Microbial Ecology and Biotechnology

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  1. 2022
  2. Published

    Fungal endophytes in plants and their relationship to plant disease

    Collinge, David B., Jensen, Birgit & Jørgensen, Hans Jørgen Lyngs, 2022, In: Current Opinion in Microbiology. 69, 6 p., 102177.

    Research output: Contribution to journal › Review › Research › peer-review

  3. Published

    Genetic, Phenotypic and Metabolic Diversity of Yeasts From Wheat Flag Leaves

    Gouka, L., Vogels, C., Hansen, Lars Hestbjerg, Raaijmakers, J. M. & Cordovez, V., 2022, In: Frontiers in Plant Science. 13, 13 p., 908628.

    Research output: Contribution to journal › Journal article › Research › peer-review

  4. Published

    Gluten-free diet reduces autoimmune diabetes mellitus in mice across multiple generations in a microbiota-independent manner

    Hansen, Camilla Hartmann Friis, Larsen, C. S., Zachariassen, L. F., Mentzel, Caroline M. Junker, Laigaard, A., Krych, Lukasz, Nielsen, Dennis Sandris, Gobbi, Alex, Haupt-Jorgensen, M., Buschard, K. & Hansen, Axel Kornerup, 2022, In: Journal of Autoimmunity. 127, 102795.

    Research output: Contribution to journal › Journal article › Research › peer-review

  5. Published

    Gut Microbiome and Its Cofactors Are Linked to Lipoprotein Distribution Profiles

    Castro-Mejía, J. L., Khakimov, Bekzod, Aru, Violetta, Lind, M. V., Ahlmann, Eva Garne, Paulová, P., Tavakkoli, E., Hansen, Lars Hestbjerg, Smilde, Age Klaas, Holm, L., Engelsen, Søren Balling & Nielsen, Dennis Sandris, 2022, In: Microorganisms. 10, 11, 2156.

    Research output: Contribution to journal › Journal article › Research › peer-review

  6. Published

    Identification and Functional Characterisation of Two Oat UDP-Glucosyltransferases Involved in Deoxynivalenol Detoxification

    Khairullina, A., Renhuldt, N. T., Wiesenberger, G., Bentzer, J., Collinge, David B., Adam, G. & Bülow, L., 2022, In: Toxins. 14, 7, 16 p., 446.

    Research output: Contribution to journal › Journal article › Research › peer-review

  7. Published

    Inoculation of tomato (Solanum lycopersicum) roots with growth promoting Pseudomonas strains induces distinct local and systemic metabolic biosignatures

    Mekureyaw, M. F., Beierholm, A. E., Nybroe, O. & Roitsch, Thomas Georg, 2022, In: Physiological and Molecular Plant Pathology. 117, 10 p., 101757.

    Research output: Contribution to journal › Journal article › Research › peer-review

  8. Published

    Liquid scintillation counting can underestimate 14C-activity of 14CO2 trapped in NaOH

    Boos, E. F., Magid, Jakob, Bruun, Sander & Jørgensen, Niels O. G., 2022, In: Soil Biology and Biochemistry. 166, 5 p., 108576.

    Research output: Contribution to journal › Journal article › Research › peer-review

  9. Published

    Long-Term Safety Following Faecal Microbiota Transplantation as a Treatment for Recurrent Clostridioides difficile Infection Compared with Patients Treated with a Fixed Bacterial Mixture: Results from a Retrospective Cohort Study

    Cold, F., Svensson, C. K., Petersen, Andreas Munk, Hansen, Lars Hestbjerg & Helms, Morten, 2022, In: Cells. 11, 3, 18 p., 435.

    Research output: Contribution to journal › Journal article › Research › peer-review

  10. Published

    Machine learning and deep learning applications in microbiome research

    Hernandez Medina, Ricardo, Kutuzova, Svetlana, Nielsen, Knud Nor, Johansen, Joachim, Hansen, Lars Hestbjerg, Nielsen, Mads & Rasmussen, Simon, 2022, In: ISME Communications. 2, 7 p., 98.

    Research output: Contribution to journal › Journal article › Research › peer-review

  11. Published

    Marked gut microbiota dysbiosis and increased imidazole propionate are associated with a NASH Göttingen Minipig model

    Lützhøft, Ditte Olsen, Sinioja, T., Christoffersen, B., Jakobsen, Rasmus Riemer, Geng, Dawei, Ahmad, H. F. B., Straarup, E. M., Pedersen, K. M., Kot, Witold, Pedersen, H. D., Cirera, Susanna, Hyötyläinen, T., Nielsen, Dennis Sandris & Hansen, Axel Kornerup, 2022, In: BMC Microbiology. 22, 1, 287.

    Research output: Contribution to journal › Journal article › Research › peer-review

  12. Published

    Maturation of sleep-gut microbiome dynamics in infancy and links to behavioral development

    Kurth, S., Schoch, S., Castro-Mejia, J., Krych, Lukasz, Leng, B., Kot, Witold, Kohler, M., Huber, R., Rogler, G., Biedermann, L., Walser, J. & Nielsen, D., 2022, In: Journal of Sleep Research. 31, S1, p. 93-94 2 p., O194/P949.

    Research output: Contribution to journal › Conference abstract in journal › Research › peer-review

  13. Published

    Microbial Diversity in Four Rhizocompartments (Bulk Soil, Rhizosphere, Rhizoplane, and Endosphere) of Four Winter Wheat Varieties at the Fully Emerged Flag Leaf Growth Stage

    Ahmad, J., Zervas, A., Ellegaard-Jensen, L., Hennessy, Rosanna Catherine, Carbone, I., Cornish, V., Müller-Stöver, Dorette Sophie, Grunden, A., Jacobsen, C. S. & Nicolaisen, Mette Haubjerg, 2022, In: Microbiology Resource Announcements. 11, 11, 4 p., e0066322.

    Research output: Contribution to journal › Journal article › Research › peer-review

  14. Published

    Muskoxen homogenise soil microbial communities and affect the abundance of methanogens and methanotrophs

    Aggerbeck, M. R., Nielsen, Tue Kjærgaard, Mosbacher, J. B., Schmidt, N. M. & Hansen, Lars Hestbjerg, 2022, In: Science of the Total Environment. 827, 9 p., 153877.

    Research output: Contribution to journal › Journal article › Research › peer-review

  15. Published

    Parasite-Probiotic Interactions in the Gut: Bacillus sp. and Enterococcus faecium Regulate Type-2 Inflammatory Responses and Modify the Gut Microbiota of Pigs During Helminth Infection

    Myhill, L. J., Stolzenbach, S., Mejer, Helena, Krych, Lukasz, Jakobsen, S. R., Kot, Witold, Skovgaard, K., Canibe, N., Nejsum, P., Nielsen, Dennis Sandris, Thamsborg, Stig Milan & Williams, Andrew Richard, 2022, In: Frontiers in Immunology. 12, 793260.

    Research output: Contribution to journal › Journal article › Research › peer-review

  16. Published

    Phage Infection Restores PQS Signaling and Enhances Growth of a Pseudomonas aeruginosa lasI Quorum-Sensing Mutant

    Høyland-Kroghsbo, Nina Molin & Bassler, B. L., 2022, In: Journal of Bacteriology. 204, 5, 14 p., e00557-21.

    Research output: Contribution to journal › Journal article › Research › peer-review

  17. Published

    Plant extracts as potential control agents of Black Sigatoka in banana

    Kumakech, A., Jørgensen, Hans Jørgen Lyngs, Collinge, David B., Edema, R. & Okori, P., 2022, In: Journal of Plant Pathology. 104, p. 1303-1314 12 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  18. Published

    Prevalence of antibiotic resistance genes in Pangasianodon hypophthalmus and Oreochromis niloticus aquaculture production systems in Bangladesh

    Lassen, Simon Bo, Ahsan, M. E., Islam, S. R., Zhou, X. Y., Razzak, M. A., Su, J. Q. & Brandt, Kristian Koefoed, 2022, In: Science of the Total Environment. 813, 151915.

    Research output: Contribution to journal › Journal article › Research › peer-review

  19. Published

    Regulation of Tomato Specialised Metabolism after Establishment of Symbiosis with the Endophytic Fungus Serendipita indica

    Ntana, F., Johnson, S. R., Hamberger, B., Jensen, Birgit, Jørgensen, Hans Jørgen Lyngs & Collinge, David B., 2022, In: Microorganisms. 10, 17 p., 194.

    Research output: Contribution to journal › Journal article › Research › peer-review

  20. Published

    Regulation of virulence properties in the fish pathogen Vibrio anguillarum: The role of prophages and quorum sensing

    Mauritzen, Jesper Juel, 2022, Department of Biology, Faculty of Science, University of Copenhagen. 277 p.

    Research output: Book/Report › Ph.D. thesis › Research

  21. Published

    Salmonella phage akira, infecting selected Salmonella enterica Enteritidis and Typhimurium strains, represents a new lineage of bacteriophages

    Olsen, Nikoline S., Lametsch, Rene, Wagner, N., Hansen, Lars Hestbjerg & Kot, Witold, 2022, In: Archives of Virology. 167, p. 2049–2056

    Research output: Contribution to journal › Journal article › Research › peer-review

  22. Published

    Short- and long-read metabarcoding of the eukaryotic rRNA operon: Evaluation of primers and comparison to shotgun metagenomics sequencing

    Latz, Meike, Grujcic, V., Brugel, S., Lycken, J., John, U., Karlson, B., Andersson, A. & Andersson, A. F., 2022, In: Molecular Ecology Resources. 22, 6, p. 2304-2318 15 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  23. Published

    Student mental health and engagement of students in a large online classroom setting during a global pandemic

    Høyland-Kroghsbo, Nina Molin, 2022, Improving University Science Teaching and Learning: Pedagogical Projects 2022. Andersen Arias, A. & Voetmann Christiansen, F. (eds.). Department of Science Education, University of Copenhagen, p. 199-212 (Improving University Science Teaching and Learning - Pedagogical Projects, Vol. 17).

    Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research

  24. Published

    Successful treatment of Clostridioidesdifficile infection with single-donor faecal microbiota transplantation capsules

    Cold, F., Svensson, C. K., Christensen, A. H., Günther, S., Petersen, Andreas Munk, Hansen, Lars Hestbjerg & Helms, Morten, 2022, In: Danish Medical Journal. 69, 2, 10 p., 09210712.

    Research output: Contribution to journal › Journal article › Research › peer-review

  25. Published

    Successful treatment of Clostridioidesdifficile infection with single-donorfaecal microbiota transplantation capsules

    Cold, F., Svensson, C. K., Günther, S., Petersen, Andreas Munk, Hansen, Lars Hestbjerg & Helms, Morten, 2022, In: Danish Medical Journal. 69, 2, 10 p., A09210712.

    Research output: Contribution to journal › Journal article › Research › peer-review

  26. Published

    Succession of the wheat seed-associated microbiome as affected by soil fertility level and introduction of Penicillium and Bacillus inoculants in the field

    Nunes, I., Hansen, Veronika, Bak, Frederik, Bonnichsen, L., Su, J., Hao, X., Raymond, Nelly Sophie, Nicolaisen, Mette Haubjerg, Jensen, Lars Stoumann & Nybroe, O., 2022, In: FEMS Microbiology Ecology. 98, 3, 14 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  27. Published

    The Bacillus cereus Strain EC9 Primes the Plant Immune System for Superior Biocontrol of Fusarium oxysporum

    Madriz Ordenana, Kenneth, Pazarlar, S., Jørgensen, Hans Jørgen Lyngs, Nielsen, Tue Kjærgaard, Zhang, Y., Nielsen, K. L., Hansen, Lars Hestbjerg & Thordal-Christensen, Hans, 2022, In: Plants. 11, 5, 19 p., 687.

    Research output: Contribution to journal › Journal article › Research › peer-review

  28. Published

    The Efficacy of Faecal Microbiota Transplant and Rectal Bacteriotherapy in Patients with Recurrent Clostridioides difficile Infection: A Retrospective Cohort Study.

    Svensson, C. K., Cold, F., Ribberholt, I., Zangenberg, M., Mirsepasi-Lauridsen, H. C., Petersen, Andreas Munk & Helms, Morten, 2022, In: Cells. 11, 20, 12 p., 3272.

    Research output: Contribution to journal › Journal article › Research › peer-review

  29. Published

    The cytokinin-producing plant beneficial bacterium Pseudomonas fluorescens G20-18 primes tomato (Solanum lycopersicum) for enhanced drought stress responses

    Mekureyaw, M. F., Pandey, Chandana, Hennessy, Rosanna Catherine, Nicolaisen, Mette Haubjerg, Liu, Fulai, Nybroe, O. & Roitsch, Thomas Georg, 2022, In: Journal of Plant Physiology. 270, 15 p., 153629.

    Research output: Contribution to journal › Journal article › Research › peer-review

  30. Published

    The fungal endophyte Penicillium olsonii ML37 reduces Fusarium head blight by local induced resistance in wheat spikes

    Rojas, E. C., Jensen, Birgit, Jørgensen, Hans Jørgen Lyngs, Latz, Meike, Esteban, P. & Collinge, David B., 2022, In: Journal of Fungi. 8, 4, 17 p., 345.

    Research output: Contribution to journal › Journal article › Research › peer-review

  31. Published

    The phytonutrient cinnamaldehyde limits intestinal inflammation and enteric parasite infection

    Zhu, L., Andersen-Civil, A. I. S., Myhill, L. J., Thamsborg, Stig Milan, Kot, Witold, Krych, Lukasz, Nielsen, Dennis Sandris, Blanchard, A. & Williams, Andrew Richard, 2022, In: Journal of Nutritional Biochemistry. 100, 10 p., 108887.

    Research output: Contribution to journal › Journal article › Research › peer-review

  32. Published

    Thermal Endurance by a Hot-Spring-Dwelling Phylogenetic Relative of the Mesophilic Paracoccus

    Mondal, N., Roy, C., Chatterjee, S., Sarkar, J., Dutta, S., Bhattacharya, S., Chakraborty, R. & Ghosh, W., 2022, In: Microbiology Spectrum. 10, 6, 25 p., e0160622.

    Research output: Contribution to journal › Journal article › Research › peer-review

  33. Published

    Transgenic approaches for plant disease control: Status and prospects 2021

    Collinge, David B. & Sarrocco, S., 2022, In: Plant Pathology. 71, 1, p. 207-225 19 p.

    Research output: Contribution to journal › Review › Research › peer-review

  34. Published

    Treatment of bowel diseases with Faecal Microbiota Transplantation

    Cold, F., 2022, Department of Plant and Environmental Sciences, Faculty of Science, University of Copenhagen. 212 p.

    Research output: Book/Report › Ph.D. thesis › Research

  35. Published

    Volatiles produced by Streptomyces spp. delay rot in apples caused by Colletotrichum acutatum

    Jepsen, T., Jensen, Birgit & Jørgensen, Niels O. G., 2022, In: Current Research in Microbial Sciences. 3, 7 p., 100121.

    Research output: Contribution to journal › Journal article › Research › peer-review

  36. 2021
  37. Published

    The pangenome of the fungal pathogen Neonectria neomacrospora

    Nielsen, Knud Nor, Sirén, K., Petersen, Bent, Sicheritz-Pontén, Thomas, Gilbert, M Thomas P, Korneliussen, Thorfinn Sand & Hansen, Ole Kim, 12 Mar 2021, 30 p. (bioRxiv).

    Research output: Working paper › Preprint › Research

  38. Published

    A Novel Auxiliary Agarolytic Pathway Expands Metabolic Versatility in the Agar-Degrading Marine Bacterium Colwellia echini A3T

    Pathiraja, D., Christiansen, L., Park, B., Schultz-Johansen, M., Bang, G., Stougaard, P. & Choi, I. G., 2021, In: Applied and Environmental Microbiology. 87, 12, 19 p., e00230-21.

    Research output: Contribution to journal › Journal article › Research › peer-review

  39. Published

    A non-antifungal rhizobacterium stimulates plant immunity to protect tomato and Kalanchoe against Fusarium oxysporum and wheat against Zymoseptoria tritici

    Madriz Ordenana, Kenneth, Pazarlar, Sercan, Jørgensen, Hans Jørgen Lyngs, Nielsen, Tue Kjærgaard, Nielsen, K. L., Zhang, Y. & Thordal-Christensen, Hans, 2021. 1 p.

    Research output: Contribution to conference › Conference abstract for conference › Research

  40. Published

    A novel microcosm to identify inherently competitive microorganisms with the ability to mineralize phytate in solum

    Pittroff, S. M., Olsson, S., Doolette, A., Greiner, R., Richardson, A. E. & Nicolaisen, Mette Haubjerg, 2021, In: Soil Ecology Letters. 3, p. 367-382

    Research output: Contribution to journal › Journal article › Research › peer-review

  41. Published

    A novel transcription factor UvCGBP1 regulates development and virulence of rice false smut fungus Ustilaginoidea virens

    Chen, X., Li, P., Liu, H., Chen, X., Huang, J., Luo, C., Li, G., Hsiang, T., Collinge, David B. & Zheng, L., 2021, In: Virulence. 12, 1, p. 1563-1579 17 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  42. Published

    A sesquiterpene synthase from the endophytic fungus Serendipita indica catalyzes formation of viridiflorol

    Ntana, F., Bhat, W. W., Johnson, S. R., Jørgensen, Hans Jørgen Lyngs, Collinge, David B., Jensen, Birgit & Hamberger, B., 2021, In: Biomolecules. 11, 6, 16 p., 898.

    Research output: Contribution to journal › Journal article › Research › peer-review

  43. Published

    Administration of bovine milk oligosaccharide to weaning gnotobiotic mice inoculated with a simplified infant type microbiota

    Jakobsen, L. M. A., Sundekilde, U. K., Andersen, H. J., Kot, Witold, Mejia, J. L. C., Nielsen, Dennis Sandris, Hansen, Axel Kornerup & Bertram, H. C., 2021, In: Microorganisms. 9, 5, 1003.

    Research output: Contribution to journal › Journal article › Research › peer-review

  44. Published

    An Oligosaccharide Rich Diet Increases Akkermansia spp. Bacteria in the Equine Microbiota

    Lindenberg, F. C., Lützhøft, Ditte Olsen, Krych, Lukasz, Fielden, J., Kot, Witold, Frøkiær, Hanne, van Galen, G., Nielsen, Dennis Sandris & Hansen, Axel Kornerup, 2021, In: Frontiers in Microbiology. 12, 666039.

    Research output: Contribution to journal › Journal article › Research › peer-review

  45. Published

    An improved direct metamobilome approach increases the detection of larger-sized circular elements across kingdoms

    Alanin, K. W. S., Jørgensen, T. S., Browne, Patrick Denis, Petersen, Bent, Riber, Leise, Kot, Witold & Hansen, Lars Hestbjerg, 2021, In: Plasmid. 115, 11 p., 102576.

    Research output: Contribution to journal › Journal article › Research › peer-review

  46. Published

    Antibiotic resistome in the livestock and aquaculture industries: Status and solutions

    Zhao, Y., Yang, Q. E., Zhou, X., Wang, F., Muurinen, J., Virta, M. P., Brandt, Kristian Koefoed & Zhu, Y., 2021, In: Critical Reviews in Environmental Science and Technology. 51, 19, p. 2159-2196 38 p.

    Research output: Contribution to journal › Review › Research › peer-review

  47. Published

    Application of wood ash leads to strong vertical gradients in soil pH changing prokaryotic community structure in forest top soil

    Bang-Andreasen, T., Peltre, M., Ellegaard-Jensen, L., Hansen, Lars Hestbjerg, Ingerslev, Morten, Rønn, Regin, Jacobsen, C. S. & Kjøller, Rasmus, 2021, In: Scientific Reports. 11, 10 p., 742.

    Research output: Contribution to journal › Journal article › Research › peer-review

  48. Published

    Bacterial Chromosomes Under Changing Environmental Conditions: Editorial

    Glinkowska, M., Waldminghaus, T. & Riber, Leise, 2021, In: Frontiers in Microbiology. 12, 3 p., 633466.

    Research output: Contribution to journal › Editorial › Research

  49. Published

    Cadmium enhances conjugative plasmid transfer to a fresh water microbial community

    Pu, Q., Fan, X., Li, H., An, X., Lassen, Simon Bo & Su, J., 2021, In: Environmental Pollution. 268, Part B, 9 p., 115903.

    Research output: Contribution to journal › Journal article › Research › peer-review

  50. Published

    Case study on depuration of RAS-produced pikeperch (Sander lucioperca) for removal of geosmin and other volatile organic compounds (VOCs) and its impact on sensory quality

    Podduturi, Raju, Petersen, Mikael Agerlin, Vestergaard, M., Hyldig, G. & Jørgensen, Niels O. G., 2021, In: Aquaculture. 530, 9 p., 735754.

    Research output: Contribution to journal › Journal article › Research › peer-review

  51. Published

    Characterization of the Aerobic Anoxygenic Phototrophic Bacterium Sphingomonas sp. AAP5

    Kopejtka, K., Zeng, Y., Kaftan, D., Selyanin, V., Gardian, Z., Tomasch, J., Sommaruga, R. & Koblížek, M., 2021, In: Microorganisms. 9, 4, 13 p., 768.

    Research output: Contribution to journal › Journal article › Research › peer-review

  52. Published

    Clonostachys rosea to control plant diseases

    Jensen, Dan Funck, Dubey, M., Jensen, Birgit & Karlsson, M., 2021, Microbial bioprotectants for plant disease management. p. 429-471 45 p. (Burleigh Dodds series in agricultural science).

    Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

  53. Published

    Co-effect of cadmium and iron oxide nanoparticles on plasmid-mediated conjugative transfer of antibiotic resistance genes: [incl. Corrigendum]

    Pu, Q., Fan, X. T., Sun, A. Q., Pan, T., Li, H., Lassen, Simon Bo, An, X. L. & Su, J. Q., 2021, In: Environment International. 152, 9 p., 106453.

    Research output: Contribution to journal › Journal article › Research › peer-review

  54. Published

    Complete Genome Sequence of Paenibacillus sp. Strain 37, a Plant Growth-Promoting Bacterium Isolated from the Rhizosphere of Abies nordmanniana (Nordmann Fir)

    Garcia-Lemos, A. M., Hennessy, Rosanna Catherine, Nielsen, Tue Kjærgaard, Hansen, Lars Hestbjerg & Nicolaisen, Mette Haubjerg, 2021, In: Microbiology Resource Announcements. 10, 8, 2 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  55. Published

    Complete Genome Sequence of a Novel Dyadobacter sp. Strain, NIV53, Isolated from 2-Meter Deep Subsurface Sediment

    Bak, Frederik, Henriksen, Alexander Pil, Nielsen, Tue Kjærgaard & Nicolaisen, Mette Haubjerg, 2021, In: Microbiology resource announcements. 10, 44, 2 p., e0075421.

    Research output: Contribution to journal › Journal article › Research › peer-review

  56. Published

    Complete Genome Sequence of the Cytokinin-Producing Biocontrol Strain Pseudomonas fluorescens G20-18

    Nielsen, Tue Kjærgaard, Mekureyaw, M. F., Hansen, Lars Hestbjerg, Nicolaisen, Mette Haubjerg, Roitsch, Thomas Georg & Hennessy, Rosanna Catherine, 2021, In: Microbiology Resource Announcements. 10, 30, 2 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  57. Published

    Disentangling the abiotic and biotic components of AMF suppressive soils

    Cruz-Paredes, C., Diera, T., Davey, M., Rieckmann, Maria Monrad, Christensen, P., Dela Cruz, Majbrit, Laursen, Kristian Holst, Joner, E. J., Christensen, Jan H., Nybroe, O. & Jakobsen, Iver, 2021, In: Soil Biology and Biochemistry. 159, 11 p., 108305.

    Research output: Contribution to journal › Journal article › Research › peer-review

  58. Published

    Earthworm gut: An overlooked niche for anaerobic ammonium oxidation in agricultural soil

    Li, H., Yang, X., Wang, J., Zhou, G., Zhang, Y., Lassen, Simon Bo, Zhu, Y. & Su, J., 2021, In: Science of the Total Environment. 752, 9 p., 141874.

    Research output: Contribution to journal › Journal article › Research › peer-review

  59. Published

    Emergence and Co-selection of Antibiotic Resistance in the Environment

    Lassen, Simon Bo, 2021, Department of Plant and Environmental Sciences, Faculty of Science, University of Copenhagen. 243 p.

    Research output: Book/Report › Ph.D. thesis › Research

  60. Published

    Engraftment of strictly anaerobic oxygen-sensitive bacteria in irritable bowel syndrome patients following fecal microbiota transplantation does not improve symptoms

    Browne, Patrick Denis, Cold, F., Petersen, Andreas Munk, Halkjær, S. I., Christensen, A. H., Günther, S. & Hansen, Lars Hestbjerg, 2021, In: Gut Microbes. 13, 1, 16 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  61. Published

    Enterococcus phage Nonaheksakonda infecting clinical isolates of Enterococcus faecalis represents a new lineage in the family Siphoviridae

    Olsen, Nikoline S., Nielsen, K. J., Plöger, M., Kot, Witold & Hansen, Lars Hestbjerg, 2021, In: Archives of Virology. 166, p. 593-599 7 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  62. Published

    Epigenetic Memories: The Hidden Drivers of Bacterial Persistence?

    Riber, Leise & Hansen, Lars Hestbjerg, 2021, In: Trends in Microbiology. 29, 3, p. 190-194 5 p.

    Research output: Contribution to journal › Editorial › Research

  63. Published

    Evolutionary conserved nitric oxide synthesis proteins responding to bacterial MAMPs are located to the endoplasmic reticulum and are also involved in secondary metabolite synthesis and sterol production

    Zheng, W., Li, H., Ipcho, S., Fang, W., Hennessy, Rosanna Catherine, Hansen, B. Ø., Lu, G., Wang, Z., Newman, M. & Olsson, S., 2021, Cold Spring Harbor Laboratory, 43 p. (bioRxiv).

    Research output: Working paper › Preprint › Research

  64. Published

    Exposure to heavy metal and antibiotic enriches antibiotic resistant genes on the tire particles in soil

    Ding, J., Zhu, D., Wang, Y., Wang, H., Liang, A., Sun, H., Chen, Q., Lassen, Simon Bo, Lv, M. & Chen, L., 2021, In: Science of the Total Environment. 792, 9 p., 148417.

    Research output: Contribution to journal › Journal article › Research › peer-review

  65. Published

    Extension of Plant Phenotypes by the Foliar Microbiome

    Hawkes, C. V., Kjøller, Rasmus, Raaijmakers, J. M., Riber, Leise, Christensen, Svend, Rasmussen, Simon, Christensen, Jan H., Dahl, A. B., Westergaard, Jesper Cairo, Nielsen, Mads, Brown-Guedira, G. & Hansen, Lars Hestbjerg, 2021, In: Annual Review of Plant Biology. 72, p. 823-846 24 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  66. Published

    Functional Characterization of Type III-A CRISPR-Cas in a Clinical Human Methicillin-R Staphylococcus aureus Strain

    Yang, L., Mikkelsen, K., Grané, O. L. I., Wang, Z., Tang, Y., Jiao, X., Ingmer, Hanne, Høyland-Kroghsbo, Nina Molin & Li, Q., 2021, In: CRISPR Journal. 4, 5, p. 686-698

    Research output: Contribution to journal › Journal article › Research › peer-review

  67. Published

    Global transcriptome analysis of Rhizobium favelukesii LPU83 in response to acid stress

    Nilsson, J. F., Castellani, L. G., Draghi, W. O., Mogro, E. G., Wibberg, D., Winkler, A., Hansen, Lars Hestbjerg, Schluüter, A., Puühler, A., Kalinowski, J., Tejerizo, G. A. T. & Pistorio, M., 2021, In: FEMS Microbiology Ecology. 97, 1, fiaa235.

    Research output: Contribution to journal › Journal article › Research › peer-review

  68. Published

    High throughput in vitro characterization of pectins for pig(let) nutrition

    Wiese, M., Hui, Y., Holck, J., Sejberg, J. J. P., Daures, C., Maas, E., Kot, Witold, Borne, J. M., Khakimov, Bekzod, Thymann, Thomas & Nielsen, Dennis Sandris, 2021, In: BMC Animal Microbiome. 3, 15 p., 69.

    Research output: Contribution to journal › Journal article › Research › peer-review

  69. Published

    Impaired skeletal muscle hypertrophy signaling and amino acid deprivation response in Apoe knockout mice with an unhealthy lipoprotein distribution

    Agergaard, J., Zillmer, M. C. F., Castro-Mejía, J. L., Mertz, K., Kot, Witold, Højfeldt, Grith Stougaard, van Hall, Gerrit, Nielsen, Dennis Sandris, Schjerling, Peter & Holm, Lars Morten, 2021, In: Scientific Reports. 11, 15 p., 16423.

    Research output: Contribution to journal › Journal article › Research › peer-review

  70. Published

    Influence of Environmental Factors on Occurrence of Cyanobacteria and Abundance of Saxitoxin-Producing Cyanobacteria in a Subtropical Drinking Water Reservoir in Brazil

    Moraes, M. A. B., Rodrigues, R. A. M., Schlüter, L., Podduturi, Raju, Jørgensen, Niels O. G. & Calijuri, M. C., 2021, In: Water. 13, 12, p. 1716

    Research output: Contribution to journal › Journal article › Research › peer-review

  71. Published

    Inter-vendor variance of enteric eukaryotic DNA viruses in specific pathogen free C57BL/6N mice

    Rasmussen, Torben Sølbeck, Jakobsen, Rasmus Riemer, Castro-Mejía, J. L., Kot, Witold, Thomsen, Allan Randrup, Vogensen, Finn Kvist, Nielsen, Dennis Sandris & Hansen, Axel Kornerup, 2021, In: Research in Veterinary Science. 136, p. 1-5 5 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  72. Published

    Isolate-Specific Effect of Entomopathogenic Endophytic Fungi on Population Growth of Two-Spotted Spider Mite (Tetranychus urticae Koch) and Levels of Steroidal Glycoalkaloids in Tomato

    Rasool, S., Cárdenas, Pablo D., Pattison, David, Jensen, Birgit & Meyling, Nicolai Vitt, 2021, In: Journal of Chemical Ecology. 47, 4-5, p. 476–488 13 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  73. Published

    Lead Drives Complex Dynamics of a Conjugative Plasmid in a Bacterial Community

    Cyriaque, V., Madsen, Jonas Stenløkke, Fievez, L., Leroy, B., Hansen, Lars Hestbjerg, Bureau, F., Sørensen, Søren Johannes & Wattiez, R., 2021, In: Frontiers in Microbiology. 12, 14 p., 655903.

    Research output: Contribution to journal › Journal article › Research › peer-review

  74. Published

    Metagenomic analysis of a keratin-degrading bacterial consortium provides insight into the keratinolytic mechanisms

    Kang, D., Huang, Y., Nesme, Joseph, Herschend, J., Jacquiod, S., Kot, Witold, Hansen, Lars Hestbjerg, Lange, L. & Sørensen, Søren Johannes, 2021, In: Science of the Total Environment. 761, 9 p., 143281.

    Research output: Contribution to journal › Journal article › Research › peer-review

  75. Published

    Metaviromes Reveal the Dynamics of Pseudomonas Host-Specific Phages Cultured and Uncultured by Plaque Assay

    Alanin, K. W. S., Forero Junco, Laura Milena, Jørgensen, J. B., Nielsen, Tue Kjærgaard, Rasmussen, Morten Arendt, Kot, Witold & Hansen, Lars Hestbjerg, 2021, In: Viruses. 13, 6, 21 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  76. Published

    Method for producing the sesquiterpene viridiflorol with a fungal enzyme

    Ntana, F., Collinge, David B., Hamberger, B. R., Bhat, W. W., Johnson, S. R., Jensen, Birgit & Jørgensen, Hans Jørgen Lyngs, 2021, IPC No. A61K-000/00, C12N-009/88, Patent No. WO2021050841-A2, 11 Sep 2020

    Research output: Patent

  77. Published

    Microbial water quality in pangasius and tilapia aquaculture systems in five regions of Bangladesh

    Islam, S. R., Ahsan, M. E., Haque, M. M., Razzak, M. A., Schlüter, L., Podduturi, Raju & Jørgensen, Niels O. G., 2021, In: Malaysian Journal of Microbiology. 17, 4, p. 435-451 17 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  78. Published

    Monitoring of saxitoxin production in lakes in Denmark by molecular, chromatographic and microscopic approaches

    Podduturi, Raju, Schlüter, L., Liu, T., Osti, J. A. S., Moraes, M. D. A. B. & Jørgensen, Niels O. G., 2021, In: Harmful Algae. 101, 101966.

    Research output: Contribution to journal › Journal article › Research › peer-review

  79. Published

    Novel virocell metabolic potential revealed in agricultural soils by virus-enriched soil metagenome analysis

    Braga, L. P. P., Coutinho, F. H., Amgarten, D. E., Kot, Witold, Hansen, Lars Hestbjerg, Setubal, J. C. & Philippot, L., 2021, In: Environmental Microbiology Reports. 13, 3, p. 348-354 7 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  80. Published

    Partial substitution of meat with insect (Alphitobius diaperinus) in a carnivore diet changes the gut microbiome and metabolome of healthy rats

    Lanng, S. K., Zhang, Yichang, Christensen, K. R., Hansen, Axel Kornerup, Nielsen, Dennis Sandris, Kot, Witold & Bertram, H. C., 2021, In: Foods. 10, 8, 14 p., 1814.

    Research output: Contribution to journal › Journal article › Research › peer-review

  81. Published

    Phosphate-solubilising microorganisms for improved crop productivity: a critical assessment

    Raymond, Nelly Sophie, Gomez-Munoz, B., van der Bom, Frederik, Nybroe, O., Jensen, Lars Stoumann, Müller-Stöver, Dorette Sophie, Oberson, A. & Richardson, A. E., 2021, In: New Phytologist. 229, 3, p. 1268-1277 10 p.

    Research output: Contribution to journal › Review › Research › peer-review

  82. Published

    Pre-clinical evaluation of the effect of co-medication with antibiotics and oral steroids in Gottingen Minipigs on the biological activity of the probiotic medicinal product TSO (Trichuris suis ova)

    Prosberg, M. V., Kringel, H., Kapel, J. S., Kapel, B. S., Fredensborg, Brian Lund, Petersen, Andreas Munk, Hansen, Lars Hestbjerg, Nielsen, Dennis Sandris, Kapel, H. S., Jacobsen, K. R., Mikkelsen, L. F. & Kapel, Christian, 2021, In: Parasitology Research. 120, p. 743-746

    Research output: Contribution to journal › Journal article › Research › peer-review

  83. Published

    Roadmap on emerging concepts in the physical biology of bacterial biofilms: from surface sensing to community formation

    Wong, G. C. L., Antani, J. D., Lele, P., Nan, B., Kühn, M. J., Persat, A., Bru, J-L., Høyland-Kroghsbo, N. M., Siryaporn, A., Conrad, J., Carrara, F., Yawata, Y., Stocker, R., Brun, Y., Whitfield, G., Lee, C., de Anda, J., Schmidt, W. C., Golestanian, R., O'Toole, G. A. & 21 others, Floyd, K., Yildiz, F., Yang, S., Jin, F., Toyofuku, M., Eberl, L., Nobuhiko, N., Zacharoff, L., El-Naggar, M. Y., Yalcin, S. E., Malvankar, N., Rojas-Andrade, M. D., Hochbaum, A., Yan, J., Stone, H. A., Wingreen, N. S., Bassler, B., Wu, Y., Xu, H., Drescher, K. & Dunkel, J., 2021, In: Physical Biology. 18, 5, 50 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  84. Published

    Root distribution in intercropping systems–a comparison of DNA based methods and visual distinction of roots

    Hassan, A., Dresbøll, Dorte Bodin, Rasmussen, Camilla Ruø, Lyhne-Kjærbye, A., Nicolaisen, Mette Haubjerg, Stokholm, M. S., Lund, O. S. & Thorup-Kristensen, Kristian, 2021, In: Archives of Agronomy and Soil Science. 67, 1, p. 15-28

    Research output: Contribution to journal › Journal article › Research › peer-review

  85. Published

    Seed inoculations with entomopathogenic fungi affect aphid populations coinciding with modulation of plant secondary metabolite profiles across plant families

    Rasool, S., Vidkjær, Nanna Hjort, Hooshmand, K., Jensen, Birgit, Fomsgaard, I. S. & Meyling, Nicolai Vitt, 2021, In: New Phytologist. 229, 3, p. 1715-1727 13 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  86. Published

    Short-term toxicity assessment of a triazine herbicide (terbutryn) underestimates the sensitivity of soil microorganisms

    Fernández-Calviño, D., Rousk, J., Bååth, E., Bollmann, U. E., Bester, K. & Brandt, Kristian Koefoed, 2021, In: Soil Biology and Biochemistry. 154, 108130.

    Research output: Contribution to journal › Journal article › Research › peer-review

  87. Published

    Site-specific, silicon-induced structural and molecular defence responses against powdery mildew infection in roses

    Shetty, R., Jensen, Birgit, Shelton, D., Jørgensen, Kirsten, Pedas, P. & Jørgensen, Hans Jørgen Lyngs, 2021, In: Pest Management Science. 77, 10, p. 4545-4554

    Research output: Contribution to journal › Journal article › Research › peer-review

  88. Published

    Subclinical necrotizing enterocolitis-induced systemic immune suppression in neonatal preterm pigs

    Ren, S., Pan, X., Hui, Y., Kot, Witold, Gao, Fei, Sangild, Per Torp & Nguyen, Duc Ninh, 2021, In: American Journal of Physiology - Gastrointestinal and Liver Physiology. 321, 1, p. G18-G28

    Research output: Contribution to journal › Journal article › Research › peer-review

  89. Published

    Succession of the fungal endophytic microbiome of wheat is dependent on tissue-specific interactions between host genotype and environment

    Latz, Meike, Kerrn, Mads Herbert, Sørensen, Helle, Collinge, David B., Jensen, Birgit, Brown, J. K. M., Madsen, A. M. & Jørgensen, Hans Jørgen Lyngs, 2021, In: Science of the Total Environment. 759, 11 p., 143804.

    Research output: Contribution to journal › Journal article › Research › peer-review

  90. Published

    Supplementation of a lacto-fermented rapeseed-seaweed blend promotes gut microbial- and gut immune-modulation in weaner piglets

    Hui, Y., Tamez-Hidalgo, P., Cieplak, T., Satessa, G. D., Kot, Witold, Kjærulff, S., Nielsen, M. O., Nielsen, Dennis Sandris & Krych, Lukasz, 2021, In: Journal of Animal Science and Biotechnology. 12, 14 p., 85.

    Research output: Contribution to journal › Journal article › Research › peer-review

  91. Published

    Systematic review with meta-analysis: encapsulated faecal microbiota transplantation - evidence for clinical efficacy

    Cold, F., Baunwall, S. M. D., Dahlerup, J. F., Petersen, Andreas Munk, Hvas, C. L. & Hansen, Lars Hestbjerg, 2021, In: Therapeutic Advances in Gastroenterology. 14, 19 p.

    Research output: Contribution to journal › Review › Research › peer-review

  92. Published

    The aerobiome uncovered: Multi-marker metabarcoding reveals potential drivers of turn-over in the full microbial community in the air

    de Groot, G. A., Geisen, S., Wubs, E. R. J., Meulenbroek, L., Laros, I., Snoek, L. B., Lammertsma, D. R., Hansen, Lars Hestbjerg & Slim, P. A., 2021, In: Environment International. 154, 106551.

    Research output: Contribution to journal › Journal article › Research › peer-review

  93. Published

    The complete genome of 2,6-dichlorobenzamide (BAM) degrader Aminobacter sp. MSH1 suggests a polyploid chromosome, phylogenetic reassignment, and functions of plasmids

    Nielsen, Tue Kjærgaard, Horemans, B., Lood, C., T’Syen, J., van Noort, V., Lavigne, R., Ellegaard-Jensen, L., Hylling, Ole, Aamand, J., Springael, D. & Hansen, Lars Hestbjerg, 2021, In: Scientific Reports. 11, 12 p., 18943.

    Research output: Contribution to journal › Journal article › Research › peer-review

  94. Published

    The effect of Quorum sensing inhibitors on the evolution of CRISPR-based phage immunity in Pseudomonas aeruginosa

    Broniewski, J. M., Chisnall, M. A. W., Høyland-Kroghsbo, Nina Molin, Buckling, A. & Westra, E. R., 2021, In: I S M E Journal. 15, p. 2465-2473

    Research output: Contribution to journal › Journal article › Research › peer-review

  95. Published

    The effect of faecal microbiota transplantation on abdominal pain, stool frequency, and stool form in patients with moderate-to-severe irritable bowel syndrome: results from a randomised, double-blind, placebo-controlled study

    Madsen, A. M. A., Halkjaer, S. I., Christensen, A. H., Guenther, S., Browne, Patrick Denis, Kallemose, T., Hansen, Lars Hestbjerg & Petersen, Andreas Munk, 2021, In: Scandinavian Journal of Gastroenterology. 56, 7, p. 761-769 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  96. Published

    The fungal endophyte Penicillium olsonii ML37 reduces Fusarium head blight by local induced resistance in wheat spikes

    Rojas Tayo, E. C., Jensen, Birgit, Jørgensen, Hans Jørgen Lyngs, Latz, Meike, Esteban, P. & Collinge, David B., 2021. 1 p.

    Research output: Contribution to conference › Conference abstract for conference › Research

  97. Published

    The gut microbiome and abiotic factors as potential determinants of postprandial glucose responses: A single-arm meal study

    Nestel, N., Hvass, J. D., Bahl, M. I., Hansen, Lars Hestbjerg, Krych, Lukasz, Nielsen, Dennis Sandris, Dragsted, Lars Ove & Roager, Henrik Munch, 2021, In: Frontiers in Nutrition. 7, 9 p., 594850.

    Research output: Contribution to journal › Journal article › Research › peer-review

  98. Published

    Yellow Tainting of Flesh in Pangasius (Pangasianodon hypophthalmus): Origin of the Color and Procedures for Removal

    Islam, S., Haque, M., Razzak, M., Schlüter, L., Ahsan, E., Podduturi, Raju & Jørgensen, Niels O. G., 2021, In: Aquatic Science and Engineering. 36, 4, p. 193-201

    Research output: Contribution to journal › Journal article › Research › peer-review

  99. 2020
  100. Published

    Serratia inhibens sp. nov., a new antifungal species isolated from potato (Solanum tuberosum)

    Hennessy, Rosanna Catherine, Dichmann, S. I., Martens, Helle Jakobe, Zervas, A. & Stougaard, P., 17 Jun 2020, In: International Journal of Systematic and Evolutionary Microbiology. 70, 7, p. 4204-4211 8 p., 004270.

    Research output: Contribution to journal › Journal article › Research › peer-review

  101. Published

    Association of Dietary Patterns with Testicular Function in Young Danish Men

    Nassan, F. L., Jensen, T. K., Priskorn, L., Halldorsson, T. I., Chavarro, J. E. & Jørgensen, Niels O. G., 21 Feb 2020, In: JAMA Network Open. 3, 2, 16 p., e1921610.

    Research output: Contribution to journal › Journal article › Research › peer-review

  102. Published

    Bacterial Plant Pathogens

    Perssona, P., Pirhonen, M. & Collinge, David B., 1 Jan 2020, Fungal-Like Plant Pathogens. CABI International, p. 89-106 18 p.

    Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

  103. Published

    Biological Control of Plant Diseases

    Tronsmo, A., Collinge, David B., Alabouvette, C. & Jensen, Dan Funck, 1 Jan 2020, Fungal-Like Plant Pathogens. CABI International, p. 289-306 18 p.

    Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

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