Per Halkjær Nielsen

A Saccharimonadia epibiont interacts with the polyphosphate-accumulating bacterium Candidatus Phosphoribacter in wastewater treatment plants

The paper identifies a novel Saccharimonadia genus associated with a polyphosphate-accumulating bacterium in wastewater treatment plants and explores their ecological and metabolic interactions.

The MiDAS global genome catalog: 53,501 long-read MAGs representing all core prokaryotic genera in the global activated sludge microbiome

The paper constructs a global genome catalog of 53,501 long-read MAGs from activated sludge, representing 12,047 prokaryotic species and enabling analysis of functional traits and ecological roles in wastewater treatment systems.

From soil to sea: unravelling the metabolic versatility and social dynamics of Myxococcota bacteria from different Danish environments

The paper investigates the distribution, diversity, and metabolic potential of Myxococcota bacteria across Danish environments using metagenomic data, revealing their ecological roles and biotechnological potential.

Ecological specificity and interconnectivity in Danish environmental resistomes

This study characterizes the Danish environmental resistome across 7,000 samples, identifying core and habitat-specific ARGs and their connectivity across ecosystems.

Nanopore sequencing reaches amplicon sequence variant (ASV) resolution

This study shows that Oxford Nanopore Technologies can generate amplicon sequence variants (ASVs) directly from raw reads, enabling high-resolution microbial community profiling without reliance on reference databases.

A national baseline for methane sink habitats and methanotroph diversity

The paper presents a national study of methanotroph diversity and distribution in Denmark, revealing uncharacterised species as dominant in natural ecosystems and highlighting potential targets for methane mitigation.

epsSMASH uncovers exopolysaccharide biosynthetic gene clusters in environmental and human microbiomes

epsSMASH identifies exopolysaccharide biosynthetic gene clusters in environmental and human microbiomes, revealing widespread uncharacterized clusters.

Microflora Danica: the atlas of Danish environmental microbiomes

Microflora Danica compiles 10,686 shotgun metagenomes and 449 rRNA datasets to create an atlas of Danish environmental microbiomes, revealing hidden homogeneity and novel nitrifiers.

Recovery of highly contiguous genomes from complex terrestrial habitats reveals over 15,000 novel prokaryotic species and expands characterization of soil and sediment microbial communities

This study uses long-read sequencing and optimized bioinformatics to recover high-quality microbial genomes from soil and sediment samples, revealing over 15,000 novel prokaryotic species and expanding microbial community characterization.

Proposal of Patescibacterium danicum gen. nov., sp. nov. in the ubiquitous ultrasmall bacterial phylum Patescibacteriota phyl. nov.

This paper proposes a new genus and species, Patescibacterium danicum, to provide nomenclatural stability for the phylum Ca. Patescibacteria.

CRISPR-Cas phage defense systems and prophages in Candidatus Accumulibacter

This study systematically analyzes CRISPR-Cas systems and prophages in Candidatus Accumulibacter, revealing their role in phage resistance and adaptation across different taxa and environments.