Morten Otto Alexander Sommer

Morten Otto Alexander Sommer

Scientific Director

DTU BIOSUSTAIN
Novo Nordisk Foundation Center for Biosustainability

Technical University of Denmark

Kemitorvet

Building 220, room 318F

2800 Kgs. Lyngby

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2019
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Antibiotic Treatment Drives the Diversification of the Human Gut Resistome

Li, Jun ; Rettedal, Elizabeth A ; van der Helm, Eric ; Ellabaan, Mostafa M Hashim ; Panagiotou, Gianni ; Sommer, Morten Otto Alexander
in: Genomics, Proteomics and Bioinformatics, vol: 17, issue: 1, pages: 39-51

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1016/j.gpb.2018.12.003

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

Rosenkilde, Carola Elisa Heesemann ; Munck, Christian ; Porse, Andreas ; Linkevicius, Marius ; Andersson, Dan I. ; Sommer, Morten Otto Alexander
in: Nature Communications, vol: 10

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1038/s41467-019-08529-y

 

Discovery and Characterization of Cas9 Inhibitors Disseminated across Seven Bacterial Phyla

Vazquez-Uribe, Ruben ; van der Helm, Eric ; Misiakou, Maria-Anna ; Lee, Sang-Woo ; Kol, Stefan ; Sommer, Morten Otto Alexander
in: Cell Host & Microbe, vol: 25, issue: 2, pages: 233-241

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1016/j.chom.2019.01.003

 

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

Ahmed, Marwa N ; Porse, Andreas ; Abdelsamad, Ahmed ; Sommer, Morten Otto Alexander ; Høiby, Niels ; Ciofu, Oana
in: Antimicrobial Agents and Chemotherapy

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2019     |    DOI: https://doi.org/10.1128/AAC.00766-19

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Mining, analyzing, and integrating viral signals from metagenomic data

Zheng, Tingting ; Li, Jun ; Ni, Yueqiong ; Kang, Kang ; Misiakou, Maria-Anna ; Imamovic, Lejla ; Chow, Billy K C ; Rode, Anne A ; Bytzer, Peter ; Sommer, Morten Otto Alexander ; Panagiotou, Gianni
in: Microbiome, vol: 7, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1186/s40168-019-0657-y

 

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

Klausen, Michael Schantz ; Jespersen, Martin Closter ; Nielsen, Henrik ; Jensen, Kamilla Kjærgaard ; Jurtz, Vanessa Isabell ; Sønderby, Casper Kaae ; Sommer, Morten Otto Alexander ; Winther, Ole ; Nielsen, Morten ; Petersen, Bent ; Marcatili, Paolo
in: Proteins: Structure, Function, and Bioinformatics, vol: 87, issue: 6, pages: 520-527

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1002/prot.25674

 

Overcoming genetic heterogeneity in industrial fermentations

Rugbjerg, Peter ; Sommer, Morten Otto Alexander
in: Nature Biotechnology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2019     |    DOI: https://doi.org/10.1038/s41587-019-0171-6

 

Publisher Correction: Shared strategies for β-lactam catabolism in the soil microbiome

Crofts, Terence S. ; Wang, Bin ; Spivak, Aaron ; Gianoulis, Tara A. ; Forsberg, Kevin J. ; Gibson, Molly K. ; Johnsky, Lauren A. ; Broomall, Stacey M. ; Rosenzweig, C. Nicole ; Skowronski, Evan W. ; Gibbons, Henry S. ; Sommer, Morten O. A. ; Dantas, Gautam
in: Nature Chemical Biology

Type: Comment/debate (Peer reviewed)

Status: Accepted/In press     |    Year: 2019     |    DOI: https://doi.org/10.1038/s41589-018-0208-z

 

Rapid diagnosis of lung infections

Prodan, Andrei ; Sommer, Morten Otto Alexander ; Nieuwdorp, Max
in: Nature Biotechnology, vol: 37, issue: 7, pages: 725-726

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1038/s41587-019-0174-3

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The resistome of important human pathogens

Munck, Christian ; Ellabaan, Mostafa M Hashim ; Klausen, Michael Schantz ; Sommer, Morten Otto Alexander
in: bioRxiv

Type: Journal article (Peer reviewed)

Status: Submitted     |    Year: 2019     |    DOI: https://doi.org/10.1101/140194

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Wiring cell growth to product formation

Buerger, Josi ; Gronenberg, Luisa S ; Genee, Hans Jasper ; Sommer, Morten Otto Alexander
in: Current Opinion in Biotechnology, vol: 59, pages: 85-92

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2019     |    DOI: https://doi.org/10.1016/j.copbio.2019.02.014

2018
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A synthetic medium to simulate sugarcane molasses

Senne de Oliveira Lino, Felipe ; Basso, Thiago Olitta ; Sommer, Morten Otto Alexander
in: Biotechnology for Biofuels, vol: 11

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1186/s13068-018-1221-x

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Bacterial cells with improved tolerance to diacids

Lennen, Rebecca ; Nielsen, Alex Toftgaard ; Herrgard, Markus ; Sommer, Morten Otto Alexander ; Feist, Adam ; Tharwat Tolba Mohamed, Elsayed
Patent no.: WO2018091525 , Date: 2018-05-24

Type: Patent

Status: Published     |    Year: 2018

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Biochemical mechanisms determine the functional compatibility of heterologous genes

Porse, Andreas ; Schou, Thea S. ; Munck, Christian ; Ellabaan, Mostafa M. H. ; Sommer, Morten O. A.
in: Nature Communications, vol: 9

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1038/s41467-018-02944-3

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Complete Genome Sequence of Escherichia coli Strain WG5

Imamovic, Lejla ; Misiakou, Maria-Anna ; van der Helm, Eric ; Panagiotou, Gianni ; Muniesa, Maite ; Sommer, Morten Otto Alexander
in: Genome Announcements, vol: 6, issue: 2

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1128/genomeA.01403-17

 

Directed Evolution of Membrane Transport Using Synthetic Selections

Bali, Anne Pihl ; Genee, Hans J. ; Sommer, Morten O. A.
in: A C S Synthetic Biology, vol: 7, issue: 3, pages: 789-793

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1021/acssynbio.7b00407

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

Rugbjerg, Peter ; Myling-Petersen, Nils ; Porse, Andreas ; Sarup-Lytzen, Kira ; Sommer, Morten Otto Alexander
in: Nature Communications, vol: 9

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1038/s41467-018-03232-w

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

Imamovic, Lejla ; Ellabaan, Mostafa Mostafa Hashim ; Dantas Machado, Ana Manuel ; Citterio, Linda ; Wulff, Tune ; Molin, Søren ; Johansen, Helle Krogh ; Sommer, Morten Otto Alexander
in: CELL, vol: 172, issue: 1-2, pages: 121-134

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1016/j.cell.2017.12.012

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

Rugbjerg, Peter ; Feist, Adam M. ; Sommer, Morten Otto Alexander
in: Frontiers in Bioengineering and Biotechnology, vol: 6

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.3389/fbioe.2018.00166

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

Ahmed, Marwa N. ; Porse, Andreas ; Sommer, Morten Otto Alexander ; Høiby, Niels ; Ciofu, Oana
in: Antimicrobial Agents and Chemotherapy, vol: 62, issue: 8

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1128/AAC.00320-18

 

Parts Characterization for Tunable Protein Expression

Klausen, Michael Schantz ; Sommer, Morten Otto Alexander
part of: Synthetic Metabolic Pathways, pages: 3-14, 2018

Type: Book chapter (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1007/978-1-4939-7295-1_1

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Shared strategies for β-lactam catabolism in the soil microbiome

Crofts, Terence S. ; Wang, Bin ; Spivak, Aaron ; Gianoulis, Tara A. ; Forsberg, Kevin J. ; Gibson, Molly K. ; Johnsky, Lauren A. ; Broomall, Stacey M. ; Rosenzweig, C. Nicole ; Skowronski, Evan W. ; Gibbons, Henry S. ; Sommer, Morten O. A. ; Dantas, Gautam
in: Nature Chemical Biology, vol: 14, pages: 556-564

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1038/s41589-018-0052-1

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Synthetic addiction extends the productive life time of engineered Escherichia coli populations

Rugbjerg, Peter ; Sarup-Lytzen, Kira ; Nagy, Mariann ; Sommer, Morten Otto Alexander
in: Proceedings of the National Academy of Sciences of the United States of America

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1073/pnas.1718622115

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

Kang, Kang ; Ni, Yueqiong ; Li, Jun ; Imamovic, Lejla ; Sarkar, Chinmoy ; Kobler, Marie Danielle ; Heshiki, Yoshitaro ; Zheng, Tingting ; Kumari, Sarika ; Wong, Jane Ching Yan ; Archna, Anand ; Wong, Cheong Wai Martin ; Dingle, Caroline ; Denizen, Seth ; Baker, David Michael ; Sommer, Morten Otto Alexander ; Webster, Christopher John ; Panagiotou, Gianni
in: Cell Reports, vol: 24, issue: 5, pages: 1190-1202

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1016/j.celrep.2018.06.109

 

The evolving interface between synthetic biology and functional metagenomics

van der Helm, Eric ; Genee, Hans J. ; Sommer, Morten O. A.
in: Nature Chemical Biology, vol: 14, issue: 8, pages: 752-759

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2018     |    DOI: https://doi.org/10.1038/s41589-018-0100-x

2017
 

High throughput in vivo protease inhibitor selection platform

Van Der Helm, Eric ; Sommer,, Morten
Patent no.: WO2017186854, Date: 2017-11-02

Type: Patent

Status: Published     |    Year: 2017

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Bacterial cells with improved tolerance to polyols

Lennen, Rebecca ; Nielsen, Alex Toftgaard ; Herrgard, Markus ; Sommer, Morten Otto Alexander ; Feist, Adam ; Tharwat Tolba Mohamed, Elsayed
Patent no.: WO2017211883, Date: 2017-12-14

Type: Patent

Status: Published     |    Year: 2017

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A family of microbial lysine transporter polypeptides

Malla, Sailesh ; Sommer, Morten Otto Alexander ; van der Helm, Eric ; Wieschalka, Stefan (Inventor) ; Förster, Jochen
Patent no.: WO2017085241, Date: 2017-05-26

Type: Patent

Status: Published     |    Year: 2017

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A system for improved production titers in fermentations

Rugbjerg, Peter ; Sarup-Lytzen, Kira ; Sommer, Morten Otto Alexander
Patent no.: WO2017055360, Date: 2017-04-06

Type: Patent

Status: Published     |    Year: 2017

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

Lehning, Christina Eva ; Siedler, Solvej ; Ellabaan, Mostafa M Hashim ; Sommer, Morten Otto Alexander
in: Metabolic Engineering, vol: 42, pages: 194-202

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1016/j.ymben.2017.07.002

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

Lauritsen, Ida ; Porse, Andreas ; Sommer, Morten Otto Alexander ; Nørholm, Morten
in: Microbial Cell Factories, vol: 16

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1186/s12934-017-0748-z

 

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

Siedler, Solvej ; Khatri, Narendar K. ; Zsohar, Andrea ; Kjærbølling, Inge ; Vogt, Michael ; Hammar, Petter ; Nielsen, Christian Førgaard ; Marienhagen, Jan ; Sommer, Morten Otto Alexander ; Joensson, Haakan N.
in: A C S Synthetic Biology, vol: 6, issue: 10, pages: 1860-1869

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1021/acssynbio.7b00009

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

Crofts, Terence S. ; Wang, Bin ; Spivak, Aaron ; Gianoulis, Tara A. ; Forsberg, Kevin J. ; Gibson, Molly K. ; Johnsky, Lauren A. ; Broomall, Stacey M. ; Rosenzweig, C. Nicole ; Skowronski, Evan W. ; Gibbons, Henry S. ; Sommer, Morten Otto Alexander ; Dantas, Gautam
in: Genome Announcements, vol: 5, issue: 32

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1128/genomeA.00653-17

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

Koplev, Simon ; Longden, James ; Ferkinghoff-Borg, Jesper ; Blicher Bjerregård, Mathias ; Cox, Thomas R. ; Erler, Janine T. ; Pedersen, Jesper T. ; Voellmy, Franziska ; Sommer, Morten Otto Alexander ; Linding, Rune
in: Cell Reports, vol: 20, issue: 12, pages: 2784-2791

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1016/j.celrep.2017.08.095

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Genetic-Metabolic Coupling for Targeted Metabolic Engineering

Cardinale, Stefano ; Tueros Farfan, Felipe Gonzalo ; Sommer, Morten Otto Alexander
in: Cell Reports, vol: 20, issue: 5, pages: 1029-1037

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1016/j.celrep.2017.07.015

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

Porse, Andreas ; Gumpert, Heidi ; Kubicek-Sutherland, Jessica Z. ; Karami, Nahid ; Adlerberth, Ingegerd ; Wold, Agnes E. ; Andersson, Dan I. ; Sommer, Morten Otto Alexander
in: Frontiers in Cellular and Infection Microbiology, vol: 7

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.3389/fcimb.2017.00126

 

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

Sommer, Morten Otto Alexander ; Munck, Christian ; Toft-Kehler, Rasmus Vendler ; Andersson, Dan I.
in: Nature Reviews. Microbiology, vol: 15, pages: 689-696

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1038/nrmicro.2017.75

 

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

Sommer, Morten Otto Alexander
in: Impact, issue: 3, pages: 45-47

Type: Journal article

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.21820/23987073.2017.3.45

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Rapid resistome mapping using nanopore sequencing

van der Helm, Eric ; Imamovic, Lejla ; Ellabaan, Mostafa M Hashim ; van Schaik, Willem ; Koza, Anna ; Sommer, Morten Otto Alexander
in: Nucleic acids research, vol: 45, issue: 8

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.1093/nar/gkw1328

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

Gumpert, Heidi ; Kubicek-Sutherland, Jessica Z. ; Porse, Andreas ; Karami, Nahid ; Munck, Christian ; Linkevicius, Marius ; Adlerberth, Ingegerd ; Wold, Agnes E. ; Andersson, Dan I. ; Sommer, Morten Otto Alexander
in: Frontiers in Microbiology, vol: 8

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: https://doi.org/10.3389/fmicb.2017.01852

2016
 

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

Møller, Thea S. B. ; Rau, Martin Holm ; Bonde, Charlotte S ; Sommer, Morten Otto Alexander ; Guardabassi, Luca ; Olsen, John E
in: Journal of Antimicrobial Chemotherapy, vol: 71, issue: 9, pages: 2449-2459

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1093/jac/dkw198

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An Integrated Genomics Framework for System-Level Cell Factory Design

Cardinale, Stefano ; Ye, Lumeng ; Sommer, Morten Otto Alexander
Presented at:
An Integrated Genomics Framework for System-Level Cell Factory Design

Type: Conference abstract for conference (Peer reviewed)

Status: Published     |    Year: 2016

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Collateral sensitivity cycling of antibiotics for cystic fibrosis airway

Sommer, L.M. ; Imamovic, Lejla ; Pressler, Tacjana ; Sommer, Morten Otto Alexander ; Molin, Søren ; Johansen, Helle Krogh
in: Journal of Cystic Fibrosis, vol: 15, issue: Suppl. 1, pages: 583

Type: Conference abstract in journal (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1016/S1569-1993(16)30365-4

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CRMAGE: CRISPR Optimized MAGE Recombineering

Ronda, Carlotta ; Pedersen, Lasse Ebdrup ; Sommer, Morten Otto Alexander ; Nielsen, Alex Toftgaard
in: Scientific Reports, vol: 6

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1038/srep19452

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Development of biotechnological tools for modulating an industrial microbiome

Senne de Oliveira Lino, Felipe ; Cardinale, Stefano ; Molin, Søren ; Sommer, Morten Otto Alexander
Presented at:
Novo Nordisk Foundation Cluster Days 2016

Type: Poster (Peer reviewed)

Status: Published     |    Year: 2016

 

Functional mining of transporters using synthetic selections

Genee, Hans Jasper ; Bali, Anne Pihl ; Petersen, Søren Dalsgård ; Siedler, Solvej ; Bonde, Mads ; Gronenberg, Luisa S. ; Kristensen, Mette ; Harrison, Scott James ; Sommer, Morten Otto Alexander
in: Nature Chemical Biology

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1038/nchembio.2189

 

(Meta-)genome mining for new ribo-regulators

Sommer, Morten Otto Alexander ; Suess, Beatrix
in: Science Magazine, vol: 352, issue: 6282, pages: 144-145

Type: Journal article

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1126/science.aaf6189

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Molecular Buffers Permit Sensitivity Tuning and Inversion of Riboswitch Signals

Rugbjerg, Peter ; Genee, Hans Jasper ; Jensen, Kristian ; Sarup-Lytzen, Kira ; Sommer, Morten Otto Alexander
in: A C S Synthetic Biology, vol: 5, issue: 7, pages: 632-638

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1021/acssynbio.5b00213

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

Elison, Emma ; Vigsnæs, Louise K. ; Rindom Krogsgaard, Laura ; Rasmussen, Julie ; Sørensen, Nikolaj ; McConnell, Bruce ; Hennet, Thierry ; Sommer, Morten Otto Alexander ; Bytzer, Peter
in: The British Journal of Nutrition, vol: 116, pages: 1356-1368

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1017/S0007114516003354

 

Predictable tuning of protein expression in bacteria

Bonde, Mads ; Pedersen, Margit ; Klausen, Michael Schantz ; Ingemann Jensen, Sheila ; Wulff, Tune ; Harrison, Scott James ; Nielsen, Alex Toftgaard ; Herrgard, Markus ; Sommer, Morten Otto Alexander
in: Nature Methods, vol: 13, pages: 233-236

Type: Journal article (Peer reviewed)

Status: E-pub ahead of print     |    Year: 2016     |    DOI: https://doi.org/10.1038/nmeth.3727

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Principles of Systems Biology, No. 2

Klausen, Michael Schantz ; Sommer, Morten Otto Alexander
in: Cell Systems, vol: 2, issue: 2, pages: 60-61

Type: Comment/debate (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1016/j.cels.2016.02.008

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Relation between tetR and tetA expression in tetracycline resistant Escherichia coli

Møller, Thea S. B. ; Overgaard, Martin ; Nielsen, Søren S. ; Bortolaia, Valeria ; Sommer, Morten Otto Alexander ; Guardabassi, Luca ; Olsen, John E.
in: B M C Microbiology, vol: 16, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1186/s12866-016-0649-z

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Simulating Serial-Target Antibacterial Drug Synergies Using Flux Balance Analysis

Krueger, Andrew S. ; Munck, Christian ; Dantas, Gautam ; Church, George M. ; Galagan, James ; Lehár, Joseph ; Sommer, Morten Otto Alexander
in: P L o S One, vol: 11, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1371/journal.pone.0147651

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Sponge Microbiota are a Reservoir of Functional Antibiotic Resistance Genes

Versluis, Dennis ; de Evgrafov, Mari Cristina Rodriguez ; Sommer, Morten Otto Alexander ; Sipkema, Detmer ; Smidt, Hauke ; van Passel, Mark W. J.
in: Frontiers in Microbiology, vol: 7

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.3389/fmicb.2016.01848

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Survival and evolution of a large multidrug resistance plasmid in new clinical bacterial hosts

Porse, Andreas ; Schønning, Kristian ; Munck, Christian ; Sommer, Morten Otto Alexander
in: Molecular Biology and Evolution, vol: 33, issue: 11, pages: 2860-2873

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1093/molbev/msw163

 

Transcriptional interactions suggest niche segregation among microorganisms in the human gut

Plichta, Damian Rafal ; Juncker, Agnieszka ; dos Santos, Marcelo Bertalan Quintanilha ; Rettedal, Elizabeth ; Gautier, Laurent ; Varela, Encarna ; Manichanh, Chaysavanh ; Fouqueray, Charlène ; Levenez, Florence ; Nielsen, Trine ; Doré, Joël ; MacHado, Ana Manuel Dantas ; de Evgrafov, Mari Cristina Rodriguez ; Hansen, Torben ; Jørgensen, Torben ; Bork, Peer ; Guarner, Francisco ; Pedersen, Oluf ; , ; Sommer, Morten Otto Alexander ; Ehrlich, S. Dusko ; Sicheritz-Pontén, Thomas ; Brunak, Søren ; Nielsen, Henrik Bjørn
in: Nature Microbiology, vol: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1038/nmicrobiol.2016.152

 

Voices of biotech

Amit, Ido ; Baker, David ; Barker, Roger ; Berger, Bonnie ; Bertozzi, Carolyn ; Bhatia, Sangeeta ; Biffi, Alessandra ; Demichelis, Francesca ; Doudna, Jennifer ; Dowdy, Steven F. ; Sommer, Morten Otto Alexander ; Zhang, Tian
in: Nature Biotechnology, vol: 34, issue: 3, pages: 270-275

Type: Contribution to newspaper - Feature article

Status: Published     |    Year: 2016     |    DOI: https://doi.org/10.1038/nbt.3502

2015
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Improved biosensor-based detection system

Rugbjerg, Peter ; Genee, Hans Jasper ; Sommer, Morten Otto Alexander
Patent no.: WO2015044456, Date: 2015-04-02

Type: Patent

Status: Published     |    Year: 2015

 

Advancing gut microbiome research using cultivation

Sommer, Morten OA
in: Current opinion in Microbiology, vol: 27, pages: 127-132

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1016/j.mib.2015.08.004

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Biosensor-based genome screening platform for the production of Biosynthetic Precursors and coFactors in E. coli.

Cardinale, Stefano ; Ye, Lumeng ; Sommer, Morten
part of: Book of Abstracts. DTU's Sustain Conference 2015, 2015, Technical University of Denmark, Lyngby
Presented at:
DTU Sustain Conference 2015

Type: Conference abstract in proceedings (Peer reviewed)

Status: Published     |    Year: 2015

 

Changing the way science is taught through gamified laboratories

Bonde, Mads ; Makransky, G. ; Wandall, J. ; Larsen, Mette Voldby ; Morsing, M. ; Jarmer, Hanne Østergaard ; Lopez-Cordoba, A. ; Sommer, Morten Otto Alexander
part of: EDULEARN15 Proceedings, pages: 6697-6703, 2016
Presented at:
The 7th International Conference on Education and New Learning Technologies

Type: Article in proceedings (Peer reviewed)

Status: Published     |    Year: 2015

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CTX-M-1 β-lactamase expression in Escherichia coli is dependent on cefotaxime concentration, growth phase and gene location.

Kjeldsen, Thea S. B. ; Overgaard, Martin ; Nielsen, Søren S. ; Bortolaia, Valeria ; Jelsbak, Lotte ; Sommer, Morten Otto Alexander ; Guardabassi, Luca ; Olsen, John E.
in: Journal of Antimicrobial Chemotherapy, vol: 70, issue: 1, pages: 62-70

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1093/jac/dku332

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deFUME: Dynamic exploration of functional metagenomic sequencing data

van der Helm, Eric ; Geertz-Hansen, Henrik Marcus ; Genee, Hans Jasper ; Malla, Sailesh ; Sommer, Morten Otto Alexander
in: BMC Research Notes, vol: 8, issue: 328, pages: 328

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1186/s13104-015-1281-y

 

Direct Mutagenesis of Thousands of Genomic Targets using Microarray-derived Oligonucleotides

Bonde, Mads ; Kosuri, Sriram ; Genee, Hans Jasper ; Sarup-Lytzen, Kira ; Church, George M. ; Sommer, Morten ; Wang, Harris H.
in: A C S Synthetic Biology, vol: 4, issue: 1, pages: 17-22

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1021/sb5001565

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Extended spectrum beta-lactamase-producing Escherichia coli forms filaments as an initial response to cefotaxime treatment

Kjeldsen, Thea S. B. ; Sommer, Morten Otto Alexander ; Olsen, John E.
in: B M C Microbiology, vol: 15, issue: 63

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1186/s12866-015-0399-3

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Flexible metabolic pathway construction using modular and divisible selection gene regulators

Rugbjerg, Peter ; Myling-Petersen, Nils ; Sommer, Morten Otto Alexander
in: Metabolic Engineering, vol: 31, pages: 189-197

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1016/j.ymben.2015.08.004

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Limited dissemination of the wastewater treatment plant core resistome

Munck, Christian ; Albertsen, Mads ; Telke, Amar ; Ellabaan, Mostafa M Hashim ; Nielsen, Per Halkjær ; Sommer, Morten Otto Alexander
in: Nature Communications, vol: 6

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1038/ncomms9452

 

Software-Supported USER Cloning Strategies for Site-Directed Mutagenesis and DNA Assembly

Genee, Hans Jasper ; Bonde, Mads Tvillinggaard ; Bagger, Frederik Otzen ; Jespersen, Jakob Berg ; Sommer, Morten O. A. ; Wernersson, Rasmus ; Olsen, Lars Rønn
in: A C S Synthetic Biology, vol: 4, issue: 3, pages: 342-349

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2015     |    DOI: https://doi.org/10.1021/sb500194z

2014
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A sustainable route to produce the scytonemin precursor using Escherichia coli

Malla, Sailesh ; Sommer, Morten O. A.
in: Green Chemistry, vol: 16, issue: 6, pages: 3255-3265

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1039/c4gc00118d

 

Cultivation-based multiplex phenotyping of human gut microbiota allows targeted recovery of previously uncultured bacteria

Rettedal, Elizabeth ; Gumpert, Heidi ; Sommer, Morten
in: Nature Communications, vol: 5, issue: 4714

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1038/ncomms5714

 

Design and application of transcription factor based metabolite sensors in Escherichia coli

Siedler, Solvej ; Stahlhut, Steen Gustav ; Bringer, Stephanie ; Bott, Michael ; Maury, Jerome ; Sommer, Morten Otto Alexander
part of: Abstract Book - DTU Sustain Conference 2014, 2014, Technical University of Denmark, Kgs. Lyngby
Presented at:
DTU Sustain Conference 2014

Type: Conference abstract in proceedings (Peer reviewed)

Status: Published     |    Year: 2014

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Evolution of Escherichia coli to 42 °C and Subsequent Genetic Engineering Reveals Adaptive Mechanisms and Novel Mutations.

Sandberg, Troy E. ; Pedersen, Margit ; LaCroix, Ryan A. ; Ebrahim, Ali ; Bonde, Mads ; Herrgard, Markus ; Palsson, Bernhard ; Sommer, Morten ; Feist, Adam
in: Molecular Biology and Evolution, vol: 31, issue: 10, pages: 2647-2662

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1093/molbev/msu209

 

How to Fight Back Against Antibiotic Resistance

Dantas, Gautam ; Sommer, Morten
in: American Scientist, vol: 102, issue: 1, pages: 42-51

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1511/2014.106.42

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Human Intestinal Cells Modulate Conjugational Transfer of Multidrug Resistance Plasmids between Clinical Escherichia coli Isolates.

Machado, Ana Manuel ; Sommer, Morten
in: P L o S One, vol: 9, issue: 6, pages: e100739

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1371/journal.pone.0100739

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Improving biotech education through gamified laboratory simulations

Bonde, Mads ; Makransky, Guido ; Wandall, Jakob ; Larsen, Mette Voldby ; Morsing, Mikkel ; Jarmer, Hanne Østergaard ; Sommer, Morten
in: Nature Biotechnology, vol: 32, issue: 7, pages: 694-697

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1038/nbt.2955

 

Microbiology: Barriers to the spread of resistance

Sommer, Morten
in: Nature, vol: 509, pages: 567–568

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1038/nature13342

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MODEST: a web-based design tool for oligonucleotide-mediated genome engineering and recombineering

Bonde, Mads ; Klausen, Michael Schantz ; Anderson, Mads Valdemar ; Nilsson Wallin, Annika ; Wang, Harris H. ; Sommer, Morten Otto Alexander
in: Nucleic Acids Research, vol: 12, issue: W1, pages: W408-W415

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1093/nar/gku428

 

Prediction of resistance development against drug combinations by collateral responses to component drugs.

Munck, Christian ; Gumpert, Heidi ; Nilsson Wallin, Annika ; Wang, Harris H. ; Sommer, Morten
in: Science Translational Medicine, vol: 6, issue: 262

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2014     |    DOI: https://doi.org/10.1126/scitranslmed.3009940

2013
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Draft Genome Sequences of Pseudomonas aeruginosa B3 Strains Isolated from a Cystic Fibrosis Patient Undergoing Antibiotic Chemotherapy

Marvig, Rasmus Lykke ; Jochumsen, Nicholas ; Johansen, Helle Krogh ; Høiby, Niels ; Molin, Søren ; Sommer, Morten ; Jelsbak, Lars ; Folkesson, Anders
in: Genome Announcements, vol: 1, issue: 5

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2013     |    DOI: https://doi.org/10.1128/genomeA.00804-13

 

Experimental Approaches for Defining Functional Roles of Microbes in the Human Gut

Dantas, Gautam ; Sommer, Morten ; Degnan, Patrick H. ; Goodman, Andrew L.
in: Annual Review of Microbiology, vol: 67, pages: 459-475

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2013     |    DOI: https://doi.org/10.1146/annurev-micro-092412-155642

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Use of collateral sensitivity networks to design drug cycling protocols that avoid resistance development.

Imamovic, Lejla ; Sommer, Morten
in: Science Translational Medicine, vol: 5, issue: 204

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2013     |    DOI: https://doi.org/10.1126/scitranslmed.3006609

2012
 

Context matters — the complex interplay between resistome genotypes and resistance phenotypes

Dantas, Gautam ; Sommer, Morten
in: Current Opinion in Microbiology, vol: 15, issue: 5, pages: 577-582

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2012     |    DOI: https://doi.org/10.1016/j.mib.2012.07.004

 

The Shared Antibiotic Resistome of Soil Bacteria and Human Pathogens

Forsberg, Kevin J. ; Reyes, Alejandro ; Wang, Bin ; Selleck, Elizabeth M. ; Sommer, Morten O. A. ; Dantas, Gautam
in: Science, vol: 337, issue: 6098, pages: 1107-1111

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2012     |    DOI: https://doi.org/10.1126/science.1220761

2011
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Antibiotics and the resistant microbiome

Sommer, Morten ; Dantas, Gautam
in: Current Opinion in Microbiology, vol: 14, issue: 5, pages: 556-563

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2011     |    DOI: https://doi.org/10.1016/j.mib.2011.07.005

 

Ecological and Clinical Consequences of Antibiotic Subsistence by Environmental Microbes

Dantas, Gautam ; Sommer, Morten Otto Alexander
part of: Antimicrobial Resistance in the Environment, pages: 29-41, 2011, Wiley

Type: Book chapter (Peer reviewed)

Status: Published     |    Year: 2011     |    DOI: https://doi.org/10.1002/9781118156247.ch4

 

Evolutionary dynamics of bacteria in a human host environment

Yang, Lei ; Jelsbak, Lars ; Marvig, Rasmus Lykke ; Pedersen, Søren Damkiær ; Workman, Christopher ; Rau, Martin Holm ; Hansen, Susse Kirkelund ; Folkesson, Anders ; Johansen, Helle Krogh ; Ciofu, Oana ; Høiby, Niels ; Sommer, Morten ; Molin, Søren
in: Proceedings of the National Academy of Sciences of the United States of America, vol: 108, issue: 18, pages: 7481-7486

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2011     |    DOI: https://doi.org/10.1073/pnas.1018249108

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From Screen to Structure with a Harvestable Microfluidic Device

Stojanoff, Vivian ; Jakoncic, Jean ; Oren, Deena A. ; Nagarajan, V. ; Poulsen, Jens-Christian Navarro ; Adams-Cioaba, Melanie A. ; Bergfors, Terese ; Sommer, Morten Otto Alexander
in: Acta Crystallographica. Section F: Structural Biology and Crystallization Communications Online, vol: 67, issue: 8, pages: 971-975

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2011     |    DOI: https://doi.org/10.1107/S1744309111024456

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Functional Metagenomic Investigations of the Human Intestinal Microbiota

Moore, Aimee M. ; Munck, Christian ; Sommer, Morten Otto Alexander ; Dantas, Gautam
in: Frontiers in Microbiology, vol: 2

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2011     |    DOI: https://doi.org/10.3389/fmicb.2011.00188

2010
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A functional metagenomic approach for expanding the synthetic biology toolbox for biomass conversion

Sommer, Morten ; Church, George M ; Dantas, Gautam
in: Molecular Systems Biology, vol: 6, issue: Article 360

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2010     |    DOI: https://doi.org/10.1038/msb.2010.16

 

Functional characterization of the antibiotic resistance reservoir in the human microflora

Sommer, Morten ; Church, George M ; Dantas, Gautam
in: Virulence, vol: 1, issue: 4, pages: 299-303

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2010     |    DOI: https://doi.org/10.4161/viru.1.4.12010