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Søren M. Karst
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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
4252015
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
3402014
MiDAS: the field guide to the microbes of activated sludge
SJ McIlroy, AM Saunders, M Albertsen, M Nierychlo, B McIlroy, ...
Database 2015, 2015
2622015
ampvis2: an R package to analyse and visualise 16S rRNA amplicon data
KS Andersen, RH Kirkegaard, SM Karst, M Albertsen
BioRxiv, 299537, 2018
2592018
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
2072015
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
1762017
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, 2017
1472017
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
1422018
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
1222017
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), 1-11, 2017
1212017
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
952013
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
932021
“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
762016
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), e01186-18, 2018
752018
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), 1-13, 2021
672021
Mmgenome: a toolbox for reproducible genome extraction from metagenomes
SM Karst, RH Kirkegaard, M Albertsen
BioRxiv, 059121, 2016
622016
Survival and activity of individual bioaugmentation strains
MS Dueholm, IG Marques, SM Karst, S D’Imperio, VP Tale, D Lewis, ...
Bioresource Technology 186, 192-199, 2015
572015
Genomic and in situ investigations of the novel uncultured Chloroflexi associated with 0092 morphotype filamentous bulking in activated sludge
SJ McIlroy, SM Karst, M Nierychlo, MS Dueholm, M Albertsen, ...
The ISME Journal 10 (9), 2223-2234, 2016
482016
Enabling 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, ...
BioRxiv, 645903, 2020
462020
Metagenomes from deep Baltic Sea sediments reveal how past and present environmental conditions determine microbial community composition
IPG Marshall, SM Karst, PH Nielsen, BB Jørgensen
Marine genomics 37, 58-68, 2018
412018
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