Darren Heavens

This study uses airborne DNA metagenomics to monitor biodiversity across time and space, revealing seasonal and spatial shifts in species composition.

This study uses long-read metagenomics to analyze the microbiome and resistome in advanced chronic liver disease, identifying Enterococcus faecium dominance and resistance gene enrichment linked to disease severity.

This study develops a method to enrich microeukaryotes in human stool samples for shotgun sequencing, improving their representation and taxonomic diversity in metagenomic libraries.

MARTi provides real-time metagenomic analysis and visualization using open-source tools, supporting classification methods like BLAST and Kraken2 for taxonomic and AMR gene identification.

This study investigates how Arabidopsis arenosa adapts to serpentine soils by shaping its associated microbiome, identifying specific microbial variants linked to plant adaptation.

The paper evaluates nanopore sequencing and assembly improvements for Arabidopsis genome assembly and methylation analysis using a single MinION flow cell.

This paper presents a novel haplotype-specific assembly method to resolve the complex genome of Fragilariopsis cylindrus, revealing triploidy, aneuploidy, and sexual reproduction.

This paper demonstrates how adaptive sampling in nanopore sequencing can enrich low-abundance species in metagenomic samples, with efficiency improving with longer read lengths and a mathematical model to predict outcomes.

This paper demonstrates a low-input DNA extraction and library preparation method for nanopore sequencing, enabling rapid de novo genome assembly from minimal DNA samples.

The paper presents a low-cost genomic DNA extraction method for soil samples, which produces high-quality DNA suitable for amplicon sequencing and downstream applications at a lower cost than commercial kits.

The paper evaluates de novo genome assembly methods for a low-quality non-model mammal sample, finding that more data types do not always improve assembly quality.

Grass pea, a diploid legume with a 6.3 Gbp genome, gets two draft assemblies, one short-read and one Nanopore, plus 33,819 annotated genes.

The paper presents a high-quality genome assembly for the barley cultivar Golden Promise, useful for genetic research and CRISPR-Cas9 experiments.

This study uses nanopore sequencing to rapidly profile preterm infant gut microbiota, enabling pathogen detection and antimicrobial resistance profiling within one hour.

This paper introduces Grid-seq, a cost-effective spatial transcriptomics method for plants, and demonstrates its ability to detect immune responses in Arabidopsis thaliana to flagellin-22.

The paper generates a high-density crossover map in Arabidopsis thaliana to study how structural variants and epigenetic features influence meiotic crossover positioning.

The paper analyzes genomic and phylogenetic data of Salmonella Typhimurium and monophasic variants from Colombia to understand their population structure, evolution, and antibiotic resistance.

This paper compares genome assembly technologies for the potato species S. verrucosum, evaluating their completeness, accuracy, cost, and computational requirements.

The paper assesses and improves wheat genome assemblies using Fosill jumping libraries, finding that whole genome shotgun assemblies are more accurate than BAC-based ones.

The paper introduces a pipeline for generating high-quality genome assemblies from short read data, demonstrating its effectiveness on plant and human datasets.