Publications

Publikationer rss feed

2020
  PDF

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

 

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

 

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

  PDF

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

  PDF

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

 

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

  PDF

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

  PDF

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

  PDF

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

  PDF

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

  PDF

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

 

Lipid and carotenoid production from wheat straw hydrolysates by different oleaginous yeasts

Liu, Zhijia ; Feist, Adam ; Dragone, Giuliano ; Mussatto, Solange I.
in: Journal of Cleaner Production

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1016/j.jclepro.2019.119308

  PDF

MIBiG 2.0: a repository for biosynthetic gene clusters of known function

Kautsar, Satria A ; Blin, Kai ; Shaw, Simon ; Navarro-Muñoz, Jorge C ; Terlouw, Barbara R ; van der Hooft, Justin J J ; van Santen, Jeffrey A ; Tracanna, Vittorio ; Suarez Duran, Hernando G ; Pascal Andreu, Victòria ; Selem-Mojica, Nelly ; Alanjary, Mohammad ; Robinson, Serina L ; Lund, George ; Epstein, Samuel C ; Sisto, Ashley C ; Charkoudian, Louise K ; Collemare, Jérôme ; Linington, Roger G ; Weber, Tilmann ; Medema, Marnix H
in: Nucleic acids research, vol: 48, pages: D454–D458

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1093/nar/gkz882

  PDF

Optimizing cultivation of Cordyceps militaris for fast growth and cordycepin overproduction using rational design of synthetic media

Raethong, Nachon ; Wang, Hao ; Nielsen, Jens ; Vongsangnak, Wanwipa
in: Computational and Structural Biotechnology Journal, vol: 18, pages: 1-8

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1016/j.csbj.2019.11.003

  PDF

Physical decoupling of XylS/Pm regulatory elements and conditional proteolysis enable precise control of gene expression in Pseudomonas putida

Volke, Daniel Christoph ; Turlin, Justine ; Mol, Viviënne ; Nikel, Pablo Ivan
in: Microbial Biotechnology, vol: 13, issue: 1, pages: 222-232

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1111/1751-7915.13383

  PDF

Programmable polyketide biosynthesis platform for production of aromatic compounds in yeast

Jakočiūnas, Tadas ; Klitgaard, Andreas K. ; Kontou, Eftychia Eva ; Nielsen, Julie Bang ; Thomsen, Emil ; Romero Suarez, David ; Blin, Kai ; Petzold, Christopher J. ; Gin, Jennifer W. ; Tong, Yaojun ; Gotfredsen, Charlotte Held ; Charusanti, Pep ; Frandsen, Rasmus J. N. ; Weber, Tilmann ; Lee, Sang Yup ; Jensen, Michael Krogh ; Keasling, Jay D.
in: Synthetic and Systems Biotechnology, vol: 5, issue: 1, pages: 11-18

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1016/j.synbio.2020.01.004

  PDF

Protocols for RecET-based markerless gene knockout and integration to express heterologous biosynthetic gene clusters in Pseudomonas putida

Choi, Kyeong Rok ; Lee, Sang Yup
in: Microbial Biotechnology, vol: 13, issue: 1, pages: 199-209

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2020     |    DOI: https://doi.org/10.1111/1751-7915.13374

 

Recent advances of metabolic engineering strategies in natural isoprenoid production using cell factories

Li, Meijie ; Hou, Feifei ; Wu, Tong ; Jiang, Xinglin ; Li, Fuli ; Liu, Haobao ; Xian, Mo ; Zhang, Haibo
in: Natural Product Reports

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2020     |    DOI: https://doi.org/10.1039/c9np00016j