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CESG Fishbowl Seminar: Insights into a woody angiosperm’s genome and transcritptomes provides clues on its terpenoid biosynthetic pathways

October 9, 2013 @ 2:00 pm - 3:00 pm

Room 333 Wisenbaker (fishbowl)

Binay Panda
Bio-IT Centre, Institute of Bioinformatics and Applied Biotechnology, Bangalore

ABSTRACT
The development in the field of high-throughput DNA sequencing holds tremendous potential for disease diagnosis, treatment, synthetic biology and agriculture. With the chemistry to generate sequence data using high-throughput assays largely taken care of, the challenge is shifted from ‘data generation’ phase to ‘data management, analysis and interpretation’ phase. Managing this data deluge combined with biological interpretation and follow up validation studies remain the talking points in key next-generation sequencing meetings. During the course of my talk, I shall speak about the genome, its coding parts and the biosynthetic pathways of the secondary metabolites in a plant as discovered from the sequencing work and its potential in the field of synthetic biology.
Azadirachta indica (neem) is a versatile and important tree species and many parts of the plant are traditionally used as pesticide, insecticide, and for other medicinal purposes. Azadirachta fruits and seeds, a good source of oil, are widely used for agriculturally important pest management. Despite the wealth of information on the usefulness of neem tree, there are very few molecular studies done on the plant, including lack of any sequence information on its genome and transcriptomes. We sequenced the genome and transcriptomes from multiple organs of A. indica using newer generation of DNA sequencing platforms and using multiple libraries. Genome and transcriptome analyses in A. indica led to the identification of repeat elements, nucleotide composition and transcript expression profiles in various organs. Comparative gene expression analysis showed either exclusive or enhanced expression of known genes involved in neem terpenoid biosynthesis pathways compared to other sequenced angiosperms. Our data will provide a model for characterization of metabolic pathways involved in synthesis of bioactive compounds, comparative evolutionary studies among various Meliaceae family members and help annotate their genomes.

Bio: Binay Panda received his Ph.D. from University of Oxford, UK and was an American Cancer Society postdoctoral fellow at the Scripps Research Institute, La Jolla, USA. Before returning to India to set up the Bio-IT Centre, he co-founded a molecular diagnostics startup company in the San Francisco bay area with focus on early detection of cancer using genetic markers. Binay also worked as a visiting researcher of genome science at the University of Tokyo, Japan. His current research interest includes cancer genomics, synthetic biology and computational biology. Binay is a visiting professor at the Mazumdar Shaw Cancer Center at the Narayana Hrudayalaya, Bangalore.

Host: Dr. Kumar

Details

Date:
October 9, 2013
Time:
2:00 pm - 3:00 pm