R. Gomi

Quinolone resistance genes qnr, aac(6')-Ib-cr, oqxAB, and qepA in environmental Escherichia coli: insights into their genetic contexts from comparative genomics

This study analyzes the genetic contexts of quinolone resistance genes in environmental E. coli using comparative genomics to identify mobile genetic elements and their chromosomal and plasmid locations.

Genomic surveillance of antimicrobial-resistant Escherichia coli in fecal sludge and sewage in Uganda

This study uses genomic surveillance of E. coli from Ugandan fecal sludge and sewage to track antimicrobial resistance patterns and identify key resistance determinants.

Development of two microbial source tracking markers for detection of wastewater-associated Escherichia coli isolates

This study identifies two microbial source tracking markers, W_nqrC and W_clsA_2, for detecting wastewater-associated E. coli isolates, showing higher performance than existing markers.

Chromosomal integration of blaCTX-M genes in diverse Escherichia coli isolates recovered from river water in Japan

This study characterizes the genetic contexts of blaCTX-M genes in environmental Escherichia coli isolates from river water in Japan, revealing diverse chromosomal and plasmid-associated configurations.

Emergence of rare carbapenemases (FRI, GES-5, IMI, SFC, and SFH-1) in Enterobacterales isolated from surface waters in Japan

This study identifies rare carbapenemases in environmental Enterobacterales from Japan, revealing their genetic contexts and plasmid locations.

Detection of plasmid contigs in draft genome assemblies using customized Kraken databases

This paper introduces a method using Kraken with a custom database to detect plasmid contigs in bacterial genome assemblies, showing improved performance over existing tools.