Oxford nanopore long-read sequencing enables the generation of complete bacterial and plasmid genomes without short-read sequencing

W Zhao, W Zeng, B Pang, M Luo, Y Peng, J Xu… - Frontiers in …, 2023 - frontiersin.org
Introduction Genome-based analysis is crucial in monitoring antibiotic-resistant bacteria
(ARB) and antibiotic-resistance genes (ARGs). Short-read sequencing is typically used to …

Advances of high-throughput sequencing for unraveling biotechnological potential of microalgal-bacterial communities

PA Zaytsev, VA Rodin, AA Zaytseva, MI Zvereva… - Journal of Applied …, 2024 - Springer
Although established biotechnological applications of microalgae eg, the production of high-
value metabolites is based on axenic cultures, exploitation of the mutualistic consortia of …

PlasCAT: Plasmid cloud assembly tool

S Peccoud, CT Berezin, SI Hernandez… - …, 2024 - academic.oup.com
Abstract Summary PlasCAT (Plasmid Cloud Assembly Tool) is an easy-to-use cloud-based
bioinformatics tool that enables de novo plasmid sequence assembly from raw sequencing …

Direct Determination of the Structure of Single Biopolymer Molecules Using Nanopore Sequencing

AK Berkovich, OA Pyshkina, AA Zorina, VA Rodin… - Biochemistry …, 2024 - Springer
This review highlights operational principles, features, and modern aspects of the
development of third-generation sequencing technology of biopolymers focusing on the …

[HTML][HTML] Hybrid sequencing facilitates robust de novo plasmid assembly

SI Hernandez, CT Berezin, KM Miller, SJ Peccoud… - bioRxiv, 2024 - ncbi.nlm.nih.gov
Despite the wide use of plasmids in research and clinical production, the verification of
plasmid sequences is a bottleneck that is too often overlooked in the manufacturing process …

Displacement of Hospital-Acquired, Methicillin-Resistant Staphylococcus aureus Clones by Heterogeneous Community Strains in Kenya over a 13-Year Period

J Nyasinga, Z Munshi, C Kigen, A Nyerere, L Musila… - Microorganisms, 2024 - mdpi.com
We determined antibiotic susceptibility and employed Oxford Nanopore whole-genome
sequencing to explore strain diversity, resistance, and virulence gene carriage among …

Genome Sequencing Unveils Nomadic Traits of Lactiplantibacillus plantarum in Japanese Post-Fermented Tea

K Sato, Y Ikagawa, R Niwa, H Nishioka, M Horie… - Current …, 2024 - Springer
Post-fermented tea production involving microbial fermentation is limited to a few regions,
such as Southeast Asia and Japan, with Japan's Shikoku island being particularly …

Genome Sequence of the Endosymbiont Endozoicomonas sp. Strain GU-1 (Gammaproteobacteria), Isolated from the Staghorn Coral Acropora pulchra (Cnidaria …

P De la Vega, GG Shimpi… - Microbiology Resource …, 2023 - Am Soc Microbiol
Endozoicomonas sp. strain GU-1 was isolated from two separate staghorn coral (Acropora
pulchra) colonies collected in Guam, Micronesia. Both isolates were grown in marine broth …

Sequencing Strategy to Ensure Accurate Plasmid Assembly

SI Hernandez, CT Berezin, KM Miller, SJ Peccoud… - bioRxiv, 2024 - biorxiv.org
Despite the wide use of plasmids in research and clinical production, the verification of
plasmid sequences is a bottleneck that is too often overlooked in the manufacturing process …

Complete genome sequence of Brachybacterium sp. GU-2 (Actinomycetota), isolated from the massive coral Porites lobata

GG Shimpi, P De la Vega… - Microbiology Resource …, 2024 - Am Soc Microbiol
Brachybacterium sp. GU-2 was isolated from the hard coral Porites lobata found in Apra
Harbor, Guam, Micronesia. This genome sequence will be beneficial to understand the role …