Daniel S. Read

This study characterizes river biofilm viromes across a national network, revealing seasonal structure, host associations, and metabolic functions linked to environmental variables.

This study compares short-read and long-read sequencing of 18S rRNA gene amplicons in river biofilms, showing that long-read sequencing improves taxonomic resolution while trimming can introduce mismatches.

The paper examines how soil pH influences bacterial niche breadth and genomic traits across UK soils, finding that low pH soils host specialized bacteria with streamlined genomes.

This study tracks soil microbiome recovery over 143 years, finding taxonomic contraction and functional expansion during long-term restoration.

This study shows that antimicrobial resistance increases with soil restoration age, indicating a mature microbiome rather than degradation.

This study assesses bacterial diversity and function in river biofilms across England, revealing taxonomic novelty and environmental drivers of community composition.

This study compares Illumina short-read and PacBio long-read sequencing for microbial diversity in river biofilms, finding that PacBio provides higher taxonomic resolution while both methods yield similar community structures.

The paper uses river biofilm bacterial communities to monitor freshwater ecosystem health by analyzing 16S rRNA gene sequences and identifying ecological thresholds.

This study evaluates soil eDNA sequencing for landscape-scale plant biodiversity assessment, finding comparable genus-level taxonomic resolution but lower sensitivity than field surveys.

The paper examines how soil properties, particularly pH, influence bacterial genomic traits in agricultural systems.

The paper investigates plasmid sharing among Enterobacterales in human infections, livestock, wastewater, and waterways in Oxfordshire, finding shared plasmid backbones and rapid accessory gene changes across niches.

The paper analyzes IncF plasmid diversity across environmental and livestock settings using network community analysis, revealing niche-driven partitioning and core gene-defined communities.

This study evaluates eDNA metabarcoding for detecting terrestrial mammals in pond water, finding uneven distribution in natural ponds and detection of species missed by other methods.

This study compares hybrid assemblies of bacterial genomes using Illumina and long-read sequencing technologies, finding that combining ONT and Illumina reads provides high-quality, low-cost genome reconstruction.

This study develops an eDNA qPCR assay for detecting crucian carp in UK ponds and evaluates its effectiveness compared to traditional methods.