Overview
Availability
- Professor Esteban Marcellin is:
- Available for supervision
Fields of research
Qualifications
- Bachelor (Honours) of Chemical Engineering, unknown
- Doctor of Philosophy, The University of Queensland
Research interests
-
Systems and Synthetic Biology
Systems and synthetic biology are powerful tools to guide the improvement of biological systems for producing fuels, chemicals, foods and biopharmaceuticals. Systems and synthetic approaches can be used to identify metabolic engineering targets and develop new production strains. Using data-driven approaches that take advantage of the tremendous growth in high throughput ‘-omics (genomics, transcriptomics, proteomics and metabolomics) coupled with mathematical models we can better understand cells. The data gathered can be used to suggest potential metabolic engineering strategies (e.g. bottlenecks that can be targeted for knockout/up-regulation) to improve yields and productivity. Biological systems are refined and improved using biological data, leading to further iterative rounds of metabolic engineering to enhance production. Using gas fermentation, we are consuming greenhouse gases (CO and CO2) as feedstock for fermentation and converting those greenhouse gases into valuable fuels, chemicals and fuels. This allows us to decrease our dependence on finite fossil fuel resources and improves sustainability for Australia. Our projects aim at producing efficient cell lines to increase the yields and productivity of biological systems. In collaboration with leaders in the industry, such as Lanzatech, Amyris, Zoetis, Dow, CSL and Thermo-Fisher, we are applying systems metabolic engineering to enhance yields and increase the production scope of the advanced biomanufacturing sector.
Works
Search Professor Esteban Marcellin’s works on UQ eSpace
2021
Journal Article
Towards sustainable bioinoculants: a fermentation strategy for high cell density cultivation of Paraburkholderia sp. SOS3, a plant growth-promoting bacterium isolated in Queensland, Australia
Petersen, Ian, Paungfoo-Lonhienne, Chanyarat, Marcellin, Esteban, Nielsen, Lars Keld and Gonzalez, Axayacatl (2021). Towards sustainable bioinoculants: a fermentation strategy for high cell density cultivation of Paraburkholderia sp. SOS3, a plant growth-promoting bacterium isolated in Queensland, Australia. Fermentation, 7 (2) 58, 1-17. doi: 10.3390/fermentation7020058
2021
Journal Article
Cyclic di-AMP oversight of counter-Ion osmolyte pools impacts intrinsic cefuroxime resistance in Lactococcus lactis
Pham, Huong Thi, Shi, Wen, Xiang, Yuwei, Foo, Su Yi, Plan, Manuel R., Courtin, Pascal, Chapot-Chartier, Marie-Pierre, Smid, Eddy J., Liang, Zhao-Xun, Marcellin, Esteban and Turner, Mark S. (2021). Cyclic di-AMP oversight of counter-Ion osmolyte pools impacts intrinsic cefuroxime resistance in Lactococcus lactis. mBio, 12 (2) e00324-21, 1-18. doi: 10.1128/mBio.00324-21
2021
Journal Article
multiTFA: a Python package for multi-variate thermodynamics-based flux analysis
Mahamkali, Vishnuvardhan, McCubbin, Tim, Beber, Moritz Emanuel, Noor, Elad, Marcellin, Esteban and Nielsen, Lars Keld (2021). multiTFA: a Python package for multi-variate thermodynamics-based flux analysis. Bioinformatics, 37 (18), 3064-3066. doi: 10.1093/bioinformatics/btab151
2021
Journal Article
Transcriptional control of Clostridium autoethanogenum using CRISPRi
Fackler, Nick, Heffernan, James, Juminaga, Alex, Doser, Damien, Nagaraju, Shilpa, Gonzalez-Garcia, R. Axayacatl, Simpson, Séan D., Marcellin, Esteban and Köpke, Michael (2021). Transcriptional control of Clostridium autoethanogenum using CRISPRi. Synthetic Biology, 6 (1) ysab008, 1-8. doi: 10.1093/synbio/ysab008
2021
Journal Article
Perfusion culture of Chinese Hamster Ovary cells for bioprocessing applications
MacDonald, Michael A., Nöbel, Matthias, Roche Recinos, Dinora, Martínez, Verónica S., Schulz, Benjamin L., Howard, Christopher B., Baker, Kym, Shave, Evan, Lee, Yih Yean, Marcellin, Esteban, Mahler, Stephen, Nielsen, Lars Keld and Munro, Trent (2021). Perfusion culture of Chinese Hamster Ovary cells for bioprocessing applications. Critical Reviews in Biotechnology, 42 (7), 1-17. doi: 10.1080/07388551.2021.1998821
2020
Journal Article
Time-course transcriptomics reveals that amino acids catabolism plays a key role in toxinogenesis and morphology in Clostridium tetani
Orellana, Camila A., Zaragoza, Nicolas E., Licona-Cassani, Cuauhtemoc, Palfreyman, Robin W., Cowie, Nicholas, Moonen, Glenn, Moutafis, George, Power, John, Nielsen, Lars K. and Marcellin, Esteban (2020). Time-course transcriptomics reveals that amino acids catabolism plays a key role in toxinogenesis and morphology in Clostridium tetani. Journal of Industrial Microbiology and Biotechnology, 47 (12), 1059-1073. doi: 10.1007/s10295-020-02330-3
2020
Journal Article
Enhanced metal recovery by efficient agglomeration of precipitates in an up-flow fixed-bed bioreactor
Liu, Yun, Vaughan, James, Southam, Gordon, Serrano, Antonio, Marcellin, Esteban, Nancucheo, Ivan and Villa-Gomez, Denys K. (2020). Enhanced metal recovery by efficient agglomeration of precipitates in an up-flow fixed-bed bioreactor. Chemical Engineering Journal, 416 127662, 127662. doi: 10.1016/j.cej.2020.127662
2020
Journal Article
Adaptive laboratory evolution of native methanol assimilation in Saccharomyces cerevisiae
Espinosa, Monica I., Gonzalez-Garcia, Ricardo A., Valgepea, Kaspar, Plan, Manuel R., Scott, Colin, Pretorius, Isak S., Marcellin, Esteban, Paulsen, Ian T. and Williams, Thomas C. (2020). Adaptive laboratory evolution of native methanol assimilation in Saccharomyces cerevisiae. Nature Communications, 11 (1) 5564, 5564. doi: 10.1038/s41467-020-19390-9
2020
Journal Article
A pan-genome guided metabolic network reconstruction of five Propionibacterium species reveals extensive metabolic diversity
McCubbin, Tim, Gonzalez-Garcia, R. Axayacatl, Palfreyman, Robin W., Stowers, Chris, Nielsen, Lars K. and Marcellin, Esteban (2020). A pan-genome guided metabolic network reconstruction of five Propionibacterium species reveals extensive metabolic diversity. Genes, 11 (10) 1115, 1-26. doi: 10.3390/genes11101115
2020
Journal Article
‘Omics driven discoveries of gene targets for apoptosis attenuation in CHO cells
Orellana, Camila A., Martínez, Verónica S., MacDonald, Michael A., Henry, Matthew N., Gillard, Marianne, Gray, Peter P., Nielsen, Lars K., Mahler, Stephen and Marcellin, Esteban (2020). ‘Omics driven discoveries of gene targets for apoptosis attenuation in CHO cells. Biotechnology and Bioengineering, 118 (1) bit.27548, 481-490. doi: 10.1002/bit.27548
2020
Journal Article
A universal and independent synthetic DNA ladder for the quantitative measurement of genomic features
Reis, Andre L. M., Deveson, Ira W., Wong, Ted, Madala, Bindu Swapna, Barker, Chris, Blackburn, James, Marcellin, Esteban and Mercer, Tim R. (2020). A universal and independent synthetic DNA ladder for the quantitative measurement of genomic features. Nature Communications, 11 (1) 3609, 3609. doi: 10.1038/s41467-020-17445-5
2020
Journal Article
Nickel complexation as an innovative approach for nickel-cobalt selective recovery using sulfate-reducing bacteria
Liu, Yun, Serrano, Antonio, Wyman, Valentina, Marcellin, Esteban, Southam, Gordon, Vaughan, James and Villa-Gomez, Denys (2020). Nickel complexation as an innovative approach for nickel-cobalt selective recovery using sulfate-reducing bacteria. Journal of Hazardous Materials, 402 123506, 123506. doi: 10.1016/j.jhazmat.2020.123506
2020
Journal Article
Redox controls metabolic robustness in the gas-fermenting acetogen Clostridium autoethanogenum
Mahamkali, Vishnuvardhan, Valgepea, Kaspar, de Souza Pinto Lemgruber, Renato, Plan, Manuel, Tappel, Ryan, Köpke, Michael, Simpson, Séan Dennis, Nielsen, Lars Keld and Marcellin, Esteban (2020). Redox controls metabolic robustness in the gas-fermenting acetogen Clostridium autoethanogenum. Proceedings of the National Academy of Sciences of the United States of America, 117 (23), 13168-13175. doi: 10.1073/pnas.1919531117
2020
Journal Article
Heterologous production of 6-deoxyerythronolide B in Escherichia coli through the wood werkman cycle
Gonzalez-Garcia, R. Axayacatl, Nielsen, Lars K. and Marcellin, Esteban (2020). Heterologous production of 6-deoxyerythronolide B in Escherichia coli through the wood werkman cycle. Metabolites, 10 (6) 228, 228. doi: 10.3390/metabo10060228
2020
Journal Article
Correction to: Deletion of the hypothetical protein SCO2127 of Streptomyces coelicolor allowed identification of a new regulator of actinorhodin production (Applied Microbiology and Biotechnology, (2016), 100, 21, (9229-9237), 10.1007/s00253-016-7811-2)
Tierrafría, Víctor H., Licona-Cassani, Cuauhtemoc, Maldonado-Carmona, Nidia, Romero-Rodríguez, Alba, Centeno-Leija, Sara, Marcellin, Esteban, Rodríguez-Sanoja, Romina, Ruiz-Villafán, Beatriz, Nielsen, Lars K. and Sánchez, Sergio (2020). Correction to: Deletion of the hypothetical protein SCO2127 of Streptomyces coelicolor allowed identification of a new regulator of actinorhodin production (Applied Microbiology and Biotechnology, (2016), 100, 21, (9229-9237), 10.1007/s00253-016-7811-2). Applied Microbiology and Biotechnology, 104 (8), 3687-3687. doi: 10.1007/s00253-020-10499-x
2020
Journal Article
Enhancing CO2-valorization using Clostridium autoethanogenum for sustainable fuel and chemicals production
Heffernan, James K., Valgepea, Kaspar, Lemgruber, Renato de Souza Pinto, Casini, Isabella, Plan, Manuel, Tappel, Ryan, Simpson, Sean D., Kopke, Michael, Nielsen, Lars K. and Marcellin, Esteban (2020). Enhancing CO2-valorization using Clostridium autoethanogenum for sustainable fuel and chemicals production. Frontiers in Bioengineering and Biotechnology, 8, 1-10. doi: 10.3389/fbioe.2020.00204
2020
Journal Article
Attenuating apoptosis in Chinese hamster ovary cells for improved biopharmaceutical production
Henry, Matthew N., MacDonald, Michael A., Orellana, Camila A., Gray, Peter P., Gillard, Marianne, Baker, Kym, Nielsen, Lars K., Marcellin, Esteban, Mahler, Stephen and Martinez, Veronica S. (2020). Attenuating apoptosis in Chinese hamster ovary cells for improved biopharmaceutical production. Biotechnology and Bioengineering, 117 (4) bit.27269, 1187-1203. doi: 10.1002/bit.27269
2020
Journal Article
Engineering Escherichia coli for propionic acid production through the Wood‐Werkman cycle
Gonzalez‐Garcia, R. A., McCubbin, T., Turner, M. S., Nielsen, L. K. and Marcellin, E. (2020). Engineering Escherichia coli for propionic acid production through the Wood‐Werkman cycle. Biotechnology and Bioengineering, 117 (1), 167-183. doi: 10.1002/bit.27182
2020
Book Chapter
Osmoregulation via cyclic di-AMP signaling
Turner, Mark S., Vu, Thu Ngoc Minh, Marcellin, Esteban, Liang, Zhao-Xun and Pham, Huong Thi (2020). Osmoregulation via cyclic di-AMP signaling. Microbial cyclic di-nucleotide signaling. (pp. 177-189) edited by Shan-Ho Chou, Nicolas Guiliani, Vincent T. Lee and Ute Römling. Cham, Switzerland: Springer International Publishing. doi: 10.1007/978-3-030-33308-9_11
2019
Journal Article
A TetR-family protein (CAETHG_0459) activates transcription from a new promoter motif associated with essential genes for autotrophic growth in acetogens
Lemgruber, Renato de Souza Pinto, Valgepea, Kaspar, Garcia, Ricardo Axayacatl Gonzalez, de Bakker, Christopher, Palfreyman, Robin William, Tappel, Ryan, Kopke, Michael, Simpson, Sean Dennis, Nielsen, Lars Keld and Marcellin, Esteban (2019). A TetR-family protein (CAETHG_0459) activates transcription from a new promoter motif associated with essential genes for autotrophic growth in acetogens. Frontiers in Microbiology, 10 2549, 2549. doi: 10.3389/fmicb.2019.02549
Funding
Current funding
Supervision
Availability
- Professor Esteban Marcellin is:
- Available for supervision
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Supervision history
Current supervision
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Doctor Philosophy
Biorecycyling carbon using acetogens
Principal Advisor
Other advisors: Professor Lars Nielsen, Professor Gary Schenk, Dr Axa Gonzalez, Dr James Heffernan
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Doctor Philosophy
Accelerating the design of cell lines for biologic production
Principal Advisor
Other advisors: Dr Marianne Gillard, Professor Timothy Mercer
-
Doctor Philosophy
Production of the Mannopeptimycin Antibiotic and other unknown Biosynthetic Gene Clusters from Streptomyces hygroscopicus
Principal Advisor
Other advisors: Dr Zeinab Khalil
-
Doctor Philosophy
Biological CO2 and H2 utilization for sustainable animal feed production
Principal Advisor
Other advisors: Professor Lars Nielsen, Dr James Heffernan
-
Master Philosophy
Harnessing Microbial Power: Turning Carbon into Valuable Products through Gas Fermentation
Principal Advisor
Other advisors: Dr James Heffernan
-
Doctor Philosophy
Modelling cyanobacterial metabolism for the production of high-value products
Principal Advisor
-
Doctor Philosophy
Engineering cyanobacteria for high-value flavours and fragrances production
Principal Advisor
-
Doctor Philosophy
EnzOnomy - an enzyme-based production pipeline for the bioeconomy
Associate Advisor
Other advisors: Professor Damian Hine, Professor Gary Schenk
-
Doctor Philosophy
Influence of structurally different polysaccharides and their interactions with saliva and tannins on mouthfeel in wine
Associate Advisor
Other advisors: Dr Raisa Rudge, Dr Marlize Bekker, Professor Heather Smyth
-
Doctor Philosophy
Advancing biofertiliser for sustainable agriculture
Associate Advisor
Other advisors: Professor Susanne Schmidt, Dr Axa Gonzalez
-
Doctor Philosophy
Co-assimilation of C1 compounds (methanol, formate, formaldehyde) and components from lignocellulosic feedstock
Associate Advisor
Other advisors: Dr Birgitta Ebert
-
Doctor Philosophy
Mechanisms of osmoresistance in industrial Lactococcus cemoris
Associate Advisor
Other advisors: Professor Mark Turner
-
Doctor Philosophy
Systems biology-guided cell line engineering for production of therapeutic proteins with complex post-translational modifications
Associate Advisor
Other advisors: Dr Lucia Zacchi, Professor Benjamin Schulz
-
Doctor Philosophy
Accelerating the extraction of critical metals such as rare earth elements and gallium from red mud tailings.
Associate Advisor
Other advisors: Dr Denys Villa Gomez
-
Doctor Philosophy
Using synthetic biology to accelerate critical metals recovery from mine waste
Associate Advisor
Other advisors: Dr Denys Villa Gomez
Completed supervision
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2023
Doctor Philosophy
Systems metabolic engineering for one-carbon (C1) utilization metabolism
Principal Advisor
Other advisors: Honorary Professor Zhiguo Yuan
-
2023
Doctor Philosophy
Sustainable fuel and chemical production via Gas Fermentation: exploring CO2 metabolism by Clostridium autoethanogenum
Principal Advisor
Other advisors: Professor Lars Nielsen, Dr Axa Gonzalez
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2023
Doctor Philosophy
Modelling and characterising life and death of mammalian suspension cultures
Principal Advisor
Other advisors: Professor Lars Nielsen, Dr Verónica Martinez Salazar, Dr Gert Talbo
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2022
Doctor Philosophy
Cell Line Development for High Density Culture of CHO Cells in Perfusion: Applications of Apoptosis Resistance
Principal Advisor
Other advisors: Professor Peter Gray, Dr Verónica Martinez Salazar
-
2021
Doctor Philosophy
Insight into acetogens metabolism through the use of thermodynamic metabolic flux analysis
Principal Advisor
Other advisors: Professor Lars Nielsen
-
2020
Doctor Philosophy
Understanding toxin production in Clostridium tetani: a systems approach
Principal Advisor
Other advisors: Professor Lars Nielsen
-
2019
Doctor Philosophy
From waste to chemicals: On the metabolism of Clostridium autoethanogenum and PHB production from gas fermentation
Principal Advisor
Other advisors: Professor Lars Nielsen
-
2018
Doctor Philosophy
Exploring the metabolism of propionibacteria using genome-scale modelling
Principal Advisor
Other advisors: Professor Lars Nielsen
-
2018
Doctor Philosophy
Metabolic Engineering of propionibacteria's Wood Werkman cycle in Escherichia coli and Saccharomyces cerevisiae
Principal Advisor
Other advisors: Professor Lars Nielsen, Professor Mark Turner
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2017
Doctor Philosophy
Understanding high propionic acid production in Propionibacterium
Principal Advisor
Other advisors: Professor Lars Nielsen
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2023
Doctor Philosophy
Exploring Metabolic Demands of High Cell Density Chinese Hamster Ovary Cell Culture - Studying Apoptosis Resistance in Perfusion Culture
Associate Advisor
Other advisors: Dr Gert Talbo, Dr Verónica Martinez Salazar
-
2023
Doctor Philosophy
Production of liquid chemicals from C1 feedstocks using Eubacterium limosum
Associate Advisor
Other advisors: Dr Bernardino Virdis
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2022
Doctor Philosophy
Sf9 cell line engineering to improve baculovirus expression
Associate Advisor
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2016
Doctor Philosophy
Understanding CHO cells biology for enhanced biopharmaceutical production: a comparative transcriptomic and proteomic approach
Associate Advisor
Other advisors: Professor Peter Gray, Professor Lars Nielsen
-
2015
Doctor Philosophy
Quantitative bacterial phosphoproteomics
Associate Advisor
Other advisors: Professor Lars Nielsen
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2014
Doctor Philosophy
Characterisation of the Saccharopolyspora erythraea metabolic switch: a systems approach
Associate Advisor
Other advisors: Professor Lars Nielsen
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