20042022

Research output per year

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Research Output

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Journal article
2020

Adaptation of hydroxymethylbutenyl diphosphate reductase enables volatile isoprenoid production

Bongers, M., Perez-Gil, J., Hodson, M. P., Schrübbers, L., Wulff, T., Sommer, M. O., Nielsen, L. K. & Vickers, C. E., 2020, In : eLife. 9, 16 p., e48685.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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44 Downloads (Pure)
Open Access
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36 Downloads (Pure)

Predictable modulation of cancer treatment outcomes by the gut microbiota

Heshiki, Y., Vazquez-Uribe, R., Li, J., Ni, Y., Quainoo, S., Imamovic, L., Li, J., Sørensen, M., Chow, B. K. C., Weiss, G. J., Xu, A., Sommer, M. O. A. & Panagiotou, G., 2020, In : Microbiome. 8, 1, 28.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
24 Downloads (Pure)
2019

Antibiotic Treatment Drives the Diversification of the Human Gut Resistome

Li, J., Rettedal, E. A., van der Helm, E., Ellabaan, M. M. H., Panagiotou, G. & Sommer, M. O. A., 2019, In : Genomics, Proteomics and Bioinformatics. 17, 1, p. 39-51

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
139 Downloads (Pure)

Associations of gut microbiota and Chronic Obstructive Pulmonary Disease Assessment Test (CAT) score in chemotherapy treated lung cancer patients with COPD

Lohinai, Z., Heshiki, Y., Loos, D., Nagy, D., Dulka, E., Kugler, C., Varga, J., Sommer, M. O., Panagiotou, G. & Weiss, G. J., 2019, In : The European Respiratory Journal. 54, PA380.

Research output: Contribution to journalJournal articleResearchpeer-review

Collateral sensitivity constrains resistance evolution of the CTX-M-15 β-lactamase

Rosenkilde, C. E. H., Munck, C., Porse, A., Linkevicius, M., Andersson, D. I. & Sommer, M. O. A., 2019, In : Nature Communications. 10, 10 p., 618.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
219 Downloads (Pure)

Discovery and Characterization of Cas9 Inhibitors Disseminated across Seven Bacterial Phyla

Vazquez-Uribe, R., van der Helm, E., Misiakou, M-A., Lee, S-W., Kol, S. & Sommer, M. O. A., 2019, In : Cell Host & Microbe. 25, 2, p. 233-241

Research output: Contribution to journalJournal articleResearchpeer-review

Gut Mycobiome and Metabolic Interactions with Bacteria in Lung Cancer Patients Reveals Potential Therapeutic Vulnerabilities

Lohinai, Z., Santhanam, R., Heshiki, J., Dora, N., Dulka, E., Ostoros, G., Dome, B., Morten, S., Panagiotou, G. & Weiss, G. M., 2019, In : Journal of Thoracic Oncology. 14, 10, p. S718-S718

Research output: Contribution to journalJournal articleResearchpeer-review

Lack of the major multifunctional catalase KatA in P.aeruginosa accelerates evolution of antibiotic resistance in ciprofloxacin-treated biofilms

Ahmed, M. N., Porse, A., Abdelsamad, A., Sommer, M. O. A., Høiby, N. & Ciofu, O., 2019, In : Antimicrobial Agents and Chemotherapy. 63, 10, 12 p., e00766-19.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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44 Downloads (Pure)

Metabolic and gut microbiome changes following GLP-1 or dual GLP-1/GLP-2 receptor agonist treatment in diet-induced obese mice

Madsen, M. S. A., Holm, J. B., Pallejà, A., Wismann, P., Fabricius, K., Rigbolt, K., Mikkelsen, M. T., Sommer, M. O. A., Jelsing, J., Nielsen, H. B., Vrang, N. & Hansen, H. H., 2019, In : Scientific Reports. 9, 15582.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
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72 Downloads (Pure)

Mining, analyzing, and integrating viral signals from metagenomic data

Zheng, T., Li, J., Ni, Y., Kang, K., Misiakou, M-A., Imamovic, L., Chow, B. K. C., Rode, A. A., Bytzer, P., Sommer, M. O. A. & Panagiotou, G., 2019, In : Microbiome. 7, 1, 15 p., 42.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
169 Downloads (Pure)

NetSurfP-2.0: Improved prediction of protein structural features by integrated deep learning

Klausen, M. S., Jespersen, M. C., Nielsen, H., Jensen, K. K., Jurtz, V. I., Sønderby, C. K., Sommer, M. O. A., Winther, O., Nielsen, M., Petersen, B. & Marcatili, P., 2019, In : Proteins: Structure, Function, and Bioinformatics. 87, 6, p. 520-527 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
85 Downloads (Pure)

Overcoming genetic heterogeneity in industrial fermentations

Rugbjerg, P. & Sommer, M. O. A., 2019, In : Nature Biotechnology. 37, p. 869-876 8 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Rapid diagnosis of lung infections

Prodan, A., Sommer, M. O. A. & Nieuwdorp, M., 2019, In : Nature Biotechnology. 37, 7, p. 725-726

Research output: Contribution to journalJournal articleResearchpeer-review

Wiring cell growth to product formation

Buerger, J., Gronenberg, L. S., Genee, H. J. & Sommer, M. O. A., 2019, In : Current Opinion in Biotechnology. 59, p. 85-92

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
135 Downloads (Pure)
2018

A synthetic medium to simulate sugarcane molasses

Senne de Oliveira Lino, F., Basso, T. O. & Sommer, M. O. A., 2018, In : Biotechnology for Biofuels. 11, 12 p., 221.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
280 Downloads (Pure)

Biochemical mechanisms determine the functional compatibility of heterologous genes

Porse, A., Schou, T. S., Munck, C., Ellabaan, M. M. H. & Sommer, M. O. A., 2018, In : Nature Communications. 9, 11 p., 522.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
329 Downloads (Pure)

Chromosomal barcoding as a tool for multiplexed phenotypic characterization of laboratory evolved lineages

Jahn, L. J., Porse, A., Munck, C., Simon, D., Volkova, S. & Sommer, M. O. A., 2018, In : Scientific Reports. 8, 12 p., 6961.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
218 Downloads (Pure)

Complete Genome Sequence of Escherichia coli Strain WG5

Imamovic, L., Misiakou, M-A., van der Helm, E., Panagiotou, G., Muniesa, M. & Sommer, M. O. A., 2018, In : Genome Announcements. 6, 2, 2 p., e01403-17.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
309 Downloads (Pure)

Directed Evolution of Membrane Transport Using Synthetic Selections

Bali, A. P., Genee, H. J. & Sommer, M. O. A., 2018, In : A C S Synthetic Biology. 7, 3, p. 789-793

Research output: Contribution to journalJournal articleResearchpeer-review

Diverse genetic error modes constrain large-scale bio-based production

Rugbjerg, P., Myling-Petersen, N., Porse, A., Sarup-Lytzen, K. & Sommer, M. O. A., 2018, In : Nature Communications. 9, 14 p., 787.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
289 Downloads (Pure)

Drug-Driven Phenotypic Convergence Supports Rational Treatment Strategies of Chronic Infections

Imamovic, L., Ellabaan, M. M. H., Dantas Machado, A. M., Citterio, L., Wulff, T., Molin, S., Johansen, H. K. & Sommer, M. O. A., 2018, In : CELL. 172, 1-2, p. 121-134

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
220 Downloads (Pure)

Enhanced Metabolite Productivity of Escherichia coli Adapted to Glucose M9 Minimal Medium

Rugbjerg, P., Feist, A. M. & Sommer, M. O. A., 2018, In : Frontiers in Bioengineering and Biotechnology. 6, 6 p., 166.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
193 Downloads (Pure)

Evolution of antibiotic resistance in biofilm and planktonic P. aeruginosa populations exposed to sub-inhibitory levels of ciprofloxacin

Ahmed, M. N., Porse, A., Sommer, M. O. A., Høiby, N. & Ciofu, O., 2018, In : Antimicrobial Agents and Chemotherapy. 62, 8, e00320-18.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
161 Downloads (Pure)

Shared strategies for β-lactam catabolism in the soil microbiome

Crofts, T. S., Wang, B., Spivak, A., Gianoulis, T. A., Forsberg, K. J., Gibson, M. K., Johnsky, L. A., Broomall, S. M., Rosenzweig, C. N., Skowronski, E. W., Gibbons, H. S., Sommer, M. O. A. & Dantas, G., 2018, In : Nature Chemical Biology. 14, p. 556-564

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
76 Downloads (Pure)
Open Access
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394 Downloads (Pure)

The Environmental Exposures and Inner- and Intercity Traffic Flows of the Metro System May Contribute to the Skin Microbiome and Resistome

Kang, K., Ni, Y., Li, J., Imamovic, L., Sarkar, C., Kobler, M. D., Heshiki, Y., Zheng, T., Kumari, S., Wong, J. C. Y., Archna, A., Wong, C. W. M., Dingle, C., Denizen, S., Baker, D. M., Sommer, M. O. A., Webster, C. J. & Panagiotou, G., 2018, In : Cell Reports. 24, 5, p. 1190-1202

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
184 Downloads (Pure)

The evolving interface between synthetic biology and functional metagenomics

van der Helm, E., Genee, H. J. & Sommer, M. O. A., 2018, In : Nature Chemical Biology. 14, 8, p. 752-759

Research output: Contribution to journalJournal articleResearchpeer-review

2017
Open Access
File
279 Downloads (Pure)

Assessing glycolytic flux alterations resulting from genetic perturbations in E. coli using a biosensor

Lehning, C. E., Siedler, S., Ellabaan, M. M. H. & Sommer, M. O. A., 2017, In : Metabolic Engineering. 42, p. 194-202

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
208 Downloads (Pure)

A versatile one-step CRISPR-Cas9 based approach to plasmid-curing

Lauritsen, I., Porse, A., Sommer, M. O. A. & Nørholm, M., 2017, In : Microbial Cell Factories. 16, 10 p., 135.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
370 Downloads (Pure)

Development of a Bacterial Biosensor for Rapid Screening of Yeast p-Coumaric Acid Production

Siedler, S., Khatri, N. K., Zsohar, A., Kjærbølling, I., Vogt, M., Hammar, P., Nielsen, C. F., Marienhagen, J., Sommer, M. O. A. & Joensson, H. N., 2017, In : A C S Synthetic Biology. 6, 10, p. 1860-1869

Research output: Contribution to journalJournal articleResearchpeer-review

Dissemination of antibiotic resistance genes from antibiotic producers to pathogens

Jiang, X., Ellabaan, M. M. H., Charusanti, P., Munck, C., Blin, K., Tong, Y., Weber, T., Sommer, M. O. A. & Lee, S. Y., 2017, In : Nature Communications. 8, 15784.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
420 Downloads (Pure)

Draft Genome Sequences of Three β-Lactam-Catabolizing Soil Proteobacteria

Crofts, T. S., Wang, B., Spivak, A., Gianoulis, T. A., Forsberg, K. J., Gibson, M. K., Johnsky, L. A., Broomall, S. M., Rosenzweig, C. N., Skowronski, E. W., Gibbons, H. S., Sommer, M. O. A. & Dantas, G., 2017, In : Genome Announcements. 5, 32, 3 p., e00653-17.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
171 Downloads (Pure)

Dynamic Rearrangement of Cell States Detected by Systematic Screening of Sequential Anticancer Treatments

Koplev, S., Longden, J., Ferkinghoff-Borg, J., Blicher Bjerregård, M., Cox, T. R., Erler, J. T., Pedersen, J. T., Voellmy, F., Sommer, M. O. A. & Linding, R., 2017, In : Cell Reports. 20, 12, p. 2784-2791

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
217 Downloads (Pure)

Genetic-Metabolic Coupling for Targeted Metabolic Engineering

Cardinale, S., Tueros Farfan, F. G. & Sommer, M. O. A., 2017, In : Cell Reports. 20, 5, p. 1029-1037

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
241 Downloads (Pure)

Genome Dynamics of Escherichia coli during Antibiotic Treatment: Transfer, Loss, and Persistence of Genetic Elements In situ of the Infant Gut

Porse, A., Gumpert, H., Kubicek-Sutherland, J. Z., Karami, N., Adlerberth, I., Wold, A. E., Andersson, D. I. & Sommer, M. O. A., 2017, In : Frontiers in Cellular and Infection Microbiology. 7, 12 p., 126.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
202 Downloads (Pure)

Prediction of antibiotic resistance: time for a new preclinical paradigm?

Sommer, M. O. A., Munck, C., Toft-Kehler, R. V. & Andersson, D. I., 2017, In : Nature Reviews. Microbiology. 15, p. 689-696

Research output: Contribution to journalJournal articleResearchpeer-review

PROMYS – Programming synthetic networks for bio-based production of value chemicals – FP7 project

Sommer, M. O. A., 2017, In : Impact. 3, p. 45-47 4 p.

Research output: Contribution to journalJournal articleCommunication

Rapid resistome mapping using nanopore sequencing

van der Helm, E., Imamovic, L., Ellabaan, M. M. H., van Schaik, W., Koza, A. & Sommer, M. O. A., 2017, In : Nucleic acids research. 45, 8, 8 p., gkw1328.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
484 Downloads (Pure)

The resistome of important human pathogens

Munck, C., Ellabaan, M. M. H., Klausen, M. S. & Sommer, M. O. A., 2017, In : bioRxiv. 26 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
172 Downloads (Pure)

Time-Resolved Tracking of Mutations Reveals Diverse Allele Dynamics during Escherichia coli Antimicrobial Adaptive Evolution to Single Drugs and Drug Pairs

Hickman, R. A., Munck, C. & Sommer, M. O. A., 2017, In : Frontiers in Microbiology. 8, 893.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
210 Downloads (Pure)

Transfer and persistence of a multi-drug resistance plasmid in situ of the infant gut microbiota in the absence of antibiotic treatment

Gumpert, H., Kubicek-Sutherland, J. Z., Porse, A., Karami, N., Munck, C., Linkevicius, M., Adlerberth, I., Wold, A. E., Andersson, D. I. & Sommer, M. O. A., 2017, In : Frontiers in Microbiology. 8, 10 p., 1852.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
218 Downloads (Pure)
2016

(Meta-)genome mining for new ribo-regulators

Sommer, M. O. A. & Suess, B., 2016, In : Science Magazine. 352, 6282, p. 144-145 2 p.

Research output: Contribution to journalJournal articleCommunication

1 Downloads (Pure)

Adaptive responses to cefotaxime treatment in ESBL-producing Escherichia coli and the possible use of significantly regulated pathways as novel secondary targets

Møller, T. S. B., Rau, M. H., Bonde, C. S., Sommer, M. O. A., Guardabassi, L. & Olsen, J. E., 2016, In : Journal of Antimicrobial Chemotherapy. 71, 9, p. 2449-2459 11 p.

Research output: Contribution to journalJournal articleResearchpeer-review

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)

Functional mining of transporters using synthetic selections

Genee, H. J., Bali, A. P., Petersen, S. D., Siedler, S., Bonde, M., Gronenberg, L. S., Kristensen, M., Harrison, S. J. & Sommer, M. O. A., 2016, In : Nature Chemical Biology.

Research output: Contribution to journalJournal articleResearchpeer-review

Molecular Buffers Permit Sensitivity Tuning and Inversion of Riboswitch Signals

Rugbjerg, P., Genee, H. J., Jensen, K., Sarup-Lytzen, K. & Sommer, M. O. A., 2016, In : A C S Synthetic Biology. 5, 7, p. 632-638 7 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
247 Downloads (Pure)

Oral supplementation of healthy adults with 2'-O-fucosyllactose and lacto-N-neotetraose is well tolerated and shifts the intestinal microbiota

Elison, E., Vigsnæs, L. K., Rindom Krogsgaard, L., Rasmussen, J., Sørensen, N., McConnell, B., Hennet, T., Sommer, M. O. A. & Bytzer, P., 2016, In : The British Journal of Nutrition. 116, p. 1356-1368 13 p.

Research output: Contribution to journalJournal articleResearchpeer-review

Open Access
File
273 Downloads (Pure)

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