Publications

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2020
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Accelerated genome engineering of Pseudomonas putida by I-SceI-mediated recombination and CRISPR-Cas9 counterselection

Wirth, Nicolas ; Kozaeva, Ekaterina ; Nikel, Pablo Ivan
in: Microbial Biotechnology, vol: 13, issue: 1, pages: 233-249

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1111/1751-7915.13396

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Adaptation of hydroxymethylbutenyl diphosphate reductase enables volatile isoprenoid production

Bongers, Mareike ; Perez-Gil, Jordi ; Hodson, Mark P. ; Schrübbers, Lars ; Wulff, Tune ; Sommer, Morten Oa ; Nielsen, Lars K. ; Vickers, Claudia E.
in: eLife, vol: 9

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.7554/elife.48685

 

Adaptive laboratory evolution of Escherichia coli under acid stress

Du, Bin ; Olson, Connor A. ; Sastry, Anand V ; Fang, Xin ; Phaneuf, Patrick V. ; Chen, Ke ; Wu, Muyao ; Szubin, Richard ; Xu, Sibei ; Gao, Ye ; Hefner, Ying ; Feist, Adam M ; Palsson, Bernhard O
in: Microbiology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1099/mic.0.000867

 

Addressing environmental sustainability of biochemicals

Ögmundarson, Ólafur ; Herrgård, Markus J. ; Forster, Jochen ; Hauschild, Michael Zwicky ; Fantke, Peter
in: Nature Sustainability

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1038/s41893-019-0442-8

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An expanded CRISPRi toolbox for tunable control of gene expression in Pseudomonas putida

Batianis, Christos ; Kozaeva, Ekaterina ; Damalas, Stamatios G. ; Martín-Pascual, María ; Volke, Daniel Christoph ; Nikel, Pablo Ivan ; Martins dos Santos, Vitor A.P.
in: Microbial Biotechnology, vol: 13, issue: 2, pages: 368-385

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1111/1751-7915.13533

 

Awakening dormant glycosyltransferases in CHO cells with CRISPRa

Julie la Cour Karottki, Karen ; Hefzi, Hooman ; Xiong, Kai ; Shamie, Isaac ; Hansen, Anders Holmgaard ; Li, Songyuan ; Pedersen, Lasse Ebdrup ; Li, Shangzhong ; Lee, Jae Seong ; Min Lee, Gyun ; Kildegaard, Helene Faustrup ; Lewis, Nathan E.
in: Biotechnology and Bioengineering, vol: 117, issue: 2, pages: 593-598

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1002/bit.27199

 

A workflow for generating multi-strain genome-scale metabolic models of prokaryotes

Norsigian, Charles J. ; Fang, Xin ; Seif, Yara ; Monk, Jonathan M. ; Palsson, Bernhard O.
in: Nature Protocols, vol: 15, issue: 1, pages: 1-14

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1038/s41596-019-0254-3

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Biochemistry, genetics and biotechnology of glycerol utilization in Pseudomonas species

Poblete-Castro, Ignacio ; Wittmann, Christoph ; Nikel, Pablo Ivan
in: Microbial Biotechnology, vol: 13, issue: 1, pages: 32-53

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1111/1751-7915.13400

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Complete Genome Sequences of 13 Bacillus subtilis Soil Isolates for Studying Secondary Metabolite Diversity

Kiesewalter, Heiko T. ; Lozano-Andrade, Carlos N. ; Maróti, Gergely ; Snyder, Dan ; Jørgensen, Tue Sparholt ; Weber, Tilmann ; Kovács, Ákos T.
in: Microbiology Resource Announcements, vol: 9, issue: 2

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1128/mra.01406-19

 

Cow's milk allergy prevention and treatment by heat-treated whey - a study in Brown Norway rats

Graversen, Katrine Bækby ; Ravn Ballegaard, Anne-Sofie ; Kræmer, Louise H ; Hornslet, Sofie Emilie ; Sørensen, Laila V ; Christoffersen, Heidi F. ; Jacobsen, Lotte N. ; Untersmayr, Eva ; Smit, Joost J ; Bøgh, Katrine Lindholm
in: Clinical and Experimental Allergy

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1111/cea.13587

 

Directed Metabolic Pathway Evolution Enables Functional Pterin-Dependent Aromatic-Amino-Acid Hydroxylation in Escherichia coli

Luo, Hao ; Yang, Lei ; Kim, Se Hyeuk ; Wulff, Tune ; Feist, Adam M. ; Herrgard, Markus ; Palsson, Bernhard
in: ACS Synthetic Biology, vol: 9, issue: 3, pages: 494-499

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1021/acssynbio.9b00488

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Disclosing the Potential of the SARP-Type Regulator PapR2 for the Activation of Antibiotic Gene Clusters in Streptomycetes

Krause, Janina ; Handayani, Ira ; Blin, Kai ; Kulik, Andreas ; Mast, Yvonne
in: Frontiers in Microbiology, vol: 11

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.3389/fmicb.2020.00225

 

Dual-function chromogenic screening-based CRISPR/Cas9 genome editing system for actinomycetes

Wang, Qiushui ; Xie, Feng ; Tong, Yaojun ; Habisch, Rebecca ; Yang, Bowen ; Zhang, Lixin ; Müller, Rolf ; Fu, Chengzhang
in: Applied Microbiology and Biotechnology, vol: 104, pages: 225-239

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1007/s00253-019-10223-4

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Engineering G protein-coupled receptor signalling in yeast for biotechnological and medical purposes

Lengger, Bettina ; Jensen, Michael Krogh
in: FEMS Yeast Research

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1093/femsyr/foz087

 

Engineering yeast phospholipid metabolism for de novo oleoylethanolamide production

Liu, Yi ; Liu, Quanli ; Krivoruchko, Anastasia ; Khoomrung, Sakda ; Nielsen, Jens
in: Nature Chemical Biology

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1038/s41589-019-0431-2

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Environmental hotspots of lactic acid production systems

Ögmundarson, Ólafur ; Sukumara, Sumesh ; Laurent, Alexis ; Fantke, Peter
in: GCB Bioenergy, vol: 12, issue: 1, pages: 19-38

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1111/gcbb.12652

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Evolution-guided engineering of small-molecule biosensors

Snoek, Tim ; Chaberski, Evan Kirk ; Ambri, Francesca ; Kol, Stefan ; Bjørn, Sara P ; Pang, Bo ; Barajas, Jesus F ; Welner, Ditte Hededam ; Jensen, Michael Krogh ; Keasling, Jay D.
in: Nucleic acids research, vol: 48, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1093/nar/gkz954

 

Genome Mining Approaches to Bacterial Natural Product Discovery

Ziemert, Nadine ; Weber, Tilmann ; Medema, Marnix H.
in: Reference Module in Chemistry, Molecular Sciences and Chemical Engineering

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1016/B978-0-12-409547-2.14627-X

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Insights into the Mechanism of Phenylacetate Decarboxylase (PhdB), a Toluene-Producing Glycyl Radical Enzyme

Rodrigues, Andria V. ; Tantillo, Dean J. ; Mukhopadhyay, Aindrila ; Keasling, Jay ; Beller, Harry R.
in: ChemBioChem

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1002/cbic.201900560

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Leveraging host metabolism for bisdemethoxycurcumin production in Pseudomonas putida

Incha, Matthew R. ; Thompson, Mitchell G. ; Blake-Hedges, Jacquelyn M. ; Liu, Yuzhong ; Pearson, Allison N. ; Schmidt, Matthias ; Gin, Jennifer W. ; Petzold, Christopher J. ; Deutschbauer, Adam M. ; Keasling, Jay D.
in: Metabolic Engineering Communications, vol: 10

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1016/j.mec.2019.e00119