Metagenomic assemblies tend to break around antibiotic resistance genes.

ABSTRACT:

Background

Assembly of metagenomic samples can provide essential information about the mobility potential and taxonomic origin of antibiotic resistance genes (ARGs) and inform interventions to prevent further spread of resistant bacteria. However, similar to other conserved regions, such as ribosomal RNA genes and mobile genetic elements, almost identical ARGs typically occur in multiple genomic contexts across different species, representing a considerable challenge for the assembly process. Usually, this results in many fragmented contigs of unclear origin, complicating the risk assessment of ARG detections. To systematically investigate the impact of this issue on detection, quantification and contextualization of ARGs, we evaluated the performance of different assembly approach

SUBMITTER: Abramova A 

PROVIDER: S-EPMC11479545 | biostudies-literature | 2024 Oct

REPOSITORIES: biostudies-literature