Rapid reconstruction of multidrug‐resistant bacterial genomes using CycloneSEQ nanopore sequencing
Year: 2025
Type: article
Abstract: Multidrug-resistant (MDR) bacteria commonly harbor highly complex genomes enriched with mobile elements and resistance islands, which are challenging to resolve using short-read sequencing. Here, we evaluated CycloneSEQ, a newly developed Chinese nanopore sequencing platform, for MDR genome reconstruction. Long-read-only assemblies generated near-complete genomes, while hybrid assemblies achieved accuracy exceeding 99.99%. CycloneSEQ effectively resolved complex structures, including tandem repeats within ARG-bearing regions. Notably, updated sequencing chemistry improved single-read accuracy to 96.2% and yielded assembled genomes with 99.98% accuracy. These results demonstrate that CycloneSEQ enables the generation of complete and highly accurate bacterial genomes, highlighting its potential for antimicrobial resistance research and clinical surveillance.
Source: iMetaOmics.
DOI: 10.1002/imo2.70060
Authors: Kai Peng, Zeyu Tong, Changan Li, Zhichao Li, Xin Lu, Cemil Kurekci, Mashkoor Mohsin, Zhiqiang Wang, Yong‐Xin Liu, Ruichao Li
Institutions: Yangzhou University, Chinese Center For Disease Control and Prevention, National Institute for Communicable Disease Control and Prevention, Dokuz Eylül University, Mustafa Kemal University, University of Agriculture Faisalabad, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Ministry of Agriculture and Rural Affairs
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: diamond
Awards: G1017424278, G83690573
OpenAlex ID: W4415556798