Projects per year
Personal profile
Research profile
Our main interest is microbial consortia and to understand how they control the function of environmental and engineered systems. We study microbial diversity and functional traits from species to ecosystems including factors controlling community assembly and dynamics. We apply a range of complementary approaches from DNA-based community surveys, (meta)genomics, metabolic reconstruction, to the use of isotopes, confocal microscopy, and Raman microspectroscopy. Main focus areas:
- Microbial communities and key processes in wastewater treatment plants and resource recovery systems (MiDAS)
- Microbial extracellular biopolymers as recycled resources (REThiNk)
- Novel microbes, functions and biogeography in natural and engineered ecosystems (Microflora Danica)
Teaching profile
Course responsible for Environmental Biotechnology which is a 5 ECTS semester course for 7th-semester students on Biotechnology, Biology and Chemistry. Supervising semester group projects (15 ETCS) on 7th-semester Biotechnology within the theme Molecular Methods.
Keywords
- Environment
- Mikrobial communities (biofilm and consortia)
- Identification and characterization of culture-independent bacteria
- Adhesion of bacteria to surfaces, exopolymers
- Biological treatment of wastewater, drinking water and air
- Production of bioenergy (biogas), recovery of resources (phosphate)
- Development of new methods in microbial ecology (-omics methods, isotopes, single cell techniques)
- Biomedical Engineering
- Disease-causing Bacteria and Implants
- Chemistry and Bioscience
- Environmental biotechnology
- Microbiology
- Microbial communities
Fingerprint
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Collaborations from the last five years
Dive into details by clicking on the dots.
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CERO-MP: Cost Efficient Reduction of Micropollutants
Jørgensen, M. K., Nielsen, P. H. & Christensen, M. L.
01/01/2023 → 31/10/2025
Project: Research
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REThiNk: Recovery of extracellular polymers from wastewater treatment residuals as a new circular biopolymer (REThiNk)
Nielsen, P. H., Dueholm, M. K. D., Seviour, T., Van Loosdrecht, M. C. M., Hove Hansen, S., Riisgaard-Jensen, M., Vestergaard, S. Z., Liu, L., Daugberg, A. O. H. & Nierychlo, M. A.
01/09/2022 → 31/08/2027
Project: Research
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GLOMICAVE: Global omic data integration on animal, vegetal and environment sectors
Nielsen, P. H., Dueholm, M. K. D., Kondrotaite, Z., Petersen, J. F., Hove Hansen, S. & Nierychlo, M. A.
01/01/2021 → 31/05/2024
Project: Research
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Explainable AI for Complex Microbial Community Interactions and Predictions
Nielsen, P. H., Guo, C., Andersen, K. S. & Gomez, M. P.
01/01/2021 → 31/12/2024
Project: Research
Research output
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Deep learning based simulators for the phosphorus removal process control in wastewater treatment via deep reinforcement learning algorithms
Mohammadi, E., Stokholm-Bjerregaard, M., Hansen, A. A., Nielsen, P. H., Ortiz Arroyo, D. & Durdevic, P., Feb 2024, In: Engineering Applications of Artificial Intelligence. 133, 107992.Research output: Contribution to journal › Journal article › Research › peer-review
Open Access -
Global abundance patterns, diversity, and ecology of Patescibacteria in wastewater treatment plants
Hu, H., Kristensen, J. M., Herbold, C. W., Pjevac, P., Kitzinger, K., Hausmann, B., Dueholm, M. K. D., Nielsen, P. H. & Wagner, M., 16 Mar 2024, In: Microbiome. 12, 1, 55.Research output: Contribution to journal › Journal article › Research › peer-review
Open Access -
Microflora Danica: Investigation of the microbiome of Denmark with focus on wastewater and wastewater treatment plants
Vestergaard, S. Z., Dottorini, G., Gomez, M. P., Murguz, A., Dueholm, M. K. D., Nierychlo, M. A. & Nielsen, P. H., Jan 2024.Research output: Contribution to conference without publisher/journal › Conference abstract for conference › Research
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A comprehensive overview of the Chloroflexota community in wastewater treatment plants worldwide
Petriglieri, F., Kondrotaite, Z., Singleton, C. M., Nierychlo, M. A., Dueholm, M. K. D. & Nielsen, P. H., 21 Dec 2023, In: mSystems. 8, 6, e00667-23.Research output: Contribution to journal › Review article › peer-review
Open AccessFile -
Amplicon-guided isolation and cultivation of previously uncultured microbial species from activated sludge
Verhoeven, M., Nielsen, P. H. & Dueholm, M. K. D., 21 Dec 2023, In: Applied and Environmental Microbiology. 89, 12, e01151-23.Research output: Contribution to journal › Journal article › Research › peer-review
Open AccessFile
Datasets
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MOESM2 of Diversity of microbial carbohydrate-active enzymes in Danish anaerobic digesters fed with wastewater treatment sludge
Wilkens, C. (Creator), Busk, P. K. (Creator), Pilgaard, B. (Creator), Zhang, W. (Creator), Nielsen, K. L. (Creator), Nielsen, P. H. (Creator) & Lange, L. (Creator), Figshare, 22 Jun 2017
DOI: 10.6084/m9.figshare.c.3808579_d2.v1, https://springernature.figshare.com/articles/dataset/MOESM2_of_Diversity_of_microbial_carbohydrate-active_enzymes_in_Danish_anaerobic_digesters_fed_with_wastewater_treatment_sludge/5135923/1
Dataset
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MOESM5 of Diversity of microbial carbohydrate-active enzymes in Danish anaerobic digesters fed with wastewater treatment sludge
Wilkens, C. (Creator), Busk, P. K. (Creator), Pilgaard, B. (Creator), Zhang, W. (Creator), Nielsen, K. L. (Creator), Nielsen, P. H. (Creator) & Lange, L. (Creator), Figshare, 22 Jun 2017
DOI: 10.6084/m9.figshare.c.3808579_d5.v1, https://springernature.figshare.com/articles/dataset/MOESM5_of_Diversity_of_microbial_carbohydrate-active_enzymes_in_Danish_anaerobic_digesters_fed_with_wastewater_treatment_sludge/5135956/1
Dataset
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MOESM4 of Diversity of microbial carbohydrate-active enzymes in Danish anaerobic digesters fed with wastewater treatment sludge
Wilkens, C. (Creator), Busk, P. K. (Creator), Pilgaard, B. (Creator), Zhang, W. (Creator), Nielsen, K. L. (Creator), Nielsen, P. H. (Creator) & Lange, L. (Creator), Figshare, 22 Jun 2017
DOI: 10.6084/m9.figshare.c.3808579_d4.v1, https://springernature.figshare.com/articles/dataset/MOESM4_of_Diversity_of_microbial_carbohydrate-active_enzymes_in_Danish_anaerobic_digesters_fed_with_wastewater_treatment_sludge/5135947/1
Dataset
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MOESM1 of Diversity of microbial carbohydrate-active enzymes in Danish anaerobic digesters fed with wastewater treatment sludge
Wilkens, C. (Creator), Busk, P. K. (Creator), Pilgaard, B. (Creator), Zhang, W. (Creator), Nielsen, K. L. (Creator), Nielsen, P. H. (Creator) & Lange, L. (Creator), Figshare, 22 Jun 2017
DOI: 10.6084/m9.figshare.c.3808579_d1.v1, https://springernature.figshare.com/articles/dataset/MOESM1_of_Diversity_of_microbial_carbohydrate-active_enzymes_in_Danish_anaerobic_digesters_fed_with_wastewater_treatment_sludge/5135902/1
Dataset
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MOESM3 of Diversity of microbial carbohydrate-active enzymes in Danish anaerobic digesters fed with wastewater treatment sludge
Wilkens, C. (Creator), Busk, P. K. (Creator), Pilgaard, B. (Creator), Zhang, W. (Creator), Nielsen, K. L. (Creator), Nielsen, P. H. (Creator) & Lange, L. (Creator), Figshare, 22 Jun 2017
DOI: 10.6084/m9.figshare.c.3808579_d3.v1, https://springernature.figshare.com/articles/dataset/MOESM3_of_Diversity_of_microbial_carbohydrate-active_enzymes_in_Danish_anaerobic_digesters_fed_with_wastewater_treatment_sludge/5135938/1
Dataset
Prizes
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Clarivate Highly Cited Researchers
Nielsen, Per Halkjær (Recipient), 2023
Prize: Research, education and innovation prizes
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Clarivate Highly Cited Researchers
Nielsen, Per Halkjær (Recipient), 2022
Prize: Research, education and innovation prizes
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Ardern-Lockett Award, IWA/MEWE
Nielsen, Per Halkjær (Recipient), 2021
Prize: Research, education and innovation prizes
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Clarivate Highly Cited Researcher
Nielsen, Per Halkjær (Recipient), 2021
Prize: Research, education and innovation prizes
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Vandmiljøprisen
Nielsen, Per Halkjær (Recipient), 2020
Prize: Research, education and innovation prizes
Activities
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MAGnifying biogas production efficiency: high-quality metagenome-assembled genome recovery in anaerobic digesters reveals abundant novel populations with key functional roles
Caitlin Margaret Singleton (Speaker), Chenjing Jiang (Other), Lei Liu (Other), Rasmus Hansen Kirkegaard (Other), Morten Kam Dahl Dueholm (Other) & Per Halkjær Nielsen (Other)
12 Sept 2023Activity: Talks and presentations › Conference presentations
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Co-founder and partner of DNAsense ApS
Per Halkjær Nielsen (Consultant)
2014 → 2024Activity: Public/private sector consultancy and other employment › Starting your own company
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Advances and applications of FISHtechnology: environmental, drinking water and foodstuff analysis
Per Halkjær Nielsen (Speaker)
10 Dec 2007 → 11 Dec 2007Activity: Talks and presentations › Talks and presentations in private or public companies
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Conference on "Water" (Vandmiljø), IDAmiljø
Per Halkjær Nielsen (Speaker)
6 Nov 2007 → 7 Nov 2007Activity: Talks and presentations › Talks and presentations in private or public companies
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Sustainable Processes and Products, Danish Biotechnological Society
Per Halkjær Nielsen (Speaker)
4 Oct 2007Activity: Talks and presentations › Talks and presentations in private or public companies
Press/Media
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DNASense ApS Acquired by Clinical Microbiomics
Mads Albertsen & Per Halkjær Nielsen
04/03/2024
1 item of Media coverage
Press/Media: Press / Media
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337 mio. kr. til forskning, der skal hjælpe med at løse store samfundsudfordringer
08/08/2022
1 item of Media coverage
Press/Media: Press / Media
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SSI kaldte den ”et centralt redskab i epidemiovervågningen” - men så halverede de den
05/08/2022 → 05/08/2022
3 items of Media coverage
Press/Media: Press / Media
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337 millioner kroner til forskning, der skal hjælpe med at løse store samfundsudfordringer
28/06/2022 → 30/06/2022
4 items of Media coverage
Press/Media: Press / Media
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Sådan sekventerer man gener fra bakterier, virus og mennesker
Vibeke Rudkjøbing Jørgensen, Mads Albertsen & Per Halkjær Nielsen
20/05/2022
1 item of Media coverage
Press/Media: Press / Media