Research Groups

Microbial Engineering

Research Interests and Description

Group Leader: Syed Shams Yazdani, PhD

Group Members

Link to DBT-ICGEB Advanced Bioenergy Research

Research Interests

Second generation biofuels, fungal and bacterial genome engineering, engineered cellulases, C5/C6 fermentation, n- and iso-butanol production, microbial alkane and cetearyl alcohol production.

Description of Research

Discovery and design of novel enzymes and enzyme systems for biofuels
Recent interest towards shifting to non-food-based feedstock for biofuel production, in addition to biomass burning issue, has resulted in exploiting agricultural residues as feedstock. However, recalcitrant nature of this biomass makes it extremely difficult to hydrolyze into fermentable sugar. The filamentous fungi are found to be efficient in carbon cycling in nature, and thus are treated as potential sources of enzymes for converting recalcitrant lignocellulosic biomass into precursors for industrial purpose. We use intense mathematical model based screen to identify fungal isolates whose secretome can degrade biomass more efficiently than commercial cellulase formulation. Several enzymes have been characterized and among them cellobiohydrolases of the glycoside hydrolase family 7 (CBH1), was found to be the most important cellulolytic enzymes for crystalline cellulose breakdown. CBH1 of a new fungal isolate exhibited 6-fold higher catalytic efficiency as well as a 26-fold higher enzyme-inhibitor complex equilibrium dissociation constant (Ki) than the one from Trichoderma reesei. We have performed genome engineering of the new fungal isolate to disrupt its catabolite repressor and overexpress the cellulase gene activator to enhance the enzyme production by several folds. Many leads have been obtained to understand the role of several unannotated transcription factors involved in the cellulase production via transcriptomic and proteomic studies, which are being valorized to construct superior biocatalyst.

Engineering bacteria to produce biofuels and biochemicals
Lignocellulosic biomass consists of ~30% of pentose sugars, and therefore its effective fermentation will certainly have a positive impact on the economy of biofuel production. The traditional yeast, Saccharomyces cerevisiae, is unable to ferment pentose sugars into ethanol. E. coli is a robust host for various genetic manipulations and can readily consume both hexose and pentose sugars. However, availability of limited reducing equivalence and generation of competing co-products undermine ethanol yield and productivity in this microbe. In our lab, we have constructed an E. coli strain to produce high yield of ethanol from hexose and pentose sugars by modulating endogenous pathway without the need of foreign genes. We further worked towards formation of more energy dense fuel molecules, such as butanol, hexanol, pentadecane and hexadecene. Butanol was made in E. coli by integrating Clostridial pathway in its genome via CRISPR/Cas9 technique. On the other hand, long chain alkanes and alcohols are being made via metabolic model-assisted engineering of E. coli, with the highest titers reported so far.

Recent Publications

Shakeel, T., Gupta, M., Fatma, Z., Kumar, R., Kumar, R., Singh, R., Sharma, M., Jade, D., Gupta, D., Fatma, T., Yazdani, S.S. 2018. A consensus-guided approach yields a heat-stable alkane-producing enzyme and identifies residues promoting thermostability. J Biol Chem 293, 9148-9161 PubMed link

Ogunmolu, F.E., Kaur, I., Pasari, N., Gupta, M., Yazdani, S.S. 2018. Quantitative multiplexed profiling of Penicillium funiculosum secretome grown on polymeric cellulase inducers and glucose. J Proteomics 179, 150-160 PubMed link

Randhawa, A., Ogunyewo, O.A., Eqbal, D., Gupta, M., Yazdani, S.S. 2018. Disruption of zinc finger DNA binding domain in catabolite repressor Mig1 increases growth rate, hyphal branching, and cellulase expression in hypercellulolytic fungus Penicillium funiculosum NCIM1228. Biotechnol Biofuels 11, 15 PubMed link

Fatma, Z., Hartman, H., Poolman, M., Fell, D., Srivastava, S., Shakeel, T., Yazdani, S.S. 2018. Model-assisted metabolic engineering of Escherichia coli for long chain alkane and alcohol production. Metab Eng 46, 1-12 PubMed link

Pasari, N., Adlakha, N., Gupta, M., Bashir, Z., Rajacharya, G.H., Verma, G., Munde, M., Bhatnagar, R., Yazdani, S.S. 2017. Impact of Module-X2 and Carbohydrate Binding Module-3 on the catalytic activity of associated glycoside hydrolases towards plant biomass. Sci Rep 7, 3700 PubMed link

Ogunmolu, F.E., Jagadeesha, N.B.K., Kumar, R., Kumar, P., Gupta, D., Yazdani, S.S. 2017. Comparative insights into the saccharification potentials of a relatively unexplored but robust Penicillium funiculosum glycoside hydrolase 7 cellobiohydrolase. Biotechnol Biofuels 71 PubMed link

Patents

Yazdani, S.S., Munjal, N., Mattam, A.J. 2017. Modified bacteria for the production of bioalcohols. US Granted Patent No.: US 9,631,206 B2

Yazdani, S.S., Funso, E. 2016. A method for obtaining a composition for biomass hydrolysis. International Patent Application No.: WO2017006352 A2

Yazdani, S.S., Fatma, Z. 2015. Method for enhanced fatty alcohol production in E. coli. Indian Patent Application No. 4260/DEL/2015

Yazdani, S.S., Munjal, N., Mattam, A.J. 2013. Modified bacteria for the production of bioalcohols. International Application No. WO2014033759A1

 

ICGEB New Delhi

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