1996 …2022

Research output per year

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Research Output

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Journal article
2020

An autoinducible trp-T7 expression system for production of proteins and biochemicals in Escherichia coli

Landberg, J., Mundhada, H. & Nielsen, A. T., 2020, In : Biotechnology and Bioengineering. 117, 5, p. 1513-1524

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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26 Downloads (Pure)

Genome-Based Comparison of All Species of the Genus Moorella, and Status of the Species Moorella thermoacetica and Moorella thermoautotrophica

Redl, S. M. A., Poehlein, A., Esser, C., Bengelsdorf, F. R., Jensen, T. Ø., Jendresen, C. B., Tindall, B. J., Daniel, R., Dürre, P. & Nielsen, A. T., 2020, In : Frontiers in Microbiology. 10, 3070.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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16 Downloads (Pure)

Genome-Wide CRISPRi-Based Identification of Targets for Decoupling Growth from Production

Li, S., Jendresen, C. B., Landberg, J. M., Pedersen, L. E., Sonnenschein, N., Ingemann Jensen, S. & Nielsen, A. T., 2020, (Accepted/In press) In : ACS Synthetic Biology.

Research output: Contribution to journalJournal articleResearchpeer-review

2019

A metabolic reconstruction of Lactobacillus reuteri JCM 1112 and analysis of its potential as a cell factory

Kristjansdottir, T., Bosma, E. F., Branco Dos Santos, F., Özdemir, E., Herrgård, M. J., França, L., Ferreira, B., Toftgaard Nielsen, A. & Gudmundsson, S., 2019, In : Microbial Cell Factories. 18, 1, 19 p., 186.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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47 Downloads (Pure)

Generation of an E. coli platform strain for improved sucrose utilization using adaptive laboratory evolution

Mohamed, E. T. T., Mundhada, H., Landberg, J. M., Cann, I., Mackie, R. I., Nielsen, A. T., Herrgard, M. J. & Feist, A. M., 2019, In : Microbial Cell Factories. 18, 116.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
128 Downloads (Pure)

Genome editing of lactic acid bacteria: opportunities for food, feed, pharma and biotech

Börner, R. A., Kandasamy, V., Axelsen, A. M., Nielsen, A. T. & Bosma, E. F., 2019, In : F E M S Microbiology Letters. 366, 1, 12 p., fny291.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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449 Downloads (Pure)

Genome-wide systematic identification of methyltransferase recognition and modification patterns

Jensen, T. Ø., Tellgren-Roth, C., Redl, S. M. A., Maury, J., Baallal Jacobsen, S. A., Pedersen, L. E. & Nielsen, A. T., 2019, In : Nature Communications. 10, 1, 3311.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
148 Downloads (Pure)

Industrializing a Bacterial Strain for l -Serine Production through Translation Initiation Optimization

Rennig, M., Mundhada, H., Wordofa, G. G., Gerngross, D., Wulff, T., Worberg, A., Nielsen, A. T. & Nørholm, M. H. H., 2019, In : ACS Synthetic Biology. 8, 10, p. 2347-2358

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
92 Downloads (Pure)

Production of zosteric acid and other sulfated phenolic biochemicals in microbial cell factories

Jendresen, C. B. & Nielsen, A. T., 2019, In : Nature Communications. 10, 4071.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
100 Downloads (Pure)

Simultaneous quantification of multiple bacterial metabolites using surface-enhanced Raman scattering

Morelli, L., Centorbi, F. A., Ilchenko, O., Jendresen, C. B., Demarchi, D., Nielsen, A. T., Zor, K. & Boisen, A., 2019, In : Analyst. 144, 5, p. 1600-1607 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2018

Genome-wide identification of tolerance mechanisms towards p-coumaric acid in Pseudomonas putida

Calero, P., Jensen, S. I., Bojanovič, K., Lennen, R., Koza, A. & Nielsen, A. T., 2018, In : Biotechnology and Bioengineering. 115, 3, p. 762-774

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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448 Downloads (Pure)

Injection molded lab-on-a-disc platform for screening of genetically modified E. coli using liquid-liquid extraction and surface enhanced Raman scattering

Morelli, L., Serioli, L., Centorbi, F. A., Jendresen, C. B., Matteucci, M., Ilchenko, O., Demarchi, D., Nielsen, A. T., Zor, K. & Boisen, A., 2018, In : Lab on a Chip. 9 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
147 Downloads (Pure)

CRISPR/Cas9-based genome editing for simultaneous interference with gene expression and protein stability

Martinez, V., Lauritsen, I., Hobel, T., Li, S., Nielsen, A. T. & Nørholm, M., 2017, In : Nucleic Acids Research. 45, 20, 8 p., gkx797.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
223 Downloads (Pure)

Exploiting the potential of gas fermentation

Redl, S. M. A., Diender, M., Jensen, T. Ø., Sousa, D. Z. & Nielsen, A. T., 2017, In : Industrial Crops and Products. 106, p. 21-30

Research output: Contribution to journalJournal articleResearchpeer-review

Genetic toolbox for controlled expression of functional proteins in Geobacillus spp.

Pogrebnyakov, I., Jendresen, C. B. & Nielsen, A. T., 2017, In : PLOS ONE. 12, 2, 15 p., e0171313.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
549 Downloads (Pure)

Increased production of L-serine in Escherichia coli through Adaptive Laboratory Evolution

Mundhada, H., Seoane, J. M., Schneider, K., Christensen, H. B., Koza, A., Herrgard, M., Feist, A. & Nielsen, A. T., 2017, In : Metabolic Engineering. 39, p. 141–150 24 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
594 Downloads (Pure)
Open Access
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121 Downloads (Pure)

Quantification of a bacterial secondary metabolite by SERS combined with SLM extraction for bioprocess monitoring

Morelli, L., Andreasen, S. Z., Jendresen, C. B., Nielsen, A. T., Emnéus, J., Zor, K. & Boisen, A., 2017, In : Analyst. 142, 23, p. 4553-4559

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
129 Downloads (Pure)

Surface Enhanced Raman Scattering for Quantification of p-Coumaric Acid Produced by Escherichia coli

Morelli, L., Zor, K., Jendresen, C. B., Rindzevicius, T., Schmidt, M. S., Nielsen, A. T. & Boisen, A., 2017, In : Analytical chemistry. 89, p. 3981-3987 7 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
97 Downloads (Pure)

Thermodynamics and economic feasibility of acetone production from syngas using the thermophilic production host Moorella thermoacetica

Redl, S. M. A., Sukumara, S., Ploeger, T., Wu, L., Jensen, T. Ø., Nielsen, A. T. & Noorman, H., 2017, In : Biotechnology for Biofuels. 10, 150.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
528 Downloads (Pure)

CRMAGE: CRISPR Optimized MAGE Recombineering

Ronda, C., Pedersen, L. E., Sommer, M. O. A. & Nielsen, A. T., 2016, In : Scientific Reports. 6, 11 p., 19452.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
526 Downloads (Pure)

Engineering of High Yield Production of L-serine in Escherichia coli

Mundhada, H., Schneider, K., Christensen, H. B. & Nielsen, A. T., 2016, In : Biotechnology and Bioengineering. 113, 4, p. 807-816 10 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Enhanced protein and biochemical production using CRISPRi-based growth switches

Li, S., Jendresen, C. B., Grünberger, A., Ronda, C., Ingemann Jensen, S., Noack, S. & Nielsen, A. T., 2016, In : Metabolic Engineering. 38, p. 274-284 11 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Genome-wide Escherichia coli stress response and improved tolerance towards industrially relevant chemicals

Rau, M. H., Calero Valdayo, P., Lennen, R., Long, K. & Nielsen, A. T., 2016, In : Microbial Cell Factories. 15, 18 p., 176.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
484 Downloads (Pure)

Increasing production yield of tyrosine and mevalonate through inhibition of biomass formation

Li, S., Jendresen, C. B. & Nielsen, A. T., 2016, In : Process Biochemistry. 51, 12, p. 1992–2000 9 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Predictable tuning of protein expression in bacteria

Bonde, M., Pedersen, M., Klausen, M. S., Ingemann Jensen, S., Wulff, T., Harrison, S. J., Nielsen, A. T., Herrgard, M. & Sommer, M. O. A., 2016, In : Nature Methods. 13, p. 233-236 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

The Ssr protein (T1E_1405) from Pseudomonas putida DOT-T1E enables oligonucleotide-based recombineering in platform strain P. putida EM42

Aparicio, T., Ingemann Jensen, S., Nielsen, A. T., Victor de Lorenzo, V. D. & Martínez-García, E., 2016, In : Biotechnology Journal. 11, 10, p. 1309-1319 31 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2 Downloads (Pure)
2015

CasEMBLR: Cas9-Facilitated Multiloci Genomic Integration of in Vivo Assembled DNA Parts in Saccharomyces cerevisiae

Jakociunas, T., Rajkumar, A. S., Zhang, J., Arsovska, D., Rodriguez Prado, E. A., Jendresen, C. B., Skjødt, M. L., Nielsen, A. T., Borodina, I., Jensen, M. K. & Keasling, J., 2015, In : A C S Synthetic Biology. 4, 11, p. 1226-1234 9 p.

Research output: Contribution to journalJournal articleResearchpeer-review

CrEdit: CRISPR mediated multi-loci gene integration in Saccharomyces cerevisiae

Ronda, C., Maury, J., Jakociunas, T., Jacobsen, S. A. B., Germann, S. M., Harrison, S. J., Borodina, I., Keasling, J. D., Jensen, M. K. & Nielsen, A. T., 2015, In : Microbial Cell Factories. 14, 97, 11 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
505 Downloads (Pure)

Differential expression of small RNAs under chemical stress and fed-batch fermentation in E. coli

Rau, M. H., Nielsen, A. T. & Long, K., 2015, In : B M C Genomics. 16, 1051, 16 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
356 Downloads (Pure)

Highly Active and Specific Tyrosine Ammonia-Lyases from Diverse Origins Enable Enhanced Production of Aromatic Compounds in Bacteria and Saccharomyces cerevisiae

Jendresen, C. B., Stahlhut, S. G., Li, M., Gaspar, P., Siedler, S., Förster, J., Maury, J., Borodina, I. & Nielsen, A. T., 2015, In : Applied and Environmental Microbiology. 81, 13, p. 4458-4476 19 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
573 Downloads (Pure)

Seven gene deletions in seven days: fast generation of Escherichia coli strains tolerant to acetate and osmotic stress

Ingemann Jensen, S., Lennen, R., Herrgard, M. & Nielsen, A. T., 2015, In : Scientific Reports. 5, 10 p., 17874.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
271 Downloads (Pure)
2014

Accelerating Genome Editing in CHO Cells Using CRISPR Cas9 and CRISPy, a Web-Based Target Finding Tool

Ronda, C., Pedersen, L. E., Hansen, H. G., Beuchert Kallehauge, T., Betenbaugh, M., Nielsen, A. T. & Kildegaard, H. F., 2014, In : Biotechnology and Bioengineering (Print). 111, 8, p. 1604-1616

Research output: Contribution to journalJournal articleResearchpeer-review

1 Downloads (Pure)

Trash to treasure: Production of biofuels and commodity chemicals via syngas fermenting microorganisms

Latif, H., Zeidan, A., Nielsen, A. T. & Zengler, K., 2014, In : Current Opinion in Biotechnology. 27, p. 79-87

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
1550 Downloads (Pure)
2013

Comparative study on aptamers as recognition elements for antibiotics in a label-free all-polymer biosensor

Dapra, J., Lauridsen, L. H., Nielsen, A. T. & Rozlosnik, N., 2013, In : Biosensors and Bioelectronics. 43, 1, p. 315-320

Research output: Contribution to journalJournal articleResearchpeer-review

2 Downloads (Pure)
2011

Characterization of a Feedback-Resistant Mevalonate Kinase from the Archaeon Methanosarcina mazei

Primak, Y. A., Du, M., Miller, M. C., Wells, D. H., Nielsen, A. T., Weyler, W. & Beck, Z. Q., 2011, In : APPLIED AND ENVIRONMENTAL MICROBIOLOGY. 77, 21, p. 7772-7778 7 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2010

A Bistable Switch and Anatomical Site Control Vibrio cholerae Virulence Gene Expression in the Intestine

Nielsen, A. T., Dolganov, N. A., Rasmussen, T., Otto, G., Miller, M. C., Felt, S. A., Torreilles, S. & Schoolnik, G. K., 2010, In : P L o S Pathogens. 6, 9, 23 p., e1001102.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
368 Downloads (Pure)
2006

RpoS controls the Vibrio cholerae mucosal escape response

Nielsen, A. T., Dolganov, N. A., Otto, G., Miller, M. C., Wu, C. Y. & Schoolnik, G. K., 2006, In : P L o S Pathogens. 2, 10, p. 933-948 16 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
66 Downloads (Pure)
2004

The Vibrio cholerae chitin utilization program

Meibom, K. L., Li, X. B., Nielsen, A. T., Wu, C-Y., Roseman, S. & Schoolnik, G. K., 2004, In : Proceedings of the National Academy of Sciences of the United States of America. 101, 8, p. 2524-2529 6 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2003

Single nucleotide polymorphism genotyping using locked nucleic acid (LNA)

Mouritzen, P., Nielsen, A. T., Pfundheller, H. M., Choleva, Y., Kongsbak, L. & Møller, S., 2003, In : Expert Review of Molecular Diagnostics. 3, 1, p. 27-38 12 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2002

In situ examination of microbial populations in a model drinking water distribution system

Martiny, A. C., Nielsen, A. T., Arvin, E., Molin, S. & Albrechtsen, H-J., 2002, In : Water Science and Technology: Water Supply. 2, 3, p. 283-288

Research output: Contribution to journalJournal articleResearchpeer-review

1 Downloads (Pure)
2001

In situ identification of polyphosphate- and polyhydroxyalkanoate-accumulating traits for microbial populations in a biological phosphorus removal process

Liu, W-T., Nielsen, A. T., Wu, JH., Tsai, C. S., Matsuo, Y. & Molin, S., 2001, In : Environmental Microbiology. 3, 2, p. 110-122 13 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Multiplex SNP genotyping using Locked Nucleic Acid and microfluidics

Choleva, Y., Nørholm, M., Pedersen, S., Mouritzen, P., Høiby, P. E., Nielsen, A. T., Møller, S., Jakobsen, M. H. & Kongsbak, L., 2001, In : SLAS TECHNOLOGY: Translating Life Sciences Innovation. 6, 4, p. XVI-XVII 6 p.

Research output: Contribution to journalJournal articleResearchpeer-review

2000

Quantification of biofilm structures by the novel computer program COMSTAT

Heydorn, A., Nielsen, A. T., Hentzer, M., Sternberg, C., Givskov, M. C., Ersbøll, B. K. & Molin, S., 2000, In : Microbiology-Uk. 146, p. 2395-2407

Research output: Contribution to journalJournal articleResearchpeer-review

Role of commensal relationships on the spatial structure of a surface-attached microbial consortium

Nielsen, A. T., Tolker-Nielsen, T., Barken, K. B. & Molin, S., 2000, In : Environmental Microbiology. 2, 1, p. 59-68

Research output: Contribution to journalJournal articleResearchpeer-review

1999

Distribution of bacterial growth activity in flow-chamber biofilms

Sternberg, C., Christensen, B. B., Johansen, T., Nielsen, A. T., Andersen, J. B., Givskov, M. C. & Molin, S., 1999, In : Applied and Environmental Microbiology. 65, 9, p. 4108-4117

Research output: Contribution to journalJournal articleResearchpeer-review

Identification of a novel group of bacteria in sludge from a deteriorated biological phosphorus removal reactor

Nielsen, A. T., Liu, W-T., Filipe, C., Grady, L., Molin, S. & Stahl, D. A., 1999, In : Applied and Environmental Microbiology. 65, 3, p. 1251-1258

Research output: Contribution to journalJournal articleResearchpeer-review