Genome sequencing of Streptococcus suis from a rare infection resulting into endophthalmitis with bilateral deafness
DNA was extracted using the TIANamp Bacteria DNA Kit (DP302-02, Tiangen) and purified using AMPure XP beads (Beckman Coulter). The DNA concentration and fragment size were measured using the Qubit 3.0 (Thermo Scientific, USA) and Qsep100 Analyzer (BiOptic). Library preparation for Nanopore sequencing was performed using Ligation Sequencing 1D (SQK-LSK110 Oxford/Nanopore Technologies), according to the manufacturer's instructions. Approximately 1 g of DNA was treated with the NEBNext Ultra II End Repair and dA-Tailing Module (New England Biolabs, USA), then purified using 1 volume of AMPure XP beads. The AMX sequencing adapter was attached using Quick T4 DNA ligase (NEB). Each library was loaded onto an R9.4.1 flow cell (FLO-MIN106) and sequenced using the GridION. Basecalling was done using Guppy v6.3.9.