- 2023
- Published
- Published
Use of Probiotics to Control Biofilm Formation in Food Industries
Tomé, A. R., Carvalho, F. M., Teixeira-Santos, R., Burmølle, Mette, Mergulhão, F. J. M. & Gomes, L. C., 2023, In: Antibiotics. 12, 4, 17 p., 754.Research output: Contribution to journal › Review › Research › peer-review
- Published
Warmer winters result in reshaping of the European beech forest soil microbiome (bacteria, archaea and fungi) - With potential implications for ecosystem functioning
Dahl, M. B., Kreyling, J., Petters, S., Wang, H., Mortensen, M. S., Maccario, Lorrie, Sørensen, Søren Johannes, Urich, T. & Weigel, R., 2023, In: Environmental Microbiology. 25, 6, 18 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
When less is more: shortening the Lpp protein leads to increased vancomycin resistance in Escherichia coli
Wykes, H., Le, Van Hung Vuong, Olivera, Catrina Diane Peralta & Rakonjac, J., 2023, In: Journal of Antibiotics. 76, p. 746-750 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
基于 QMEC 分析的青藏高原不同类型冰川前缘地土壤微生物功能潜力
Zhang, J. J., Priemé, Anders, Chen, X. K., Zhou, H. C., Zhang, Q. W., Zhuang, X. L., Qin, X., Zhuang, G. Q. & Ma, A. Z., 2023, In: Huanjing Kexue/Environmental Science. 44, 1, p. 512-519 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2022
- Published
UG/Abi: a highly diverse family of prokaryotic reverse transcriptases associated with defense functions
Rodríguez Mestre, Mario, Gao, L. A., Shah, S. A., López-Beltrán, A., González-Delgado, A., Martínez-Abarca, F., Iranzo, J., Redrejo-Rodríguez, M., Zhang, F. & Toro, N., 24 Jun 2022, In: Nucleic Acids Research. 50, 11, p. 6084-6101 18 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A novel and affordable bioaugmentation strategy with microbial extracts to accelerate the biodegradation of emerging contaminants in different media
Aguilar-Romero, I., van Dillewijn, P., Nesme, Joseph, Sørensen, Søren Johannes, Nogales, R., Delgado-Moreno, L. & Romero, E., 2022, In: Science of the Total Environment. 834, 10 p., 155234.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A short prokaryotic Argonaute activates membrane effector to confer antiviral defense
Zeng, Z., Chen, Y., Pinilla Redondo, Rafael, Shah, S. A., Zhao, F., Wang, C., Hu, Z., Wu, C., Zhang, C., Whitaker, R. J., She, Q. & Han, W., 2022, In: Cell Host and Microbe. 30, 7, p. 930-943.e6 21 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
An easily modifiable conjugative plasmid for studying horizontal gene transfer
Wang, Q., Olesen, Asmus Kalckar, Maccario, Lorrie & Madsen, Jonas Stenløkke, 2022, In: Plasmid. 123-124, 10 p., 102649.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Arctic soil respiration and microbial community structure driven by silicon and calcium
Stimmler, P., Priemé, Anders, Elberling, Bo, Goeckede, M. & Schaller, J., 2022, In: Science of the Total Environment. 838, 2, 10 p., 156152.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Artificial selection of stable rhizosphere microbiota leads to heritable plant phenotype changes
Jacquiod, S., Spor, A., Wei, S., Munkager, V., Bru, D., Sørensen, Søren Johannes, Salon, C., Philippot, L. & Blouin, M., 2022, In: Ecology Letters. 25, 1, p. 189-201 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Asthma and Wheeze Severity and the Oropharyngeal Microbiota in Children and Adolescents
Thorsen, J., Stokholm, J., Rasmussen, M. A., Roggenbuck-Wedemeyer, M., Vissing, N. H., Mortensen, M. S., Brejnrod, A. D., Fleming, L., Bush, A., Roberts, G., Singer, F., Frey, U., Hedlin, G., Nordlund, B., Murray, C. S., Abdel-Aziz, M. I., Hashimoto, S., van Aalderen, W., Maitland-van der Zee, A. H., Shaw, D. & 13 others, , 2022, In: Annals of the American Thoracic Society. 19, 12, p. 2031-2043 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Barley Rhizosphere Microbiome Transplantation: A Strategy to Decrease Susceptibility of Barley Grown in Soils With Low Microbial Diversity to Powdery Mildew
Bziuk, N., Maccario, Lorrie, Sørensen, Søren Johannes, Schikora, A. & Smalla, K., 2022, In: Frontiers in Microbiology. 13, 14 p., 830905.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Biofilm cultivation facilitates coexistence and adaptive evolution in an industrial bacterial community
Henriksen, N. N. S. E., Hansen, Mads Frederik, Kiesewalter, Heiko T., Russel, J., Nesme, Joseph, Foster, K. R., Svensson, B., Øregaard, G., Herschend, J. & Burmølle, Mette, 2022, In: npj Biofilms and Microbiomes. 8, 8 p., 59.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Biosolids for safe land application: does wastewater treatment plant size matters when considering antibiotics, pollutants, microbiome, mobile genetic elements and associated resistance genes?
Wolters, B., Hauschild, K., Blau, K., Mulder, I., Heyde, B. J., Sørensen, Søren Johannes, Siemens, J., Jechalke, S., Smalla, K. & Nesme, Joseph, 2022, In: Environmental Microbiology. 24, 3, p. 1573-1589 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
CRISPR-Cas systems are widespread accessory elements across bacterial and archaeal plasmids
Pinilla Redondo, Rafael, Russel, J., Mayo-Muñoz, D., Shah, S. A., Garrett, Roger Antony, Nesme, Joseph, Madsen, Jonas Stenløkke, Fineran, P. C. & Sørensen, Søren Johannes, 2022, In: Nucleic Acids Research. 50, 8, p. 4315-4328Research output: Contribution to journal › Journal article › Research › peer-review
- Published
CRISPR-Cas12a targeting of ssDNA plays no detectable role in immunity
Marino, N. D., Pinilla Redondo, Rafael & Bondy-Denomy, J., 2022, In: Nucleic acids symposium series. 50, 11, p. 6414-6422 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Can multi-species biofilms defeat antimicrobial surfaces on medical devices?
Ramstedt, M. & Burmølle, Mette, 2022, In: Current Opinion in Biomedical Engineering. 22, 8 p., 100370.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Combining reverse osmosis and microbial degradation for remediation of drinking water contaminated with recalcitrant pesticide residue
Schostag, M. D., Gobbi, Alex, Fini, M. N., Ellegaard-Jensen, L., Aamand, J., Hansen, Lars Hestbjerg, Muff, J. & Albers, C. N., 2022, In: Water Research. 216, 12 p., 118352.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Critical Assessment of Metagenome Interpretation: the second round of challenges
Meyer, F., Fritz, A., Deng, Z. L., Koslicki, D., Lesker, T. R., Gurevich, A., Robertson, G., Alser, M., Antipov, D., Beghini, F., Bertrand, D., Brito, J. J., Brown, C. T., Buchmann, J., Buluç, A., Chen, B., Chikhi, R., Clausen, P. T. L. C., Cristian, A., Dabrowski, P. W. & 83 others, , 2022, In: Nature Methods. 19, 4, p. 429-440Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Deciphering bacteria associated with a pre-parasitic stage of the root-knot nematode Meloidogyne hapla in nemato-suppressive and nemato-conducive soils
Topalović, O., Santos, S. S., Heuer, H., Nesme, Joseph, Kanfra, X., Hallmann, J., Sørensen, Søren Johannes & Vestergård, M., 2022, In: Applied Soil Ecology. 172, 9 p., 104344.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Deciphering horizontal transfer of plasmids and β-lactamase protection in microbial communities
Olesen, Asmus Kalckar, 2022, Department of Biology, Faculty of Science, University of Copenhagen. 180 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
Donor-dependent fecal microbiota transplantation efficacy against necrotizing enterocolitis in preterm pigs
Hui, Y., Vestergaard, G., Deng, Ling, Kot, Witold, Thymann, Thomas, Brunse, Anders & Nielsen, Dennis Sandris, 2022, In: npj Biofilms and Microbiomes. 8, 1, 12 p., 48.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Enhanced Antibiotic Tolerance of an In Vitro Multispecies Uropathogen Biofilm Model, Useful for Studies of Catheter‐Associated Urinary Tract Infections
Hou, J., Wang, L., Alm, M., Thomsen, P., Monsen, T., Ramstedt, M. & Burmølle, Mette, 2022, In: Microorganisms. 10, 6, 15 p., 1207.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Exudates from Miscanthus x giganteus change the response of a root-associated Pseudomonas putida strain towards heavy metals
Zadel, U., Cruzeiro, C., Raj Durai, A. C., Nesme, Joseph, May, R., Balázs, H., Michalke, B., Płaza, G., Schröder, P., Schloter, M. & Radl, V., 2022, In: Environmental Pollution. 313, 13 p., 119989.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Genome binning of viral entities from bulk metagenomics data
Johansen, Joachim, Plichta, D. R., Nissen, J. N., Jespersen, Marie Louise, Shah, S. A., Deng, Ling, Stokholm, Jakob, Bisgaard, H., Nielsen, Dennis Sandris, Sørensen, Søren Johannes & Rasmussen, Simon, 2022, In: Nature Communications. 13, 12 p., 965.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
High nitrogen-fixing rates associated with ground-covering mosses in a tropical mountain cloud forest will decrease drastically in a future climate
Permin, Aya Tora Foged, Horwath, A. B., Metcalfe, D. B., Priemé, Anders & Rousk, Kathrin, 2022, In: Functional Ecology. 36, 7, p. 1772-1781 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Horizontal Gene Transfer of an IncP1 Plasmid to Soil Bacterial Community Introduced by Escherichia coli through Manure Amendment in Soil Microcosms
Macedo, G., Olesen, Asmus Kalckar, Maccario, Lorrie, Leal, L. H., v. d. Maas, P., Heederik, D., Mevius, D., Sørensen, Søren Johannes & Schmitt, H., 2022, In: Environmental Science & Technology. 56, 16, p. 11398-11408 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Impact of intensive lifestyle intervention on gut microbiota composition in type 2 diabetes: a post-hoc analysis of a randomized clinical trial
Wei, S., Brejnrod, A. D., Trivedi, Urvish, Mortensen, M. S., Johansen, M. Y., Karstoft, Kristian, Vaag, A. A., Ried-Larsen, M. & Sørensen, Søren Johannes, 2022, In: Gut Microbes. 14, 1, 15 p., 2005407.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Importance of substrate quality and clay content on microbial extracellular polymeric substances production and aggregate stability in soils
Olagoke, F. K., Bettermann, A., Nguyen, P. T. B., Redmile-Gordon, M., Babin, D., Smalla, K., Nesme, Joseph, Sørensen, Søren Johannes, Kalbitz, K. & Vogel, C., 2022, In: Biology and Fertility of Soils. 58, 4, p. 435-457 23 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
IncHI1A plasmids potentially facilitate horizontal flow of antibiotic resistance genes to pathogens in microbial communities of urban residential sewage
Olesen, Asmus Kalckar, Pinilla Redondo, Rafael, Hansen, Mads Frederik, Russel, J., Dechesne, A., Smets, B. F., Madsen, Jonas Stenløkke, Nesme, Joseph & Sørensen, Søren Johannes, 2022, In: Molecular Ecology. 31, 5, p. 1595-1608Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Influence of sewage sludge stabilization method on microbial community and the abundance of antibiotic resistance genes
Major, N., Jechalke, S., Nesme, Joseph, Goreta Ban, S., Černe, M., Sørensen, Søren Johannes, Ban, D., Grosch, R., Schikora, A. & Schierstaedt, J., 2022, In: Waste Management. 154, p. 126-135 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Iron oxide coated sand (IOS): Scale-up analysis and full-scale application for phosphorus removal from goat farm wastewater
Zhang, R., Wang, L., Lakho, F. H., Yang, X., Depuydt, V., Igodt, W., Le, H. Q., Rousseau, D. P. L. & Van Hulle, S., 2022, In: Separation and Purification Technology. 284, 10 p., 120213.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Long-Range PCR Reveals the Genetic Cargo of IncP-1 Plasmids in the Complex Microbial Community of an On-Farm Biopurification System Treating Pesticide-Contaminated Wastewater
Dunon, V., Holmsgaard, P. N., Dealtry, S., Lavigne, R., Sørensen, Søren Johannes, Smalla, K., Top, E. M. & Springael, D., 2022, In: Applied and Environmental Microbiology. 88, 3, 17 p., e01648-21.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Long-Term Fertilization Strategy Impacts Rhizoctonia solani–Microbe Interactions in Soil and Rhizosphere and Defense Responses in Lettuce
Sommermann, L., Babin, D., Behr, J. H., Chowdhury, S. P., Sandmann, M., Windisch, S., Neumann, G., Nesme, Joseph, Sørensen, Søren Johannes, Schellenberg, I., Rothballer, M., Geistlinger, J., Smalla, K. & Grosch, R., 2022, In: Microorganisms. 10, 9, 27 p., 1717.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Metabolic Profiling of Interspecies Interactions During Sessile Bacterial Cultivation Reveals Growth and Sporulation Induction in Paenibacillus amylolyticus in Response to Xanthomonas retroflexus
Herschend, J., Ernst, M., Koren, K., Melnik, A. V., da Silva, R. R., Røder, Henriette Lyng, Damholt, Z. B. V., Hägglund, Per Mårten, Svensson, B., Sørensen, Søren Johannes, Kühl, Michael, Dorrestein, P. C. & Burmølle, Mette, 2022, In: Frontiers in Cellular and Infection Microbiology. 12, 17 p., 805473.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Metagenomic evidence for co-occurrence of antibiotic, biocide and metal resistance genes in pigs
Li, Xuan Ji, Rensing, C., Vestergaard, G., Arumugam, Mani, Nesme, Joseph, Gupta, S., Brejnrod, A. D. & Sørensen, Søren Johannes, 2022, In: Environment International. 158, 10 p., 106899.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Microbial Interactions in Electroactive Biofilms for Environmental Engineering Applications: A Role for Nonexoelectrogens
Fessler, M., Madsen, Jonas Stenløkke & Zhang, Y., 2022, In: Environmental Science & Technology. 56, 22, p. 15273-15279 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Nanofiltration as an Efficient Tertiary Wastewater Treatment: Elimination of Total Bacteria and Antibiotic Resistance Genes from the Discharged Effluent of a Full-Scale Wastewater Treatment Plant
Oliveira, M., Leonardo, I. C., Silva, A. F., Crespo, J. G., Nunes, M. & Crespo, M. T. B., 2022, In: Antibiotics. 11, 5, 12 p., 630.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Nanopore-based long-read metagenomics uncover the resistome intrusion by antibiotic resistant bacteria from treated wastewater in receiving water body
Wu, Bruce, Che, Y., Dang, C., Zhang, M., Zhang, X., Sun, Y., Li, X., Zhang, T. & Xia, Y., 2022, In: Water Research. 226, 10 p., 119282.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Neonatal metabolome of caesarean section and risk of childhood asthma
Gürdeniz, G., Ernst, M., Rago, D., Kim, M., Courraud, J., Stokholm, Jakob, Bønnelykke, Klaus, Björkbom, A., Trivedi, Urvish, Sørensen, Søren Johannes, Brix, Susanne, Hougaard, D., Rasmussen, Morten Arendt, Cohen, A. S., Bisgaard, H. & Chawes, Bo Lund Krogsgaard, 2022, In: The European Respiratory Journal. 59, 6, 11 p., 2102406.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Phage-inducible chromosomal islands promote genetic variability by blocking phage reproduction and protecting transductants from phage lysis
Ibarra Chavez, Rodrigo, Brady, A., Chen, J., Penadés, J. R. & Haag, A. F., 2022, In: PLOS Genetics. 18, 3, 18 p., e1010146.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Prophylactic treatment of breast implants with a solution of gentamicin, vancomycin and cefazolin antibiotics for women undergoing breast reconstructive surgery: protocol for a randomised, double-blind, placebo-controlled trial (The BREAST-AB trial)
Hemmingsen, M. N., Larsen, A., Weltz, T. K., Ørholt, M., Wiberg, S., Bennedsen, A. K., Bille, C., Carstensen, L. F., Jensen, L. T., Bredgaard, R., Koudahl, V., Schmidt, Volker-Jürgen, Vester-Glowinski, Peter Viktor, Hølmich, Lisbet Rosenkrantz, Sørensen, Søren Johannes, Bjarnsholt, Thomas, Damsgaard, Tine M Engberg & Herly, Mikkel, 2022, In: BMJ Open. 12, 9, p. e058697Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Quantification and fate of plasmid-specific bacteriophages in wastewater: Beyond the F-coliphages
He, Z., Parra, B., Nesme, Joseph, Smets, B. F. & Dechesne, A., 2022, In: Water Research. 227, 8 p., 119320.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Rapid Response to Experimental Warming of a Microbial Community Inhabiting High Arctic Patterned Ground Soil
Newsham, K. K., Danielsen, Birgitte Kortegaard, Biersma, Elisabeth M., Elberling, Bo, Hillyard, G., Kumari, P., Priemé, Anders, Woo, C. & Yamamoto, N., 2022, In: Biology. 11, 12, 17 p., 1819.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Soil texture is a stronger driver of the maize rhizosphere microbiome and extracellular enzyme activities than soil depth or the presence of root hairs
Yim, B., Ibrahim, Z., Rüger, L., Ganther, M., Maccario, Lorrie, Sørensen, Søren Johannes, Heintz-Buschart, A., Tarkka, M. T., Vetterlein, D., Bonkowski, M., Blagodatskaya, E. & Smalla, K., 2022, In: Plant and Soil. 478, 1-2, p. 229-251 23 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The Wastewater Plasmidome and its Derived Resistome: Insight Into Their Dynamics in the Urban Water Systems
Yu, Z., 2022, Department of Biology, Faculty of Science, University of Copenhagen. 196 p.Research output: Book/Report › Ph.D. thesis › Research
- Published
The biofilm life cycle: expanding the conceptual model of biofilm formation
Sauer, K., Stoodley, P., Goeres, D. M., Hall-Stoodley, L., Burmølle, Mette, Stewart, P. S. & Bjarnsholt, Thomas, 2022, In: Nature Reviews Microbiology. 20, 10, p. 608-620 13 p.Research output: Contribution to journal › Review › Research › peer-review
- Published
The developing airway and gut microbiota in early life is influenced by age of older siblings
Christensen, E. D., Hjelmsø, M. H., Thorsen, Jonathan Jan Ilve, Shah, S., Redgwell, T., Poulsen, Christina Egeø, Trivedi, Urvish, Russel, J., Gupta, S., Chawes, Bo Lund Krogsgaard, Bønnelykke, Klaus, Sørensen, Søren Johannes, Rasmussen, Morten Arendt, Bisgaard, H. & Stokholm, Jakob, 2022, In: Microbiome. 10, 15 p., 106.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The maintenance and spread of cooperative antibiotic resistance
Wang, Q., 2022, Department of Biology, Faculty of Science, University of Copenhagen. 280 p.Research output: Book/Report › Ph.D. thesis › Research
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Gut microbiota in human adults with type 2 diabetes differs from non-diabetic adults
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Sequence and comparative analysis of Leuconostoc dairy bacteriophages
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Extreme emission of n2o from tropical wetland soil (pantanal, South America)
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Latest publications
Optimizing cleaning strategies for biofouling in reverse osmosis membrane systems: A comparative study using a self-formed instrument
Research output: Contribution to journal › Journal article › Research › peer-review
Interphylum dissemination of NDM-5-positive plasmids in hospital wastewater from Fuzhou, China: a single-centre, culture-independent, plasmid transmission study
Research output: Contribution to journal › Journal article › Research › peer-review
Using Nanopore Sequencing Deciphering Antibiotic Resistance Dissemination In The Wastewater Systems
Research output: Book/Report › Ph.D. thesis › Research