Casey R. J. Hubert

This study shows that removing rRNAs and tobamoviruses from wastewater metatranscriptomes improves detection of low-abundance viruses and pathogens.

This study uses genomic feature extraction and machine learning to identify environmental adaptations in prokaryotes, revealing gene and ncRNA associations with salinity, temperature, oxygen, and pH preferences.

The paper examines hydrocarbon-degrading microbial responses in deep-sea sediments to naphtha amendment, finding that seep sediments remove BTEX compounds more effectively than non-seep sediments.

The paper investigates how nutrient addition affects Arctic marine microbial communities in oil-spill microcosms, identifying novel bacteria potentially involved in hydrocarbon degradation.

The paper identifies denitrification genotypes in Bacillota using HMMs and genome-resolved metagenomics, finding complete denitrification potential in several MAGs and 17 genera.

CANT-HYD provides a database of HMMs for annotating hydrocarbon degradation marker genes, showing widespread metabolic potential and scalability in metagenomic analysis.