1996 …2022
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Research Output 1999 2019

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Journal article
2019
7 Downloads (Pure)

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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80 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
355 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
File
83 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
11 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
56 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
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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
344 Downloads (Pure)

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
File
97 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
173 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
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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

481 Downloads (Pure)

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
481 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
68 Downloads (Pure)
Open Access
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84 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
51 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
437 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
473 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
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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

414 Downloads (Pure)

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
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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

2 Downloads (Pure)

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

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

423 Downloads (Pure)

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
276 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
494 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
226 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
2014
1 Downloads (Pure)

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

1414 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
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2013
2 Downloads (Pure)

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

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
324 Downloads (Pure)

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
2006
56 Downloads (Pure)

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
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
1 Downloads (Pure)

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

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