Publications by Industrial Biotechnology

Are you looking for publications by Section of Industrial Biotechnology? On this page you can find all the publications made by the Section of Industrial Biotechnology - Department of Biological & Chemical Engineering, Aarhus University.

Below you can find a list of all the publications, their publishing date, their author(s), and titles. The list can be sorted by date, author, and title:

List of Publications

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Sigala, J. C., Suárez, B. P., Lara, A. R., Borgne, S. L., Bustos, P., Santamaría, R. I., González, V. & Martinez, A. (2017). Genomic and physiological characterization of a laboratory-isolated Acinetobacter schindleri ACE strain that quickly and efficiently catabolizes acetate. Microbiology (United Kingdom), 163(7), 1052-1064. https://doi.org/10.1099/mic.0.000488

Lara, A. R. & Ramírez, O. T. (2012). Plasmid DNA production for therapeutic applications. In A. Lorence (Ed.), Recombinant Gene Expression: Reviews and Protocols, Third Edition (pp. 271-303) https://doi.org/10.1007/978-1-61779-433-9_14

De Anda, R., Lara, A. R., Hernández, V., Hernández-Montalvo, V., Gosset, G., Bolívar, F. & Ramírez, O. T. (2006). Replacement of the glucose phosphotransferase transport system by galactose permease reduces acetate accumulation and improves process performance of Escherichia coli for recombinant protein production without impairment of growth rate. Metabolic Engineering, 8(3), 281-290. https://doi.org/10.1016/j.ymben.2006.01.002

Arteaga, J. E., Cerros, K., Rivera-Becerril, E., Lara, A. R., Le Borgne, S. & Sigala, J. C. (2021). Furfural biotransformation in Acinetobacter baylyi ADP1 and Acinetobacter schindleri ACE. Biotechnology Letters , 43(5), 1043-1050. https://doi.org/10.1007/s10529-021-03094-1

Beltran, N. E., Reyes, A. & Lara, A. R. (2014). Cardiac tissue engineering as an alternative to current therapies: Economical and technical challenges. Experimental and Clinical Cardiology, 20(8), 3375-3388.

Wunderlich, M., Taymaz-Nikerel, H., Gosset, G., Ramírez, O. T. & Lara, A. R. (2014). Effect of growth rate on plasmid DNA production and metabolic performance ofengineered Escherichia coli strains. Journal of Bioscience and Bioengineering, 117(3), 336-342. https://doi.org/10.1016/j.jbiosc.2013.08.007

Mairhofer, J. & Lara, A. R. (2014). Advances in host and vector development for the production of plasmid DNA vaccines. Methods in Molecular Biology, 1139, 505-541. https://doi.org/10.1007/978-1-4939-0345-0_38

Lara, A. R., Velázquez, D., Penella, I., Islas, F., González-De la Rosa, C. H. & Sigala, J. C. (2019). Design of a synthetic miniR1 plasmid and its production by engineered Escherichia coli. Bioprocess and Biosystems Engineering, 42(8), 1391-1397. https://doi.org/10.1007/s00449-019-02129-2

Jaén, K. E., Sigala, J. C., Olivares-Hernández, R., Niehaus, K. & Lara, A. R. (2017). Heterogeneous oxygen availability affects the titer and topology but not the fidelity of plasmid DNA produced by Escherichia coli. BMC Biotechnology, 17(1), Article 60. https://doi.org/10.1186/s12896-017-0378-x

Martínez, J. A., Rodriguez, A., Moreno, F., Flores, N., Lara, A. R., Ramírez, O. T., Gosset, G. & Bolivar, F. (2018). Metabolic modeling and response surface analysis of an Escherichia coli strain engineered for shikimic acid production. BMC Systems Biology, 12(1), Article 102. https://doi.org/10.1186/s12918-018-0632-4

Juárez, M., González-De la Rosa, C. H., Memún, E., Sigala, J. C. & Lara, A. R. (2017). Aerobic expression of Vitreoscilla hemoglobin improves the growth performance of CHO-K1 cells. Biotechnology Journal, 12(3), Article 1600438. https://doi.org/10.1002/biot.201600438

Juárez, M., González-De La Rosa, C. H., Sigala, J. C. & Lara, A. R. (2021). Effect of vitreoscilla hemoglobin on recombinant protein expression and energy and redox state of cho cells. Revista Mexicana de Ingeniera Quimica, 20(1), 281-288. https://doi.org/10.24275/rmiq/Bio1866

Delvigne, F., Zune, Q., Lara, A. R., Al-Soud, W. & Sørensen, S. J. (2014). Metabolic variability in bioprocessing: Implications of microbial phenotypic heterogeneity. Trends in Biotechnology, 32(12), 608-616. https://doi.org/10.1016/j.tibtech.2014.10.002

Lara, A. R., Galindo, E., Ramírez, O. T. & Palomares, L. A. (2006). Living with heterogeneities in bioreactors: Understanding the effects of environmental gradients on cells. Molecular Biotechnology, 34(3), 355-381. https://doi.org/10.1385/MB:34:3:355

Sigala, J. C., Quiroz, L., Arteaga, E., Olivares, R., Lara, A. R. & Martinez, A. (2019). Physiological and transcriptional comparison of acetate catabolism between Acinetobacter schindleri ACE and Escherichia coli JM101. FEMS Microbiology Letters, 366(12), Article fnz151. https://doi.org/10.1093/femsle/fnz151

Ramírez, E. A., Velázquez, D. & Lara, A. R. (2016). Enhanced plasmid DNA production by enzyme-controlled glucose release and an engineered Escherichia coli. Biotechnology Letters , 38(4), 651-657. https://doi.org/10.1007/s10529-015-2017-8

Jaén, K. E., Velázquez, D., Sigala, J. C. & Lara, A. R. (2019). Design of a microaerobically inducible replicon for high-yield plasmid DNA production. Biotechnology and Bioengineering, 116(10), 2514-2525. https://doi.org/10.1002/bit.27091

Lara, A. R., Jaén, K. E., Sigala, J. C., Mühlmann, M., Regestein, L. & Büchs, J. (2017). Characterization of Endogenous and Reduced Promoters for Oxygen-Limited Processes Using Escherichia coli. ACS Synthetic Biology, 6(2), 344-356. https://doi.org/10.1021/acssynbio.6b00233

Lara, A. R., Jaén, K. E., Folarin, O., Keshavarz-Moore, E. & Büchs, J. (2019). Effect of the oxygen transfer rate on oxygen-limited production of plasmid DNA by Escherichia coli. Biochemical Engineering Journal, 150, Article 107303. https://doi.org/10.1016/j.bej.2019.107303

Cortés, J. T., Flores, N., Bolívar, F., Lara, A. R. & Ramírez, O. T. (2016). Physiological effects of pH gradients on Escherichia coli during plasmid DNA production. Biotechnology and Bioengineering, 113(3), 598-611. https://doi.org/10.1002/bit.25817

Lara, A. R., Vazquez-Limón, C., Gosset, G., Bolívar, F., López-Munguía, A. & Ramírez, O. T. (2006). Engineering Escherichia coli to improve culture performance and reduce formation of by-products during recombinant protein production under transient intermittent anaerobic conditions. Biotechnology and Bioengineering, 94(6), 1164-1175. https://doi.org/10.1002/bit.20954

Lara, A. R., Taymaz-Nikerel, H., Mashego, M. R., Van Gulik, W. M., Heijnen, J. J., Ramírez, O. T. & Van Winden, W. A. (2009). Fast dynamic response of the fermentative metabolism of Escherichia coli to aerobic and anaerobic glucose pulses. Biotechnology and Bioengineering, 104(6), 1153-1161. https://doi.org/10.1002/bit.22503

Grijalva-Hernández, F., Vega-Estrada, J., Escobar-Rosales, M., Ortega-López, J., Aguilar-López, R., Lara, A. R. & Montes-Horcasitas, M. D. C. (2019). High kanamycin concentration as another stress factor additional to temperature to increase pdna production in e. Coli dh5α batch and fed-batch cultures. Microorganisms, 7(12), Article 711. https://doi.org/10.3390/microorganisms7120711

Lara, A. R. (2011). Recombinant protein production in escherichia coli. Revista Mexicana de Ingeniera Quimica, 10(2), 209-223.

Lara, A. R., Galindo, J., Jaén, K. E., Juárez, M. & Sigala, J. C. (2020). Physiological response of escherichia coli W3110 and BL21 to the aerobic expression of vitreoscilla hemoglobin. Journal of Microbiology and Biotechnology, 30(10), 1592-1596. https://doi.org/10.4014/JMB.2004.04030

Oliveira, P. H., Mairhofer, J., Alves, P. M., Lara, A. R. & Kontoravdi, C. (2015). Advances in the development of biotherapeutics. BioMed Research International, 2015, Article 793876. https://doi.org/10.1155/2015/793876

Pablos, T. E., Mora, E. M., Le Borgne, S., Ramírez, O. T., Gosset, G. & Lara, A. R. (2011). Vitreoscilla hemoglobin expression in engineered Escherichia coli: Improved performance in high cell-density batch cultivations. Biotechnology Journal, 6(8), 993-1002. https://doi.org/10.1002/biot.201000405

Soto, R., Caspeta, L., Barrón, B., Gosset, G., Ramírez, O. T. & Lara, A. R. (2011). High cell-density cultivation in batch mode for plasmid DNA production by a metabolically engineered E. coli strain with minimized overflow metabolism. Biochemical Engineering Journal, 56(3), 165-171. https://doi.org/10.1016/j.bej.2011.06.003

Velazquez, D., Jaén, K. E., Sigala, J. C. & Lara, A. R. (2021). Minimized backbone and novel microaerobic promoters boost plasmid DNA production. Process Biochemistry, 106, 130-136. https://doi.org/10.1016/j.procbio.2021.04.013

Licona-Cassani, C., Lara, A. R., Cabrera-Valladares, N., Escalante, A., Hernández-Chávez, G., Martinez, A., Bolívar, F. & Gosset, G. (2014). Inactivation of pyruvate kinase or the phosphoenolpyruvate: Sugar phosphotransferase system increases shikimic and dehydroshikimic acid yields from glucose in bacillus subtilis. Journal of Molecular Microbiology and Biotechnology, 24(1), 37-45. https://doi.org/10.1159/000355264

Fragoso-Jiménez, J. C., Gutierrez-Rios, R. M., Flores, N., Martinez, A., Lara, A. R., Delvigne, F. & Gosset, G. (2022). Glucose consumption rate-dependent transcriptome profiling of Escherichia coli provides insight on performance as microbial factories. Microbial Cell Factories, 21(1), Article 189. https://doi.org/10.1186/s12934-022-01909-y

Velazquez, D., Sigala, J. C., Martínez, L. M., Gaytán, P., Gosset, G. & Lara, A. R. (2022). Glucose transport engineering allows mimicking fed-batch performance in batch mode and selection of superior producer strains. Microbial Cell Factories, 21(1), Article 183. https://doi.org/10.1186/s12934-022-01906-1

Taymaz-Nikerel, H. & Lara, A. R. (2022). Vitreoscilla haemoglobin: A tool to reduce overflow metabolism. Microorganisms, 10(1), Article 43. https://doi.org/10.3390/microorganisms10010043

Krausch, N., Kaspersetz, L., Gaytán-Castro, R. D., Schermeyer, M. T., Lara, A. R., Gosset, G., Cruz Bournazou, M. N. & Neubauer, P. (2023). Model-Based Characterization of E. coli Strains with Impaired Glucose Uptake. Bioengineering, 10(7), Article 808. https://doi.org/10.3390/bioengineering10070808

Islas, F., Sabido, A., Sigala, J. C. & Lara, A. R. (2023). Design of microaerobically inducible miniR1 plasmids. mLife, 2(1), 101-104. https://doi.org/10.1002/mlf2.12058

Pohlen, L., García, E., Martínez, L. M., Flores, N., Büchs, J., Gosset, G. & Lara, A. R. (2025). Sigma Factors as Potential Targets to Enhance Recombinant Protein Expression. Biotechnology and Bioengineering, 122(6), 1598-1607. https://doi.org/10.1002/bit.28958

Timmis, K., Karahan, Z. C., Ramos, J. L., Koren, O., Pérez-Cobas, A. E., Steward, K., de Lorenzo, V., Caselli, E., Douglas, M., Schwab, C., Rivero, V., Giraldo, R., Garmendia, J., Turner, R. J., Perlmutter, J., Borrero de Acuña, J. M., Nikel, P. I., Bonnet, J., Sessitsch, A. ... Häggblom, M. (2025). Microbes Saving Lives and Reducing Suffering. Microbial Biotechnology, 18(1), Article e70068. https://doi.org/10.1111/1751-7915.70068

Sieborg, M. U., Engelbrecht, N., Singh, A., Schnürer, A., Ottosen, L. D. M. & Kofoed, M. V. W. (2025). Unraveling the effects of temperature on mass transfer and microbiology in thermophilic and extreme thermophilic trickle bed biomethanation reactors. Chemical Engineering Journal, 509, Article 161179. https://doi.org/10.1016/j.cej.2025.161179

Peng, S., Zhang, C., Wei, Y., Ouyang, Y., Han, J., Li, C., Dong, M. & Wang, J. (2025). High performance self-powered PbSe/WSe₂ p-n heterojunction photodetector for image sensing. Journal of Materials Science and Technology, 225, 125-132. https://doi.org/10.1016/j.jmst.2024.11.025

Claes, N., Foged, N., Norvin Vilhelmsen, T., Rumph Frederiksen, R., Kim, H. & Vest Christiansen, A. (2021). Data-driven hydrogeophysical and redox modelling. In 1st Conference on Hydrogeophysics: Contribution to Exploration and Management of Groundwater, Land-Use and Natural Hazards under a Changing Climate, Held at Near Surface Geoscience Conference and Exhibition 2021, NSG 2021 EAGE Publishing BV. https://doi.org/10.3997/2214-4609.202120078

Šáner, A., Ambye-Jensen, M., Jensen, S. K., Vorkamp, K., Ceccato, M. & Smith, A. M. (2025). Biochar produced from bio-refined herbaceous fibre residue for feed and technical purposes. Journal of Analytical and Applied Pyrolysis, 187, Article 107004. https://doi.org/10.1016/j.jaap.2025.107004

Struwe, H., Grimm, C., Dräger, G., Beutel, S., Alcalde, M., Kirschning, A. & Kara, S. (2025). Expanding the “Terpenome”: Applications of Unspecific Peroxygenases (UPOs) in Oxidations of Unnatural Terpenoids. ChemCatChem, 17(1), Article e202401414. https://doi.org/10.1002/cctc.202401414

Merrild, A., Svenningsen, T., Chevrette, M. & Tørring, T. (2025). Evolution-Guided Discovery of Antimycobacterial Triculamin-Like Lasso Peptides. Angewandte Chemie International Edition, 64(20), Article e202425134. https://doi.org/10.1002/anie.202425134

Bittner, J. P., Zhang, N., Domínguez de María, P., Smirnova, I., Kara, S. & Jakobtorweihen, S. (2025). Molecular Understanding of Activity Changes of Alcohol Dehydrogenase in Deep Eutectic Solvents. Journal of Physical Chemistry B, 129(4), 1197-1213. https://doi.org/10.1021/acs.jpcb.4c06523

Das, D., Eser, B. E., Han, J., Sciore, A. & Marsh, E. N. G. (2012). Erratum: Oxygen-independent decarbonylation of aldehydes by cyanobacterial aldehyde decarbonylase: A new reaction of diiron enzymes (Angewandte Chemie - International Edition (2011) 50 DOI: 10.1002/anie.201101552). Angewandte Chemie - International Edition, 51(32). https://doi.org/10.1002/anie.201204831

Kim, H., Mi, H. T. N., Ahn, J. H., Lee, J. S., Eser, B. E., Choi, J. & Han, J. (2024). Glycoside-metabolizing oxidoreductase D3dgpA from human gut bacterium. Frontiers in Bioengineering and Biotechnology, 12, Article 1413854. https://doi.org/10.3389/fbioe.2024.1413854

Mi, H. T. N., Chaiyasarn, S., Eser, B. E., Tan, S. R. S., Burapan, S. & Han, J. (2022). Allyl Aryl Ether Cleavage by Blautia sp. MRG-PMF1 Cocorrinoid O-Demethylase. Microbiology Spectrum, 10(5). https://doi.org/10.1128/spectrum.03305-22

Eser, B. E., Das, D., Han, J., Jones, P. R. & Marsh, E. N. G. (2012). Erratum: Oxygen-independent alkane formation by non-heme iron-dependent cyanobacterial aldehyde decarbonylase: Investigation of kinetics and requirement for an external electron donor (Biochemistry (2011) 50:49 (10743-10750). DOI: 10.1021/bi2012417). Biochemistry, 51(28), 5703. https://doi.org/10.1021/bi300837j

Li, Z., Zhang, Y., Balle, T., Eser, B. E., Fang, Y. & Guo, Z. (2025). Preparation of Cello-Oligosaccharides by Precise-Controlled Enzymatic Depolymerization and Its Amphiphilic Functionalization for High-Oil Load Emulsification. Journal of Agricultural and Food Chemistry, 73(2), 1458–1467. https://doi.org/10.1021/acs.jafc.4c08886

Li, Q., Marietou, A., Andersen, F. F., Hosek, J., Scavenius, C., Zhang, J. & Schwab, C. (2025). In vitro investigations on the impact of fermented dairy constituents on fecal microbiota composition and fermentation activity. Microbiology Spectrum, 13(3), e0219324. https://doi.org/10.1128/spectrum.02193-24

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Revised 13.11.2025

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