. She joined the group in July 2018 to work on functional characterization of therapeutic proteins using gene editing technologies.
- Poornima R (Project Assistant)
- Niranjan Veluru (Postdoctoral Fellow)
- Bilal Akhtar (Trainee, MSc IBAB)
- Mansi Srivastava (Trainee, MSc IBAB)
- Pritha Dey (Trainee, MSc IBAB)
- Tanisha Gupta (Trainee, MSc IBAB)
- Tanushree Sengupta (Trainee, MSc IBAB)
- Usha TM (Trainee, MSc Bangalore University)
List of Publications:
- de la Roche, M., Hamilton, C., Mortensen, R., Jeyaprakash, A.A., Ghosh, S. and Anand P.K. (2018) Trafficking of cholesterol to the ER is required for NLRP3 inflammasome activation. Journal of Cell Biology, doi:10.1083/jcb.201709057.
- Ghosh, S.* and Liu, J.L.* (2018) Genomic Tagging of AGO1 using CRISPR/Cas9-mediated Homologous Recombination. Methods in Molecular Biology, 1680: 217-235. *corresponding authors
- Yong, H., Wang, J.J., Ghosh, S.* and Liu, J.L.* (2017) Critical roles of CTP synthase N- terminal in cytoophidium assembly. Experimental Cell Research 354(2):122-133. *corresponding authors
- Ghosh, S. *, Tibbit, C., and Liu, J.L.* (2016) Efficient knockdown of Drosophila long non- coding RNAs by CRISPR interference. Nucleic Acids Research, 44(9): e84. *corresponding authors
- Ghosh, S.* and Lasko, P.* (2015) Loss-of-function analysis reveals distinct requirements of the translation initiation factors eIF4E, eIF4E-3, eIF4G and eIF4G2 in Drosophila spermatogenesis. PLOS One 10(4): e0122519. *corresponding authors
- Ghosh, S., Obrdlik, A., Marchand, V. and Ephrussi, A. (2014) The EJC binding and dissociation activity of PYM is regulated in Drosophila. PLOS Genetics 10(6): e1004455.
- Ghosh, S.*, Marchand, V.*, Gaspar, I. and Ephrussi, A. (2012) Control of RNP motility and localization by a splicing-dependent structure in oskar mRNA. Nature Structural Molecular Biology 19(4), 441-449. *equal contribution
- Ghosh, S., Goswami, S. and Adhya, S. (2003) Role of superoxide dismutase in survival of Leishmania within the macrophage. Biochemical Journal 369(Pt.3), 447-452.
- Adhya, S., Basu, S., Bhattacharyya, S.N., Chatterjee, S., Dhar, G., Goswami, S., Ghosh, S., Home, P., Mahata, B. and Tripathi, G. (2003) Mitochondrial differentiation in kinetoplastidprotozoa: a plethora of RNA controls. Differentiation 71, 549–556.
KBITS, Department of Innovation and Technology, Government of Karnataka
Department of Biotechnology, Government of India
Synthetic Biology Group
Institute of Bioinformatics and Applied Biotechnology
Biotech Park, Electronic City Phase I
Bengaluru – 560100
Phone: +91 (080) 28528901/902/903 (extn 209)