Enterococcus faecalis genome sequences_nanopore sequencing

Genome sequences of Enterococcus faecalis strains V583 and B1 used in Kapitan et al. doi: 10.1101/2024.09.11.612452, generated by nanopore sequencing Bacterial DNA Isolation and Whole Genome Sequencing:Genomic DNA was isolated using the Qiagen Genomic-tip 100/G or DNeasy Blood & Tissue Kit according to the manual for gram positive bacteria. Sequencing was conducted using the Nanopore sequencing technology (ONT). Bacterial DNA was isolated using the The ZymoBIOMICS DNA Miniprep Kit for long read sequencing. 1 µg size-selected DNA was used with the SQK-LSK114 kit (Oxford Nanopore Technologies, Oxford, UK) to prepare the sequencing library. Reads of the samples were basecalled using Dorado (v7.3.11) (Oxford Nanopore Technologies) using the high super accuracy basecalling model. The basecalled reads were assembled and polished using Flye (v2.9.3), Medaka (v1.11.3), and Racon (v1.4.20). EF583 refers to strain V583 EF014367 refers to strain B1