| Back to basics–the influence of DNA extraction and primer choice on phylogenetic analysis of activated sludge communities M Albertsen, SM Karst, AS Ziegler, RH Kirkegaard, PH Nielsen PloS one 10 (7), e0132783, 2015 | 560 | 2015 |
| ampvis2: an R package to analyse and visualise 16S rRNA amplicon data KS Andersen, RH Kirkegaard, SM Karst, M Albertsen BioRxiv, 299537, 2018 | 538 | 2018 |
| Low temperature partial nitritation/anammox in a moving bed biofilm reactor treating low strength wastewater EM Gilbert, S Agrawal, SM Karst, H Horn, PH Nielsen, S Lackner Environmental science & technology 48 (15), 8784-8792, 2014 | 438 | 2014 |
| High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing SM Karst, RM Ziels, RH Kirkegaard, EA Sørensen, D McDonald, Q Zhu, ... Nature methods 18 (2), 165-169, 2021 | 336 | 2021 |
| MiDAS: the field guide to the microbes of activated sludge SJ McIlroy, AM Saunders, M Albertsen, M Nierychlo, B McIlroy, ... Database 2015, bav062, 2015 | 313 | 2015 |
| Oxford Nanopore R10. 4 long-read sequencing enables the generation of near-finished bacterial genomes from pure cultures and metagenomes without short-read or reference polishing M Sereika, RH Kirkegaard, SM Karst, TY Michaelsen, EA Sørensen, ... Nature methods 19 (7), 823-826, 2022 | 311 | 2022 |
| Cyanate as an energy source for nitrifiers M Palatinszky, C Herbold, N Jehmlich, M Pogoda, P Han, M von Bergen, ... Nature 524 (7563), 105-108, 2015 | 283 | 2015 |
| A critical assessment of the microorganisms proposed to be important to enhanced biological phosphorus removal in full-scale wastewater treatment systems M Stokholm-Bjerregaard, SJ McIlroy, M Nierychlo, SM Karst, M Albertsen, ... Frontiers in microbiology 8, 718, 2017 | 267 | 2017 |
| Connecting structure to function with the recovery of over 1000 high-quality metagenome-assembled genomes from activated sludge using long-read sequencing CM Singleton, F Petriglieri, JM Kristensen, RH Kirkegaard, TY Michaelsen, ... Nature communications 12 (1), 2009, 2021 | 234 | 2021 |
| Retrieval of a million high-quality, full-length microbial 16S and 18S rRNA gene sequences without primer bias SM Karst, MS Dueholm, SJ McIlroy, RH Kirkegaard, PH Nielsen, ... Nature biotechnology 36 (2), 190-195, 2018 | 197 | 2018 |
| Culture-independent analyses reveal novel anaerolineaceae as abundant primary fermenters in anaerobic digesters treating waste activated sludge SJ McIlroy, RH Kirkegaard, MS Dueholm, E Fernando, SM Karst, ... Frontiers in microbiology 8, 1134, 2017 | 196 | 2017 |
| MiDAS 2.0: an ecosystem-specific taxonomy and online database for the organisms of wastewater treatment systems expanded for anaerobic digester groups SJ McIlroy, RH Kirkegaard, B McIlroy, M Nierychlo, JM Kristensen, ... Database 2017, bax016, 2017 | 178 | 2017 |
| The impact of immigration on microbial community composition in full-scale anaerobic digesters RH Kirkegaard, SJ McIlroy, JM Kristensen, M Nierychlo, SM Karst, ... Scientific reports 7 (1), 9343, 2017 | 172 | 2017 |
| Greengenes2 unifies microbial data in a single reference tree D McDonald, Y Jiang, M Balaban, K Cantrell, Q Zhu, A Gonzalez, ... Nature biotechnology 42 (5), 715-718, 2024 | 133 | 2024 |
| “Candidatus Propionivibrio aalborgensis”: A Novel Glycogen Accumulating Organism Abundant in Full-Scale Enhanced Biological Phosphorus Removal Plants M Albertsen, SJ McIlroy, M Stokholm-Bjerregaard, SM Karst, PH Nielsen Frontiers in Microbiology 7, 1033, 2016 | 124 | 2016 |
| Characterization of the First “Candidatus Nitrotoga” Isolate Reveals Metabolic Versatility and Separate Evolution of Widespread Nitrite-Oxidizing Bacteria K Kitzinger, H Koch, S Lücker, CJ Sedlacek, C Herbold, J Schwarz, ... MBio 9 (4), 10.1128/mbio. 01186-18, 2018 | 123* | 2018 |
| Metabolic model for the filamentous ‘Candidatus Microthrix parvicella’ based on genomic and metagenomic analyses S Jon McIlroy, R Kristiansen, M Albertsen, S Michael Karst, S Rossetti, ... The ISME journal 7 (6), 1161-1172, 2013 | 114 | 2013 |
| Generation of comprehensive ecosystem-specific reference databases with species-level resolution by high-throughput full-length 16S rRNA gene sequencing and automated taxonomy … MS Dueholm, KS Andersen, SJ McIlroy, JM Kristensen, E Yashiro, ... MBio 11 (5), 10.1128/mbio. 01557-20, 2020 | 94 | 2020 |
| Standardized multi-omics of Earth’s microbiomes reveals microbial and metabolite diversity JP Shaffer, LF Nothias, LR Thompson, JG Sanders, RA Salido, ... Nature Microbiology 7 (12), 2128-2150, 2022 | 84 | 2022 |
| Mmgenome: a toolbox for reproducible genome extraction from metagenomes SM Karst, RH Kirkegaard, M Albertsen BioRxiv, 059121, 2016 | 78 | 2016 |
