Microbial Ecology and Biotechnology

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  1. Published

    Swarming of P. aeruginosa: Through the lens of biophysics

    Bru, J., Kasallis, S. J., Zhuo, Q., Høyland-Kroghsbo, Nina Molin & Siryaporn, A., 2023, In: Biophysics reviews. 4, 3, 18 p., 031305.

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

  2. Published

    Fecal filtrate transplantation protects against necrotizing enterocolitis

    Brunse, Anders, Deng, Ling, Pan, X., Hui, Y., Castro Mejia, J. L., Kot, Witold, Nguyen, Duc Ninh, Secher, Jan Bojsen-Møller, Nielsen, Dennis Sandris & Thymann, Thomas, 2022, In: The ISME Journal. 16, p. 686–694

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

  3. Published

    Purification, characterization, and molecular cloning of basic PR-1-type pathogenesis-related proteins from barley

    Bryngelsson, T., Sommer-Knudsen, J., Gregersen, P. L., Collinge, David B., Ek, B. & Thordal-Christensen, Hans, 1 Jan 1994, In: Molecular Plant-Microbe Interactions. 7, 2, p. 267-275 9 p.

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

  4. Published

    Do contaminants compromise the use of recycled nutrients in organic agriculture? A review and synthesis of current knowledge on contaminant concentrations, fate in the environment and risk assessment

    Bünemann, E. K., Reimer, M., Smolders, E., Smith, S. R., Bigalke, M., Palmqvist, A., Brandt, Kristian Koefoed, Möller, K., Harder, R., Hermann, L., Speiser, B., Oudshoorn, F., Løes, A. K. & Magid, Jakob, 2024, In: Science of the Total Environment. 912, 18 p., 168901.

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

  5. Published

    A novel six-phage cocktail reduces Pectobacterium atrosepticum soft rot infection in potato tubers under simulated storage conditions

    Carstens, Alexander Byth, Djurhuus, Amaru Miranda, Kot, Witold & Hansen, Lars Hestbjerg, 1 May 2019, In: FEMS Microbiology Letters. 366, 9, p. 1-8 fnz101.

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

  6. Published

    Physical fitness in community-dwelling older adults is linked to dietary intake, gut microbiota, and metabolomic signatures

    Castro-Mejia, J. L., Khakimov, B., Krych, L., Bülow, J., Bechshøft, R. L., Højfeldt, G., Mertz, K. H., Garne, E. S., Schacht, S. R., Ahmad, H. F., Kot, W., Hansen, L. H., Perez-Cueto, F. J. A., Lind, M. V., Lassen, A. J., Tetens, I., Jensen, T., Reitelseder, S., Jespersen, A. P., Holm, L. & 2 others, Engelsen, Søren Balling & Nielsen, Dennis Sandris, 2020, In: Aging Cell. 19, 3, 13 p., e13105.

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

  7. Published

    Restitution of gut microbiota in Ugandan children administered with probiotics (Lactobacillus rhamnosus GG and Bifidobacterium animalis subsp. lactis BB-12) during treatment for severe acute malnutrition

    Castro-Mejía, J. L., O’Ferrall, S., Krych, Lukasz, O’Mahony, E., Namusoke, H., Lanyero, B., Kot, Witold, Nabukeera-Barungi, N., Michaelsen, Kim F., Mølgaard, Christian, Friis, Henrik, Grenov, Benedikte & Nielsen, Dennis Sandris, 2020, In: Gut Microbes. 11, 4, p. 855-867 13 p.

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

  8. Published

    Gut Microbiome and Its Cofactors Are Linked to Lipoprotein Distribution Profiles

    Castro-Mejía, J. L., Khakimov, Bekzod, Aru, Violetta, Lind, M. V., Garne, E., 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

  9. Published

    Effects of Intra- and Interspecific Plant Density on Rhizosphere Bacterial Communities

    Cavalieri, Andrea, Bak, Frederik, Garcia-Lemos, A. M., Weiner, Jacob, Nicolaisen, Mette Haubjerg & Nybroe, O., 2020, In: Frontiers in Microbiology. 11, 14 p., 1045.

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

  10. Published

    Insights on strain 115 plant growth-promoting bacteria traits and its contribution in lead stress alleviation in pea (Pisum sativum L.) plants

    Chamekh, Anissa, Kharbech, O., Fersi, C., Driss Limam, R., Brandt, Kristian Koefoed, Djebali, W. & Chouari, R., 2023, In: Archives of Microbiology. 205, 12 p., 1.

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

  11. Published

    “Impacts of treated wastewater on soil properties with special reference to the soil microbiome and resistome in irrigated Tunisian agricultural soils”.

    Chamekh, Anissa, 2023, Department of Plant and Environmental Sciences, Faculty of Science, University of Copenhagen. 159 p.

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

  12. Published

    An underappreciated hotspot of antibiotic resistance: the groundwater near the municipal solid waste landfill

    Chen, Q., Li, H., Zhou, X., Zhao, Y., Su, J., Zhang, X. & Huang, F., 2017, In: Science of the Total Environment. 609, p. 966-973 8 p.

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

  13. 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

  14. E-pub ahead of print

    A data-driven genome annotation approach for cassava

    Chenna, Swetha, Ivanov, M., Nielsen, Tue Kjærgaard, Chalenko, Karina, Olsen, Evy, Jørgensen, Kirsten, Sandelin, Albin Gustav & Marquardt, Sebastian, 2024, (E-pub ahead of print) In: Plant Journal.

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

  15. Published

    A flavonoid 7-O-methyltransferase is expressed in barely leaves in response to pathogen attack

    Christensen, Anders, Gregersen, P. L., Olsen, C. E. & Collinge, David B., 1 Jan 1998, In: Plant Molecular Biology. 36, 2, p. 219-227 9 p.

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

  16. Published

    The molecular characterization of two barley proteins establishes the novel PR-17 family of pathogenesis-related proteins

    Christensen, A. B., Cho, B., Naesby, M., Gregersen, P., Brandt, J., Madriz Ordenana, Kenneth, Collinge, David B. & Thordal-Christensen, Hans, May 2002, In: Molecular Plant Pathology. 3, 3, p. 135-144

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

  17. Published

    Methane fluxes and the functional groups of methanotrophs and methanogens in a young Arctic landscape on Disko Island, West Greenland

    Christiansen, Jesper Riis, Barrera Romero, A. J., Jørgensen, Niels O. G., Glaring, M. A., Jørgensen, C. J., Berg, L. K. & Elberling, Bo, 2015, In: Biogeochemistry. 122, 1, p. 15-33 19 p.

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

  18. Published

    Fungal-associated molecules induce key genes involved in the biosynthesis of the antifungal secondary metabolites nunamycin and nunapeptin in the biocontrol strain Pseudomonas fluorescens In5

    Christiansen, L., Alanin, K. W. S., Phippen, C., Olsson, S., Stougaard, P. & Hennessy, Rosanna Catherine, 2020, In: Applied and Environmental Microbiology. 86, 14 p., e01284-20.

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

  19. Published

    A Multifunctional Polysaccharide Utilization Gene Cluster in Colwellia echini Encodes Enzymes for the Complete Degradation of κ-Carrageenan, ι-Carrageenan, and Hybrid β/κ-Carrageenan

    Christiansen, L., Pathiraja, D., Bech, P. K., Schultz-Johansen, M., Hennessy, Rosanna Catherine, Teze, D., Choi, I. & Stougaard, P., 2020, In: mSphere. 5, 1, 16 p., e00792-19.

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

  20. Published

    Colwellia echini sp. nov., an agar- and carrageenan-solubilizing bacterium isolated from sea urchin

    Christiansen, L., Bech, P. K., Schultz-Johansen, M., Martens, Helle Jakobe & Stougaard, P., 2018, In: International Journal of Systematic and Evolutionary Microbiology. 68, 2, p. 687-691 5 p.

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

  21. Published

    Insights into mixed contaminants interactions and its implication for heavy metals and metalloids mobility, bioavailability and risk assessment

    Cipullo, S., Snapir, B., Tardif, S., Campo, P., Prpich, G. & Coulon, F., 2018, In: Science of the Total Environment. 645, p. 662-673

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

  22. Published

    Linking bioavailability and toxicity changes of complex chemicals mixture to support decision making for remediation endpoint of contaminated soils

    Cipullo, S., Negrin, I., Claveau, L., Snapir, B., Tardif, S., Pulleyblank, C., Prpich, G., Campo, P. & Coulon, F., 10 Feb 2019, In: Science of the Total Environment. 650, Part 2, p. 2150-2163 14 p.

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

  23. Published

    Bakteriofagterapi

    Cold, F., Olsen, N. S., Djurhuus, Amaru Miranda & Djurhuus, Amaru Miranda, 2020, In: Ugeskrift for Laeger. 12, 9 p., V01200041.

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

  24. 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

  25. Published

    Fecal Microbiota Transplantation in the Treatment of Chronic Pouchitis: A Systematic Review

    Cold, F., Kousgaard, S. J., Halkjaer, S. I., Petersen, Andreas Munk, Nielsen, H. L., Thorlacius-Ussing, O. & Hansen, Lars Hestbjerg, 2020, In: Microorganisms. 8, 9, 17 p., 1433.

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

  26. Published

    Sepsis-related Organ Failure Assessment Score is a strong predictor of survival in acute-on-chronic liver failure

    Cold, F., Schiødt, Frank Vinholt, Pott, Frank Christian, Strandkjær, N. & Christensen, E., 2019, In: Danish Medical Journal. 66, 8, 5 p., A5557.

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

  27. 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

  28. 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

  29. 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

  30. 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

  31. Published

    The nature of induced defences in plants

    Collinge, David B., Andersen, C. H., Bryngelsson, T., Bentsen Christensen, A., Gregersen, P. L., Madriz Ordenana, Kenneth, Smedegaard-Petersen, V., Zhang, Z. & Thordal-Christensen, Hans, 1995, In: Aktuelt fra Skogforsk. 6, p. 4-5 2 p.

    Research output: Contribution to journal › Journal article › Communication

  32. Published

    The responses of plants to pathogens

    Collinge, David B., Borch, J., Madriz Ordenana, Kenneth & Newman, Mari-Anne, 2001, Molecular analysis of plant adaptation to the environment. Hawkesford, M. J. & Buchner, P. (eds.). Kluwer Academic Publishers Group, Vol. 1. p. 131-158 28 p.

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

  33. 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

  34. 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

  35. Published

    Mechanisms of Pathogenicity

    Collinge, David B. & Taylor, P., 2020, Fungal-Like Plant Pathogens. CABI International, p. 185-204 20 p.

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

  36. Published

    Plant Defence Against Pathogens

    Collinge, David B., 1 Jan 2020, Fungal-Like Plant Pathogens. CABI International, p. 205-215 11 p.

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

  37. Published

    Biological control of plant diseases – what has been achieved and what is the direction?

    Collinge, David B., Jensen, Dan Funck, Rabiey, M., Sarrocco, S., Shaw, M. W. & Shaw, R., 2022, In: Plant Pathology. 71, 5, p. 1024-1047

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

  38. Published

    Searching for novel fungal biological control agents for plant disease control among endophytes

    Collinge, David B., Jørgensen, Hans Jørgen Lyngs, Latz, Meike, Manzotti, A., Ntana, F., Rojas Tayo, E. C. & Jensen, Birgit, 2019, Endophytes for a growing world. Hodkinson, T., Doohan, F., Saunders, M. & Murphy, B. (eds.). Cambridge University Press, p. 25-51 17 p.

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

  39. Published

    Biotechnology for Plant Disease Control

    Collinge, David B., 1 Jan 2020, Fungal-Like Plant Pathogens. CABI International, p. 321-329 9 p.

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

  40. Published

    From BCA discovery in cereals to biological control of Fusarium head blight

    Collinge, David B., Khairoullina, A., Jørgensen, Hans Jørgen Lyngs & Jensen, Birgit, 2023, p. 58-59. 1 p.

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

  41. Published

    Evidence that linamarin and lotaustralin, the two cyanogenic glucosides of Trifolium repens L., are synthesized by a single set of microsomal enzymes controlled by the Ac/ac locus

    Collinge, David B. & Hughes, M. A., 1 Jan 1984, In: Plant Science Letters. 34, 1-2, p. 119-125 7 p.

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

  42. Published

    Transgenic crops and beyond: how can biotechnology contribute to the sustainable control of plant diseases?: Biotechnology for plant disease control: GMOs and beyond

    Collinge, David B., 2018, In: European Journal of Plant Pathology. 152, 4, p. 977-986 10 p.

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

  43. Published

    In vitro characterization of the Ac locus in white clover (Trifolium repens L.)

    Collinge, David B. & Hughes, M. A., 1 Oct 1982, In: Archives of Biochemistry and Biophysics. 218, 1, p. 38-45 8 p.

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

  44. Published

    Race Specificity and Plant Immunity

    Collinge, David B., 1 Jan 2020, Fungal-Like Plant Pathogens. CABI International, p. 216-233 18 p.

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

  45. Published

    The status and prospects for biotechnological approaches for attaining sustainable disease resistance

    Collinge, David B., Mullins, E., Jensen, Birgit & Jørgensen, Hans Jørgen Lyngs, 2016, Plant pathogen resistance biotechnology. Collinge, D. B. (ed.). Wiley-Blackwell, p. 1-20 20 p.

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

  46. Published

    Plant chitinases

    Collinge, David B., Kragh, K. M., Mikkelsen, J. D., Nielsen, K. K., Rasmussen, U. & Vad, K., 1 Jan 1993, In: Plant Journal. 3, 1, p. 31-40 10 p.

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

  47. Published

    Plant pathogen resistance biotechnology

    Collinge, David B. (ed.), 2016, Wiley-Blackwell. 405 p.

    Research output: Book/Report › Book › Research › peer-review

  48. Published

    Foreword

    Collinge, David B., 8 Apr 2016, Plant Pathogen Resistance Biotechnology. Wiley-Blackwell, p. xix-xxiii

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

  49. Published

    The environmental occurrence of Pseudomonas aeruginosa

    Crone, S., Vives-Flórez, M., Kvich, Lasse Andersson, Saunders, A. M., Malone, M., Nicolaisen, Mette Haubjerg, Martínez-García, E., Rojas-Acosta, C., Catalina Gomez-Puerto, M., Calum, Henrik Pierre, Whiteley, M., Kolter, R. & Bjarnsholt, Thomas, 2020, In: APMIS. 128, 3, p. 220-231

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

  50. Published

    The root external mycelium of mycorrhizal fungi has a key role in plant nutrition but is suppressed by the soil microbiota

    Cruz Paredes, C., Watts-Williams, S. J., Battini, F., Joner, E. J., Svenningsen, N. B., Dela Cruz, Majbrit, Christensen, Jan H., Nybroe, O. & Jakobsen, Iver, 2017, Proceedings Book: XVIII International Plant Nutrition Colloquium with Boron and Manganese Satellite Meetings. Carstensen, A., Laursen, K. H. & Schjoerring, J. K. (eds.). University of Copenhagen, p. 116-117 2 p.

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

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