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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Lülf, R. H., Hilgarth, M. & Ehrmann, M. A. (2022). Chromohalobacter moromii sp. nov., a moderately halophilic bacterium isolated from lupine-based moromi fermentation. Systematic and Applied Microbiology, 45(4), Article 126324. https://doi.org/10.1016/j.syapm.2022.126324

Lülf, R. H., Selg-Mann, K., Hoffmann, T., Zheng, T., Schirmer, M. & Ehrmann, M. A. (2023). Carbohydrate Sources Influence the Microbiota and Flavour Profile of a Lupine-Based Moromi Fermentation. Foods, 12(1), Article 197. https://doi.org/10.3390/foods12010197

Ma, Y., Vernet, G., Zhang, N. & Kara, S. (2025). Exploring DES-Water Mixtures for Improved ADH-CHMO Fusion Enzyme Performance in Linear Cascades. ChemCatChem, 17(5), Article e202401792. https://doi.org/10.1002/cctc.202401792

Gemeinhardt, K., Jeon, B. S., Ntihuga, J. N., Wang, H., Schlaiß, C., Lucas, T. N., Bessarab, I., Nalpas, N., Zhou, N., Usack, J. G., Huson, D. H., Williams, R. B. H., Maček, B., Aristilde, L. & Angenent, L. T. (2025). Toward industrial C8 production: oxygen intrusion drives renewable n-caprylate production from ethanol and acetate via intermediate metabolite production. Green Chemistry, 27(11), 2931-2949. https://doi.org/10.1039/d5gc00411j

Gonzalez-Serrano, D. J., Benmebarek, I. E., Hadidi, M., Bechtner, J. D., Martinez, M. M., Cabañas, B. & Moreno, A. (2025). Optimization of microwave-assisted hydrothermal extraction of homogalacturonan-rich, low methoxyl pectin from discarded garlic peels: Comparative macromolecular and functional analysis with conventional extraction. Food Hydrocolloids, 166, Article 111324. https://doi.org/10.1016/j.foodhyd.2025.111324

Temovska, M., Hegner, R., Ortiz-Ardila, A. E., Usack, J. G. & Angenent, L. T. (2025). Lactate production from lactose-rich wastewater: A comparative study on reactor configurations to maximize conversion rates and efficiencies. Water Research, 278, Article 123365. https://doi.org/10.1016/j.watres.2025.123365

Lara, A. R. & Gosset, G. (2019). Preface. In Minimal Cells: Design, Construction, Biotechnological Applications (pp. v-vi). Springer International Publishing.

Pablos, T. E., Sigala, J. C., Le Borgne, S. & Lara, A. R. (2014). Aerobic expression of Vitreoscilla hemoglobin efficiently reduces overflow metabolism in Escherichia coli. Biotechnology Journal, 9(6), 791-799. https://doi.org/10.1002/biot.201300388

de la Cruz, M., Ramírez, E. A., Sigala, J. C., Utrilla, J. & Lara, A. R. (2020). Plasmid DNA production in proteome-reduced Escherichia coli. Microorganisms, 8(9), 1-8. Article 1444. https://doi.org/10.3390/microorganisms8091444

Chávez-Béjar, M. I., Lara, A. R., López, H., Hernández-Chávez, G., Martinez, A., Ramírez, O. T., Bolívar, F. & Gosset, G. (2008). Metabolic engineering of Escherichia coli for L-tyrosine production by expression of genes coding for the chorismate mutase domain of the native chorismate mutase-prephenate dehydratase and a cyclohexadienyl dehydrogenase from Zymomonas mobilis. Applied and Environmental Microbiology, 74(10), 3284-3290. https://doi.org/10.1128/AEM.02456-07

Lara, A. R. & Gosset, G. (2019). Minimal cells: Design, construction, biotechnological applications. Springer International Publishing. https://doi.org/10.1007/978-3-030-31897-0

Borja, G. M., Meza Mora, E., Barrón, B., Gosset, G., Ramírez, O. T. & Lara, A. R. (2012). Engineering Escherichia coli to increase plasmid DNA production in high cell-density cultivations in batch mode. Microbial Cell Factories, 11, Article 132. https://doi.org/10.1186/1475-2859-11-132

Taymaz-Nikerel, H. & Lara, A. R. (2016). Editorial: Quantitative systems biology for engineering organisms and pathways. Frontiers in Bioengineering and Biotechnology, 4(MAR), Article 22. https://doi.org/10.3389/fbioe.2016.00022

Jaén, K. E., Velazquez, D., Sigala, J. C. & Lara, A. R. (2021). Enhancing microaerobic plasmid DNA production by chromosomal expression of Vitreoscilla hemoglobin in E. coli. Biochemical Engineering Journal, 166, Article 107862. https://doi.org/10.1016/j.bej.2020.107862

Lara, A. R., Caspeta, L., Gosset, G., Bolívar, F. & Ramírez, O. T. (2008). Utility of an Escherichia coli strain engineered in the substrate uptake system for improved culture performance at high glucose and cell concentrations: An alternative to fed-batch cultures. Biotechnology and Bioengineering, 99(4), 893-901. https://doi.org/10.1002/bit.21664

Fuentes, L. G., Lara, A. R., Martínez, L. M., Ramírez, O. T., Martínez, A., Bolívar, F. & Gosset, G. (2013). Modification of glucose import capacity in Escherichia coli: Physiologic consequences and utility for improving DNA vaccine production. Microbial Cell Factories, 12(1), Article 42. https://doi.org/10.1186/1475-2859-12-42

Jaén, K. E., Lara, A. R. & Ramírez, O. T. (2013). Effect of heating rate on pDNA production by E. coli. Biochemical Engineering Journal, 79, 230-238. https://doi.org/10.1016/j.bej.2013.08.006

Jaén, K. E., Velazquez, D., Delvigne, F., Sigala, J. C. & Lara, A. R. (2019). Engineering E. coli for improved microaerobic pDNA production. Bioprocess and Biosystems Engineering, 42(9), 1457-1466. https://doi.org/10.1007/s00449-019-02142-5

Caspeta, L., Lara, A. R., Pérez, N. O., Flores, N., Bolívar, F. & Ramírez, O. T. (2013). Enhancing thermo-induced recombinant protein production in Escherichia coli by temperature oscillations and post-induction nutrient feeding strategies. Journal of Biotechnology, 167(1), 47-55. https://doi.org/10.1016/j.jbiotec.2013.06.001

Pablos, T. E., Soto, R., Mora, E. M., Le Borgne, S., Ramírez, O. T., Gosset, G. & Lara, A. R. (2012). Enhanced production of plasmid DNA by engineered Escherichia coli strains. Journal of Biotechnology, 158(4), 211-214. https://doi.org/10.1016/j.jbiotec.2011.04.015

Lara, A. R., Jaén, K. E., Sigala, J. C., Regestein, L. & Büchs, J. (2017). Evaluation of microbial globin promoters for oxygen-limited processes using Escherichia coli. Journal of Biological Engineering, 11(1), Article 39. https://doi.org/10.1186/s13036-017-0082-3

Lara, A. R., Knabben, I., Regestein, L., Sassi, J., Caspeta, L., Ramírez, O. T. & Büchs, J. (2011). Comparison of oxygen enriched air vs. pressure cultivations to increase oxygen transfer and to scale-up plasmid DNA production fermentations. Engineering in Life Sciences, 11(4), 382-386. https://doi.org/10.1002/elsc.201000104

Lara, A. R., Leal, L., Flores, N., Gosset, G., Bolívar, F. & Ramírez, O. T. (2006). Transcriptional and metabolic response of recombinant Escherichia coli to spatial dissolved oxygen tension gradients simulated in a scale-down system. Biotechnology and Bioengineering, 93(2), 372-385. https://doi.org/10.1002/bit.20704

Knabben, I., Regestein, L., Marquering, F., Steinbusch, S., Lara, A. R. & Büchs, J. (2010). High cell-density processes in batch mode of a genetically engineered Escherichia coli strain with minimized overflow metabolism using a pressurized bioreactor. Journal of Biotechnology, 150(1), 73-79. https://doi.org/10.1016/j.jbiotec.2010.07.006

Galindo, J., Barrón, B. L. & Lara, A. R. (2016). Improved production of large plasmid DNA by enzyme-controlled glucose release. Annals of Microbiology, 66(3), 1337-1342. https://doi.org/10.1007/s13213-016-1218-2

Lara, A. R., Palomares, L. A. & Ramírez, O. T. (2016). Scale-down: Simulating large-scale cultures in the laboratory. In Industrial Biotechnology: Products and Processes (pp. 55-79). Wiley-VCH Verlag GmbH. https://doi.org/10.1002/9783527807833

Pablos, T. E., Olivares, R., Sigala, J. C., Ramírez, O. T. & Lara, A. R. (2016). Toward efficient microaerobic processes using engineered Escherichia coli W3110 strains. Engineering in Life Sciences, 16(7), 588-597. https://doi.org/10.1002/elsc.201500129

Gálvez, R. M., Pablos, T. E., Sigala, J. C. & Lara, A. R. (2014). Co-utilization of glucose and xylose increases growth rate without affecting plasmid dna yield of engineered E. coli. Revista Mexicana de Ingeniera Quimica, 13(2), 387-391.

Freudenau, I., Lutter, P., Baier, R., Schleef, M., Bednarz, H., Lara, A. R. & Niehaus, K. (2015). ColE1-plasmid production in Escherichia coli: Mathematical simulation and experimental validation. Frontiers in Bioengineering and Biotechnology, 3(SEP), Article 127. https://doi.org/10.3389/fbioe.2015.00127

Baert, J., Delepierre, A., Telek, S., Fickers, P., Toye, D., Delamotte, A., Lara, A. R., Jaén, K. E., Gosset, G., Jensen, P. R. & Delvigne, F. (2016). Microbial population heterogeneity versus bioreactor heterogeneity: Evaluation of Redox Sensor Green as an exogenous metabolic biosensor. Engineering in Life Sciences, 16(7), 643-651. https://doi.org/10.1002/elsc.201500149

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

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