This study tests nanopore sequencing with adaptive sampling to enrich for antimicrobial resistance genes in a mock environmental community, finding 4x higher target composition with adaptive sampling.

Gigabyte · Dec 11, 2023Peer-reviewedBioinformatics

A repeat pattern of founder events for SARS-CoV-2 variants in Alaska

Tracie J. Haan, Lisa Smith, Stephanie DeRonde, Elva House, Jacob Zidek, Diana Puhak, Logan J. Mullen, Matthew Redlinger, Jayme Parker, Brian M. Barnes, Jason L. Burkhead, Cindy Knall, Eric Bortz, Jack Chen, Devin M. Drown

The paper analyzes SARS-CoV-2 variant dynamics in Alaska, finding BA.2.3 overtook BA.1.1 more rapidly than in the contiguous US, suggesting founder events influenced by Alaska's unique geography and population structure.

Viruses · Jan 13, 2023Peer-reviewedGenetic & Genomic Medicine

Accuracy and completeness of long read metagenomic assemblies

Jeremy Buttler, Devin M. Drown

This study benchmarks three long-read metagenomic assemblers using a bacterial community, finding Flye most robust and effective for plasmid assembly.

Microorganisms · Dec 30, 2022Peer-reviewedBioinformatics