Costas Maranas

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Titles and Affiliations
Donald B. Broughton Professor, Chemical Engineering

Research Summary

Research interests include modeling/optimization of directed evolution protocols for protein engineering, optimization in metabolic engineering and bioinformatics, molecular and product design, and supply chain planning and scheduling.

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Recent Publications

EnZymClass: Substrate specificity prediction tool of plant acyl-ACP thioesterases based on ensemble learning

Banerjee, D., Jindra, M. A., Linot, A. J., Pfleger, B. F. & Maranas, C. D., Jan 2022, In: Current Research in Biotechnology. 4, p. 1-9 9 p.

Research output: Contribution to journalArticlepeer-review

Quantifying the propagation of parametric uncertainty on flux balance analysis

Dinh, H. V., Sarkar, D. & Maranas, C. D., Jan 2022, In: Metabolic engineering. 69, p. 26-39 14 p.

Research output: Contribution to journalArticlepeer-review

Assessing the impact of substrate-level enzyme regulations limiting ethanol titer in Clostridium thermocellum using a core kinetic model

Foster, C., Boorla, V. S., Dash, S., Gopalakrishnan, S., Jacobson, T. B., Olson, D. G., Amador-Noguez, D., Lynd, L. R. & Maranas, C. D., Jan 2022, In: Metabolic engineering. 69, p. 286-301 16 p.

Research output: Contribution to journalArticlepeer-review

Multiple spillovers from humans and onward transmission of SARS-CoV-2 in white-tailed deer

Kuchipudi, S. V., Surendran-Nair, M., Ruden, R. M., Yon, M., Nissly, R. H., Vandegrift, K. J., Nelli, R. K., Li, L., Jayarao, B. M., Maranas, C. D., Levine, N., Willgert, K., Conlan, A. J. K., Olsen, R. J., Davis, J. J., Musser, J. M., Hudson, P. J. & Kapur, V., Feb 8 2022, In: Proceedings of the National Academy of Sciences of the United States of America. 119, 6, e2121644119.

Research output: Contribution to journalArticlepeer-review

Functional Analysis of H+-Pumping Membrane-Bound Pyrophosphatase, ADP-Glucose Synthase, and Pyruvate Phosphate Dikinase as Pyrophosphate Sources in Clostridium thermocellum

Kuil, T., Hon, S., Yayo, J., Foster, C., Ravagnan, G., Maranas, C. D., Lynd, L. R., Olson, D. G. & van Maris, A. J. A., Feb 2022, In: Applied and environmental microbiology. 88, 4, e01857.

Research output: Contribution to journalArticlepeer-review

Toward low-cost biological and hybrid biological/catalytic conversion of cellulosic biomass to fuels†

Lynd, L. R., Beckham, G. T., Guss, A. M., Jayakody, L. N., Karp, E. M., Maranas, C., McCormick, R. L., Amador-Noguez, D., Bomble, Y. J., Davison, B. H., Foster, C., Himmel, M. E., Holwerda, E. K., Laser, M. S., Ng, C. Y., Olson, D. G., Román-Leshkov, Y., Trinh, C. T., Tuskan, G. A., Upadhayay, V., & 3 othersVardon, D. R., Wang, L. & Wyman, C. E., Feb 9 2022, In: Energy and Environmental Science. 15, 3, p. 938-990 53 p.

Research output: Contribution to journalReview articlepeer-review

Metabolic engineering of Rhodotorula toruloides IFO0880 improves C16 and C18 fatty alcohol production from synthetic media

Schultz, J. C., Mishra, S., Gaither, E., Mejia, A., Dinh, H., Maranas, C. & Zhao, H., Dec 2022, In: Microbial Cell Factories. 21, 1, 26.

Research output: Contribution to journalArticlepeer-review

Examining organic acid production potential and growth-coupled strategies in Issatchenkia orientalis using constraint-based modeling

Suthers, P. F. & Maranas, C. D., 2022, (Accepted/In press) In: Biotechnology progress.

Research output: Contribution to journalArticlepeer-review

Developmental changes in lignin composition are driven by both monolignol supply and laccase specificity

Zhuo, C., Wang, X., Docampo-Palacios, M., Sanders, B. C., Engle, N. L., Tschaplinski, T. J., Hendry, J. I., Maranas, C. D., Chen, F. & Dixon, R. A., Mar 2022, In: Science Advances. 8, 10, eabm8145.

Research output: Contribution to journalArticlepeer-review

Computational prediction of the effect of amino acid changes on the binding affinity between SARS-CoV-2 spike RBD and human ACE2

Chen, C., Boorla, V. S., Banerjee, D., Chowdhury, R., Cavener, V. S., Nissly, R. H., Gontu, A., Boyle, N. R., Vandegrift, K., Nair, M. S., Kuchipudi, S. V. & Maranas, C. D., Oct 19 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 42, e2106480118.

Research output: Contribution to journalArticlepeer-review

Building kinetic models for metabolic engineering

Foster, C. J., Wang, L., Dinh, H. V., Suthers, P. F. & Maranas, C. D., Feb 2021, In: Current Opinion in Biotechnology. 67, p. 35-41 7 p.

Research output: Contribution to journalReview articlepeer-review

A genome-scale metabolic model of anabaena 33047 to guide genetic modifications to overproduce nylon monomers

Hendry, J. I., Dinh, H. V., Sarkar, D., Wang, L., Bandyopadhyay, A., Pakrasi, H. B. & Maranas, C. D., Mar 2021, In: Metabolites. 11, 3, 168.

Research output: Contribution to journalArticlepeer-review

Engineering biology approaches for food and nutrient production by cyanobacteria

Liu, D., Liberton, M., Hendry, J. I., Aminian-Dehkordi, J., Maranas, C. D. & Pakrasi, H. B., Feb 2021, In: Current Opinion in Biotechnology. 67, p. 1-6 6 p.

Research output: Contribution to journalReview articlepeer-review

Recombination and lineage-specific mutations linked to the emergence of SARS-CoV-2

Patiño-Galindo, J. Á., Filip, I., Chowdhury, R., Maranas, C. D., Sorger, P. K., AlQuraishi, M. & Rabadan, R., Dec 2021, In: Genome Medicine. 13, 1, 124.

Research output: Contribution to journalArticlepeer-review

Elucidation of trophic interactions in an unusual single-cell nitrogen-fixing symbiosis using metabolic modeling

Sarkar, D., Landa, M., Bandyopadhyay, A., Pakrasi, H. B., Zehr, J. P. & Maranas, C. D., May 2021, In: PLoS computational biology. 17, 5, e1008983.

Research output: Contribution to journalArticlepeer-review