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

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