Novo Nordisk Foundation Center for Biosustainability

  1. 2014
  2. Published
  3. Published

    A DNA-binding-site landscape and regulatory network analysis for NAC transcription factors in Arabidopsis thaliana.. / Lindemose, Søren; Jensen, Michael Krogh; de Velde, Jan Van; O'Shea, Charlotte; Heyndrickx, Ken S.; Workman, Christopher; Vandepoele, Klaas; Skriver, Karen; De Masi, Federico.

    In: Nucleic Acids Research, Vol. 42, No. 12, 2014, p. 7681-7693.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  4. Published

    Advances in metabolic engineering of yeast Saccharomyces cerevisiae for production of chemicals. / Borodina, Irina; Nielsen, Jens.

    In: Biotechnology Journal, Vol. 9, No. 5, 2014, p. 609-620.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  5. Published

    Ageing of atrazine in manure amended soils assessed by bioavailability to Pseudomonas sp. strain ADP. / Glæsner, Nadia; Bælum, Jacob; Strobel, Bjarne W.; Jacobsen, Carsten S.

    In: Biodegradation, Vol. 25, No. 2, 2014, p. 217-225.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  6. Published

    A model‐driven quantitative metabolomics analysis of aerobic and anaerobic metabolism in E. coli K‐12 MG1655 that is biochemically and thermodynamically consistent. / McCloskey, Douglas; Gangoiti, Jon A.; King, Zachary A.; Naviaux, Robert K.; Barshop, Bruce A.; Palsson, Bernhard; Feist, Adam.

    In: Biotechnology and Bioengineering, Vol. 111, No. 4, 2014, p. 803-815.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  7. Published

    A new high-throughput LC-MS method for the analysis of complex fructan mixtures.. / Verspreet, Joran; Hansen, Anders Holmgaard; Dornez, Emmie; Courtin, Christophe M.; Harrison, Scott James.

    In: Analytical and Bioanalytical Chemistry, Vol. 406, No. 19, 2014, p. 4785-4788.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  8. E-pub ahead of print
  9. In press
  10. Published

    A sustainable route to produce the scytonemin precursor using Escherichia coli. / Malla, Sailesh; Sommer, Morten O. A.

    In: Green Chemistry, Vol. 16, No. 6, 2014, p. 3255-3265.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  11. Published
  12. E-pub ahead of print

    Bacterial diversity in snow on North Pole ice floes. / Hauptmann, Aviaja Zenia Edna Lyberth; Stibal, Marek ; Bælum, Jacob; Sicheritz-Pontén, Thomas; Brunak, Søren; Bowman, Jeff S.; Hansen, Lars H. ; Jacobsen, Carsten S.; Blom, Nikolaj.

    In: Extremophiles, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  13. Published

    Balanced globin protein expression and heme biosynthesis improve production of human hemoglobin in Saccharomyces cerevisiae. / Liu, Lifang; Martínez, José L.; Liu, Zihe; Petranovic, Dina; Nielsen, Jens.

    In: Metabolic Engineering, Vol. 21, 2014, p. 9-16.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  14. Published

    Biosynthesis of Phenylnannolone A, a Multidrug Resistance Reversal Agent from the Halotolerant Myxobacterium Nannocystis pusilla B150. / Bouhired, Sarah M.; Crüsemann, Max; Almeida, Celso; Weber, Tilmann; Piel, Jörn; Schäberle, Till F.; König, Gabriele M.

    In: ChemBioChem, Vol. 15, No. 5, 2014, p. 757-765.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  15. Published

    Determining the Control Circuitry of Redox Metabolism at the Genome-Scale. / Federowicz, Stephen; Kim, Donghyuk; Ebrahim, Ali; Lerman, Joshua; Nagarajan, Harish; Cho, Byung-kwan; Zengler, Karsten; Palsson, Bernhard.

    In: P L o S Genetics, Vol. 10, No. 4, e1004264, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  16. Accepted

    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, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  17. Accepted
  18. Published
  19. Published

    Engineering synergy in biotechnology. / Nielsen, Jens; Fussenegger, Martin; Keasling, Jay; Yup Lee, Sang; Liao, James C.; Prather, Kristala; Palsson, Bernhard.

    In: Nature Chemical Biology, Vol. 10, No. 5, 2014, p. 319-322.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  20. Published

    Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states. / Cho, Byung-Kwan; Kim, Donghyuk; Knight, Eric M.; Zengler, Karsten; Palsson, Bernhard.

    In: Journal of Biology (Online), Vol. 12, 4, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  21. Published

    High-throughput screening for industrial enzyme production hosts by droplet microfluidics. / Sjostrom, Staffan L.; Bai, Yunpeng; Huang, Mingtao; Liu, Zihe; Nielsen, Jens; Jönsson, Håkan; Svahn, Helene Andersson.

    In: Lab On a Chip, Vol. 14, No. 4, 2014, p. 806-813.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  22. Published

    How to Fight Back Against Antibiotic Resistance. / Dantas, Gautam; Sommer, Morten.

    In: American Scientist, Vol. 102, No. 1, 2014, p. 42-51.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  23. Published

    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, No. 6, 2014, p. e100739.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  24. Published

    Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes. / Nielsen, Henrik Bjørn; Almeida, Mathieu; Juncker, Agnieszka; Rasmussen, Simon; Li, Junhua; Sunagawa, Shinichi; Plichta, Damian Rafal; Gautier, Laurent; Pedersen, Anders Gorm; Emmanuelle, Le Chatelier; Pelletier, Eric; Bonde, Ida; Nielsen, Trine; Manichanh, Chaysavanh; Arumugam, Manimozhiyan; Batto, Jean-Michel; dos Santos, Marcelo Bertalan Quintanilha; Blom, Nikolaj; Borruel, Natalia; Burgdorf, Kristoffer S.; Boumezbeur, Fouad; Casellas, Francesc; Doré, Joël; Dworzynski, Piotr; Guarner, Francisco; Hansen, Torben; Hildebrand, Falk; Kaas, Rolf Sommer; Kennedy, Sean; Kristiansen, Karsten; Kultima, Jens Roat; Léonard, Pierre; Levenez, Florence; Lund, Ole; Moumen, Bouziane; Denis, Le Paslier; Pons, Nicolas; Pedersen, Oluf; Prifti, Edi; Qin, Junjie; Raes, Jeroen; Sørensen, Søren; Tap, Julien; Tims, Sebastian; Ussery, David; Yamada, Takuji; Renault, Pierre; Sicheritz-Pontén, Thomas; Bork, Peer; Wang, Jun; Brunak, Søren; Ehrlich, S. Dusko.

    In: Nature Biotechnology, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  25. Published

    Identification of genes specifically required for the anaerobic metabolism of benzene in Geobacter metallireducens. / Zhang, Tian; Tremblay, Pier-Luc; Chaurasia, Akhilesh Kumar; Smith, Jessica A.; Bain, Timothy S.

    In: Frontiers in Microbiology, Vol. 5, 245, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  26. Published

    In silico tools for the analysis of antibiotic biosynthetic pathways.. / Weber, Tilmann.

    In: International Journal of Medical Microbiology, Vol. 304, 2014, p. 230-235.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  27. Published

    Loss of Social Behaviours in Populations of Pseudomonas aeruginosa Infecting Lungs of Patients with Cystic Fibrosis. / Jiricny, Natalie; Molin, Søren; Foster, Kevin; Diggle, Stephen P.; Scanlan, Pauline D.; Ghoul, Melanie; Johansen, Helle Krogh; Santorelli, Lorenzo A.; Popat, Roman; West, Stuart A.; Griffin, Ashleigh S.

    In: P L o S One, Vol. 9, No. 1, 2014, p. Article No.: e83124.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  28. Published

    Microbiology: Barriers to the spread of resistance. / Sommer, Morten.

    In: Nature, 2014, p. 567–568.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  29. E-pub ahead of print

    MODEST: a web-based design tool for oligonucleotide-mediated genome engineering and recombineering. / Bonde, Mads; Klausen, Michael S.; Anderson, Mads Valdemar; Nilsson Wallin, Annika; Wang, Harris H.; Sommer, Morten.

    In: Nucleic Acids Research, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  30. Published
  31. Published

    Optimal cofactor swapping can increase the theoretical yield for chemical production in Escherichia coli and Saccharomyces cerevisiae. / King, Zachary A.; Feist, Adam.

    In: Metabolic Engineering, Vol. 24, 2014, p. 117-128.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  32. Published

    Physiological characterization of the high malic acid-producing Aspergillus oryzae strain 2103a-68. / Knuf, Christoph; Nookaew, Intawat; Remmers, Ilse; Khoomrung, Sakda; Brown, Stephen; Berry, Alan; Nielsen, Jens.

    In: Applied Microbiology and Biotechnology, Vol. 98, No. 8, 2014, p. 3517-3527.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  33. Published

    Protein network reconstruction of CHO cell secretory pathway. / Lund, Anne Mathilde; Kaas, Christian Schrøder; Kildegaard, Helene Faustrup; Kristensen, Claus; Andersen, Mikael Rørdam.

    2014. Poster session presented at CHOgenome workshop, Vienna, Austria.

    Publication: Research - peer-reviewPoster – Annual report year: 2014

  34. Published

    Secreted single‐stranded DNA is involved in the initial phase of biofilm formation by Neisseria gonorrhoeae. / Zweig, Maria; Schork, Sabine; Koerdt, Andrea; Siewering, Katja; Sternberg, Claus; Thormann, Kai; Albers, Sonja‐Verena; Molin, Søren; Does, Chris, van der.

    In: Environmental Microbiology, Vol. 16, No. 4, 2014, p. 1040-1052.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  35. Published

    Sequestration, tissue distribution and developmental transmission of cyanogenic glucosides in a specialist insect herbivore. / Zagrobelny, Mika; Olsen, Carl Erik; Pentzold, Stefan; Fürstenberg-Hägg, Joel; Jørgensen, Kirsten; Bak, Søren; Møller, Birger Lindberg; Motawia, Mohammed Saddik.

    In: Insect Biochemistry and Molecular Biology, Vol. 44, 2014, p. 44-53.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  36. E-pub ahead of print
  37. Published

    Systematic Evaluation of Methods for Integration of Transcriptomic Data into Constraint-Based Models of Metabolism.. / Machado, Daniel; Herrgard, Markus.

    In: P L o S Computational Biology, Vol. 10, No. 4, e1003580, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  38. Published

    Systems biology and biotechnology of Streptomyces species for the production of secondary metabolites. / Hwang, Kyu-Sang; Kim, Hyun Uk; Charusanti, Pep; Palsson, Bernhard; Yup Lee, Sang.

    In: Biotechnology Advances, Vol. 32, No. 2, 2014, p. 255-268.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  39. Published

    The impact of bioaugmentation on dechlorination kinetics and on microbial dechlorinating communities in subsurface clay till. / Bælum, Jacob; Scheutz, Charlotte; Chambon, Julie Claire Claudia; Jensen, Christine Mosegaard; Brochmann, Rikke P.; Dennis, Philip; Laier, Troels; Broholm, Mette Martina; Bjerg, Poul Løgstrup; Binning, Philip John; Jacobsen, Carsten.

    In: Environmental Pollution, Vol. 186, 2014, p. 149-157.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  40. Published

    Trash to treasure: Production of biofuels and commodity chemicals via syngas fermenting microorganisms. / Latif, Haythem; Zeidan, Ahmad; Nielsen, Alex Toftgaard; Zengler, Karsten.

    In: Current Opinion in Biotechnology, Vol. 27, 2014, p. 79-87.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  41. Published

    Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans. / Raghavan, Maanasa; Skoglund, Pontus; Graf, Kelly E.; Metspalu, Mait; Albrechtsen, Anders; Moltke, Ida; Rasmussen, Simon; Stafford jr., Thomas; Orlando, Ludovic Antoine Alexandre; Metspalu, Ene; Karmin, Monika; Tambets, Kristiina; Rootsi, Siiri; Mägi, Reedik; Campos, Paula; Balanovska, Elena; Balanovsky, Oleg; Khusnutdinova, Elza; Litvinov, Sergey; Osipova, Ludmila P; Fedorova, Sardana A; Voevoda, Mikhail I; Degiorgio, Michael; Sicheritz-Pontén, Thomas; Brunak, Søren; Demeshchenko, Svetlana; Kivisild, Toomas; Villems, Richard; Nielsen, Rasmus; Jakobsson, Mattias; Willerslev, Eske.

    In: Nature, Vol. 505, No. 7481, 2014, p. 87–91.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  42. 2013
  43. Published
  44. Published

    Adaptively evolved yeast mutants on galactose show trade-offs in carbon utilization on glucose. / Hong, Kuk-Ki; Nielsen, Jens.

    In: Metabolic Engineering, Vol. 16, No. 1, 2013, p. 78-86.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  45. Published

    Advances in metabolic pathway and strain engineering paving the way for sustainable production of chemical building blocks. / Chen, Yun; Nielsen, Jens.

    In: Current Opinion in Biotechnology, Vol. 24, No. 6, 2013, p. 965-972.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  46. Published

    Amphipol trapping of a functional CYP system. / Laursen, Tomas; Naur, Peter; Møller, Birger Lindberg.

    In: Biotechnology and Applied Biochemistry, Vol. 60, No. 1, 2013, p. 119-127.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  47. Published

    Anaerobic α-Amylase Production and Secretion with Fumarate as the Final Electron Acceptor in Saccharomyces cerevisiae. / Liu, Zihe; Österlund, Tobias; Hou, Jin; Petranovic, Dina; Nielsen, Jens.

    In: Applied and Environmental Microbiology, Vol. 79, No. 9, 2013, p. 2962-2967.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  48. Published

    A validated system for ligation-free USER™ -based assembly of expression vectors for mammalian cell engineering. / Lund, Anne Mathilde; Kildegaard, Helene Faustrup; Hansen, Bjarne Gram; Holm, Dorte Koefoed; Andersen, Mikael Rørdam; Mortensen, Uffe Hasbro.

    2013. Poster session presented at 23rd ESACT meeting, Lille, France.

    Publication: Research - peer-reviewPoster – Annual report year: 2013

  49. Published

    Bacterial natural transformation by highly fragmented and damaged DNA.. / Overballe-Petersen, Søren; Harms, Klaus; Orlando, Ludovic Antoine Alexandre; Mayar, J. Victor Moreno; Rasmussen, Simon; Dahl, Tais Wittchen; Rosing, Minik Thorleif; Poole, Anthony M; Sicheritz-Pontén, Thomas; Brunak, Søren; Inselmann, Sabrina; de Vries, Johann; Wackernagel, Wilfried; Pybus, Oliver G; Nielsen, Rasmus; Johnsen, Pål Jarle; Nielsen, Kaare Magne; Willerslev, Eske.

    In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 110, No. 49, 2013, p. 19860-19865.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  50. Published

    Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli.. / McCloskey, Douglas; Palsson, Bernhard; Feist, Adam.

    In: Molecular Systems Biology, Vol. 9, 2013, p. 661.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  51. Published

    Community structure and function of high-temperature chlorophototrophic microbial mats inhabiting diverse geothermal environments. / Klatt, Christian G.; Inskeep, William P. ; Herrgard, Markus; Jay, Zackary J. ; Rusch, Douglas B. ; Tringe, Susannah G.; Parenteau, M. Niki; Ward, DavidM.; Boomer, Sarah M.; Bryant, Donald A.; Miller, Scott R.

    In: Frontiers in Microbiology, Vol. 4, 106, 2013.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  52. Published
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