Calum J. Walsh

This study characterizes microbial communities in southeastern Australian montane fens, revealing high diversity and unique taxa not found in other environments.

This study integrates multi-omic data from Staphylococcus aureus exposed to human serum to identify genetic factors critical for survival, revealing interconnected metabolic, iron transport, and stress response mechanisms.

This paper introduces an R-based workflow for integrating microbial multi-omics data, enabling analysis of transcriptomic, proteomic, and metabolomic datasets and generating pathway-level insights.

This study evaluates ozone nanobubbles for removing cyanobacteria and antimicrobial resistance genes in water systems, showing improved performance over conventional ozonation in drinking water but lower efficiency in treated wastewater.

This study evaluates the stability and viability of FMT products using metagenomic and culturomic analyses, showing high donor consistency and geographic specificity of gut microbiomes.

The paper isolates soil bacteria using diffusion chambers, screens for antibiotic activity, and combines mass spectrometry and genomics to identify known and novel antibiotics from Australian soil samples.

This paper reports the complete genome of Candidatus Paracoxiella cheracis, revealing insights into its pathogenesis and phylogeny within the Coxiellaceae family.

This paper introduces QMS-Seq, a high-throughput method to identify antibiotic resistance mutations in E. coli, revealing distinct mutation patterns for multi-drug and antibiotic-specific resistance.

FANGORN provides a quality-checked database of full-length 16S-ITS-23S rRNA operons to improve microbial community classification and phylogenetic analysis.

This paper develops a benchmark dataset for SARS-CoV-2 amplicon sequencing to improve genomic surveillance in resource-constrained labs, finding that basecaller choice has minimal impact on consensus quality.