P. H. Nielsen

The paper expands the MiDAS database with global anaerobic digester microbiome data, revealing environmental influences on microbial communities and identifying core taxa.

This paper introduces an experimental method to isolate previously uncultured microbial species from activated sludge using 16S rRNA gene amplicon sequencing, resulting in the cultivation of 102 strains from 200 colonies.

This study characterizes Chloroflexota in wastewater treatment plants globally, identifying novel taxa and their ecological roles in carbon and nutrient cycling.

This study investigates how microbial selection influences extracellular polymeric substance (EPS) production in granular sludge, showing that slow-growing organisms enhance granulation and EPS formation.

The paper sequenced closed genomes of cable bacteria, identifying a new species in brackish water and suggesting it bridges marine and freshwater lineages.

The paper examines microbial diversity signatures in lab-scale and full-scale phosphorus removal communities across multiple phylogenetic scales.

This paper re-evaluates the phylogeny and taxonomy of Candidatus Accumulibacter using genome, ppk1, and 16S rRNA gene data, identifying 15 new species and confirming PAO metabolism across all species.

The paper constructs MiDAS 4, a comprehensive 16S rRNA gene reference database for wastewater treatment plants, improving classification accuracy and revealing microbial community patterns globally.

This study characterizes the microbial communities in 46 anaerobic digesters over six years, identifying key drivers shaping microbiome structure and highlighting the role of immigration in bacterial diversity.

The paper uses long-read sequencing to recover over 1000 high-quality MAGs from wastewater treatment plants, enabling linkage of microbial community structure to function.

This study demonstrates that enhanced biological phosphorus removal (EBPR) can be stable at 35°C in lab-scale reactors, with nearly complete phosphorus removal and diverse PAO communities.

This study quantifies different phosphorus fractions in activated sludge from EBPR plants using multiple analytical techniques and finds that polyphosphate constitutes a significant portion of total phosphorus, primarily stored in known polyphosphate-accumulating organisms.

The paper identifies two novel polyphosphate accumulating organisms in wastewater treatment systems using metagenomics and FISH-Raman techniques, confirming their role in phosphorus removal.

The paper develops and evaluates new highly specific 16S rRNA-targeted oligonucleotide probes for accurate detection and differentiation of ammonia-oxidizing bacteria in environmental samples.

This study identifies haloalkalitolerant Nitrospira species in extreme pH lakes, revealing their diversity and adaptive traits for nitrite oxidation at high pH.

The paper generates ecosystem-specific 16S rRNA gene reference databases with high-identity sequences and introduces AutoTax for automated taxonomy assignment, improving classification accuracy for microbial communities.

The paper introduces MiDAS 3, a 16S rRNA gene reference database for activated sludge and anaerobic digesters, and updates the MiDAS Field Guide with species-level taxonomy and functional information.

This study investigates how Tetrasphaera elongata adapts to aerobic-anoxic shifts in wastewater treatment plants using proteomics and metabolomics, revealing efficient substrate utilization and pre-existing anaerobic pathways.

This paper characterizes a thaumarchaeal symbiont in the sponge Ianthella basta, showing it is the sole ammonia-oxidizer and reveals adaptations for a mixotrophic lifestyle.

This study develops a single-cell approach to quantify microbial contributions to phosphorus removal in wastewater treatment plants and identifies Tetrasphaera as a key player in some systems.

This study identifies key Chloroflexi genera in wastewater treatment plants and their ecological roles, showing some contribute to bulking while others are structurally important.

The paper identifies a novel Acetothermia bacterium from anaerobic digesters, characterizes its genome and metabolism, and proposes a role for its unique prosthecae in nutrient uptake.

The paper identifies novel Acidobacteria in peatlands with sulfur metabolism capabilities, including both sulfate respiration and sulfur oxidation, and highlights their ecological roles in organic matter decomposition.

The paper identifies abundant and active microorganisms in full-scale anaerobic digesters by analyzing microbial communities over six years using 16S rRNA sequencing.