Jeremiah J. Minich

Whole-genome phylogenomics and synteny resolve a single origin of body-plan asymmetry in flatfishes

The paper uses whole-genome phylogenomic and synteny data to resolve the evolutionary origin of flatfish body asymmetry, finding strong support for a single origin.

Competition among freshwater clades explains cave colonization in blind cavefishes

The paper uses genomic data to determine whether flatfish asymmetry evolved once or multiple times, finding strong support for a single origin.

Detoxifying and depolymerizing microorganisms reveal intertwined guild collaborations in the gut microbiome of a generalist macro-algivorous fish

This study identifies microbial guilds in the gut microbiome of a fish that degrade macroalgal polysaccharides and polyphenols, revealing their temporal coordination and functional succession.

Soil depth determines the microbial communities in Sorghum bicolor fields

The paper investigates soil depth's effect on microbial communities in Sorghum bicolor fields, finding significant changes in composition and diversity with depth.

Generating high quality reference genomes from field collected specimens by optimizing preservation

The paper demonstrates that 95% ethanol preserves fish blood and plant tissue for high-quality genome assembly using Nanopore sequencing.

The Southern Bluefin Tuna mucosal microbiome is influenced by husbandry method, net pen location, and anti-parasite treatment

The paper examines how husbandry methods, net pen location, and anti-parasite treatment affect the mucosal microbiome of southern Bluefin Tuna.

Visualizing 'omic feature rankings and log-ratios using Qurro

The paper introduces Qurro, a tool for interactively visualizing feature rankings and log-ratios in compositional omics data to improve exploratory analysis.

Quantifying and understanding well-to-well contamination in microbiome research

This paper quantifies well-to-well contamination in microbiome studies, showing it occurs mainly during DNA extraction and affects low-biomass samples, with implications for data interpretation.