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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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), Artikel 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), Artikel 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), Artikel 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), Artikel 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, Artikel 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), Artikel 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, Artikel 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), Artikel 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), Artikel 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), Artikel 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), Artikel 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

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), Artikel e70068. https://doi.org/10.1111/1751-7915.70068

Saad, A., Bai, L., Christensen, F. M. S., Luo, S., Bentien, A., Ashokkumar, M. & Wei, Z. (2025). Ultrasound-enhanced alkaline water splitting with fast bubble release and sustained Ni catalysts. Applied Catalysis B: Environmental, 370, Artikel 125152. https://doi.org/10.1016/j.apcatb.2025.125152

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, Artikel 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. I 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, Artikel 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), Artikel e202401414. https://doi.org/10.1002/cctc.202401414

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

Christensen, B., Krüger, T. F., Hjorth, T. P., Buhl, E. H. & Sørensen, E. S. (2025). Milk osteopontin mediates zinc uptake in intestinal cells in the presence of phytic acid. International Dairy Journal, 161, Artikel 106113. https://doi.org/10.1016/j.idairyj.2024.106113

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, Artikel 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

Nazipi Bushi, S., Lund, M. B., Sandfeld, T., Nørskov, S. S., Fruergaard, S., Glasius, M., Bilde, T. & Schramm, A. (2025). A modified iChip for in situ cultivation of bacteria in arid environments. Applied and Environmental Microbiology, 91(2), e0132524. Artikel e0132524. https://doi.org/10.1128/aem.01325-24

Elvan Gezer, M., Gravlund Fønss, K., Bambace, M. F., Marietou, A., Sandberg Overby, S., Sundekilde, U. & Schwab, C. (2025). Investigation on L-rhamnose metabolism of Loigolactobacillus coryniformis subsp. coryniformis DSM 20001 and its propionate-containing fermentates. Applied and Environmental Microbiology, 91(1), e0161324. Artikel e0161324. https://doi.org/10.1128/aem.01613-24

Muñoz-Duarte, L., Chakraborty, S., Grøn, L. V., Bambace, M. F., Catalano, J. & Philips, J. (2025). H₂ Consumption by Various Acetogenic Bacteria Follows First-Order Kinetics up to H₂ Saturation. Biotechnology and Bioengineering, 122(4), 804-816. https://doi.org/10.1002/bit.28904

Palacios Jaramillo, P. A., Sieborg, M. U., Kuipers, S. B., Fruergaard, S. & Kofoed, M. V. W. (2025). Temperature tactics: Targeting acetate or methane production in autotrophic H2/CO2 conversion with mixed cultures. Biochemical Engineering Journal, 214, Artikel 109574. https://doi.org/10.1016/j.bej.2024.109574

Zdouc, M. M., Blin, K., Louwen, N. L. L., Navarro, J., Loureiro, C., Bader, C. D., Bailey, C. B., Barra, L., Booth, T. J., Bozhüyük, K. A. J., Cediel-Becerra, J. D. D., Charlop-Powers, Z., Chevrette, M. G., Chooi, Y. H., D'Agostino, P. M., de Rond, T., Del Pup, E., Duncan, K. R., Gu, W. ... Medema, M. H. (2025). MIBiG 4.0: advancing biosynthetic gene cluster curation through global collaboration. Nucleic Acids Research, 53(D1), D678-D690. https://doi.org/10.1093/nar/gkae1115

Mekureyaw, M. F., Junker, A., Bai, L., Zhang, Y., Wei, Z. & Guo, Z. (2025). Laccase based per- and polyfluoroalkyl substances degradation: Status and future perspectives. Water Research, 271, Artikel 122888. https://doi.org/10.1016/j.watres.2024.122888

Benfeldt, F. V., Wang, F., Bredahl, N., Gao, R., Guo, Z. & Eser, B. E. (2024). A Highly Efficient Ferulic Acid Decarboxylase from Capronia coronata: Characterization and Biocatalytic Applications. (s. xxx-xxx). ChemRxiv https://doi.org/10.26434/chemrxiv-2024-0npph-v2

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Revideret 16.01.2025

AU Engineering